Pierrick Roger
| Snapshot Date: 2024-11-08 13:40 -0500 (Fri, 08 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: RELEASE_3_20 |
| git_last_commit: e6b963e |
| git_last_commit_date: 2024-10-29 11:04:35 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-11-09 21:30 -0500 (Sat, 09 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4505 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4506 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4538 |
| kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4486 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4493 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 202/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.12.0 (landing page) Pierrick Roger
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the biodbChebi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbChebi |
| Version: 1.12.0 |
| 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_1.12.0.tar.gz |
| StartedAt: 2024-11-08 21:21:37 -0500 (Fri, 08 Nov 2024) |
| EndedAt: 2024-11-08 21:25:47 -0500 (Fri, 08 Nov 2024) |
| EllapsedTime: 250.4 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_1.12.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking 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/4.4-arm64/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 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-11-08 21:25:38.338][biodb::testContext]
biodb.INFO [2024-11-08 21:25:38.340][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-08 21:25:38.340][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-11-08 21:25:38.340][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-08 21:25:38.340][biodb::testContext]
biodb.INFO [2024-11-08 21:25:38.343][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-08 21:25:38.344][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-08 21:25:38.346][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:38.347][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-08 21:25:38.347][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-08 21:25:38.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.348][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-08 21:25:38.353][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-08 21:25:38.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.355][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-08 21:25:38.355][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-08 21:25:38.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.356][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-08 21:25:38.356][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-08 21:25:38.356][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-08 21:25:38.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.361][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-08 21:25:38.362][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-08 21:25:38.362][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-08 21:25:38.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.363][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-08 21:25:38.363][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-08 21:25:38.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.364][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-08 21:25:38.364][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-08 21:25:38.364][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-08 21:25:38.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.365][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-08 21:25:38.365][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-08 21:25:38.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.366][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-08 21:25:38.366][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-08 21:25:38.367][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-08 21:25:38.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.367][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-08 21:25:38.368][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-08 21:25:38.368][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-08 21:25:38.368][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-08 21:25:38.368][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-08 21:25:38.369][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-08 21:25:38.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.369][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-08 21:25:38.370][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-08 21:25:38.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.370][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-08 21:25:38.371][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-08 21:25:38.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.371][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-08 21:25:38.372][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-08 21:25:38.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.373][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-08 21:25:38.373][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-08 21:25:38.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.374][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-08 21:25:38.374][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-08 21:25:38.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.375][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-08 21:25:38.375][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-08 21:25:38.380][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-08 21:25:38.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.382][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-08 21:25:38.382][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-08 21:25:38.382][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-08 21:25:38.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.385][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-08 21:25:38.396][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.401][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-08 21:25:38.401][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.401][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:38.402][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.402][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.402][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.402][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.403][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-08 21:25:38.403][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:38.403][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.403][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-08 21:25:38.404][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:38.404][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.404][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.404][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:38.404][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:38.404][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:38.404][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-08 21:25:38.404][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-08 21:25:38.405][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:38.405][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:38.405][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:38.405][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:38.406][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:38.406][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:38.406][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.406][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.406][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:38.407][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:38.407][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.407][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.407][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-08 21:25:38.408][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.408][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-08 21:25:38.408][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.409][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:38.409][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.409][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.409][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.410][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.410][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-08 21:25:38.410][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:38.410][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.411][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-08 21:25:38.411][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:38.411][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.411][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.412][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:38.412][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:38.412][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:38.412][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-08 21:25:38.412][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-08 21:25:38.412][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:38.412][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:38.412][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:38.413][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:38.413][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:38.413][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:38.413][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.413][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.414][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:38.414][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:38.414][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.414][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.415][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-08 21:25:38.415][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.415][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-08 21:25:38.416][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.416][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:38.416][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.416][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.417][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.417][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.417][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-08 21:25:38.420][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:38.420][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.420][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-08 21:25:38.421][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:38.421][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.421][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.421][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.422][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:38.422][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:38.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:38.422][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:38.423][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:38.423][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:38.423][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.423][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.423][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:38.424][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:38.424][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.424][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.424][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-08 21:25:38.425][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.425][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-08 21:25:38.425][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.426][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:38.426][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.426][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.426][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.427][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.427][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-08 21:25:38.427][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:38.427][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.428][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-08 21:25:38.428][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:38.428][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.428][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.429][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.429][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:38.429][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:38.429][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:38.429][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:38.430][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:38.430][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:38.430][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.430][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.431][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:38.431][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:38.431][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.431][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:38.433][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:38.433][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.433][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[2024-11-08 21:25:38.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.442][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[2024-11-08 21:25:38.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.446][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[2024-11-08 21:25:38.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.449][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[2024-11-08 21:25:38.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.451][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[2024-11-08 21:25:38.451][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-08 21:25:38.453][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-08 21:25:38.454][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-08 21:25:38.454][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-08 21:25:38.454][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-08 21:25:38.455][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-08 21:25:38.455][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-08 21:25:38.455][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-08 21:25:38.456][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-08 21:25:38.456][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-08 21:25:38.456][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-08 21:25:38.457][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-08 21:25:38.457][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-08 21:25:38.457][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-08 21:25:38.458][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-08 21:25:38.458][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-08 21:25:38.458][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-08 21:25:38.459][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-08 21:25:38.459][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-08 21:25:38.459][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-08 21:25:38.460][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-08 21:25:38.460][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-08 21:25:38.460][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-08 21:25:38.461][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-08 21:25:38.461][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-08 21:25:38.461][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-08 21:25:38.462][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-08 21:25:38.462][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-08 21:25:38.462][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-08 21:25:38.463][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-08 21:25:38.463][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-08 21:25:38.463][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-08 21:25:38.464][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-08 21:25:38.464][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-08 21:25:38.464][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-08 21:25:38.465][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-08 21:25:38.465][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-08 21:25:38.465][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-08 21:25:38.466][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-08 21:25:38.466][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-08 21:25:38.466][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-08 21:25:38.467][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-08 21:25:38.467][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-08 21:25:38.467][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-08 21:25:38.470][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-08 21:25:38.470][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-08 21:25:38.470][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-08 21:25:38.471][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-08 21:25:38.471][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-08 21:25:38.471][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-08 21:25:38.472][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-08 21:25:38.472][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-08 21:25:38.472][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-08 21:25:38.473][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-08 21:25:38.473][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-08 21:25:38.473][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-08 21:25:38.474][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-08 21:25:38.474][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-08 21:25:38.474][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-08 21:25:38.475][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-08 21:25:38.475][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-08 21:25:38.475][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-08 21:25:38.476][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-08 21:25:38.476][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-08 21:25:38.476][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-08 21:25:38.477][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-08 21:25:38.477][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-08 21:25:38.477][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-08 21:25:38.478][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-08 21:25:38.478][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-08 21:25:38.478][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-08 21:25:38.479][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-08 21:25:38.479][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-08 21:25:38.479][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-08 21:25:38.480][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-08 21:25:38.480][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-08 21:25:38.480][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-08 21:25:38.481][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-08 21:25:38.481][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-08 21:25:38.481][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-08 21:25:38.482][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-08 21:25:38.482][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-08 21:25:38.482][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-08 21:25:38.484][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-08 21:25:38.484][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-08 21:25:38.486][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:38.486][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.486][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.489][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.DEBUG[2024-11-08 21:25:38.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.491][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[2024-11-08 21:25:38.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.492][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[2024-11-08 21:25:38.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.495][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[2024-11-08 21:25:38.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.499][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[2024-11-08 21:25:38.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.503][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[2024-11-08 21:25:38.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.507][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[2024-11-08 21:25:38.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:38.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:38.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.512][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[2024-11-08 21:25:38.512][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-11-08 21:25:38.517][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-11-08 21:25:38.517][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.517][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.518][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.518][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:38.518][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.518][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.519][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.519][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-11-08 21:25:38.519][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-08 21:25:38.519][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-11-08 21:25:38.520][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-11-08 21:25:38.521][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:38.521][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:38.521][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:38.521][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:38.521][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-08 21:25:38.521][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:38.521][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:38.522][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:38.522][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:38.522][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:38.522][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:38.523][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-08 21:25:38.523][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-11-08 21:25:38.523][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:38.523][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:38.523][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:38.523][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-11-08 21:25:38.523][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-11-08 21:25:38.525][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-08 21:25:38.526][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-08 21:25:38.526][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-11-08 21:25:38.526][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-08 21:25:38.527][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-08 21:25:38.527][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-08 21:25:38.536][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-11-08 21:25:38.536][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-11-08 21:25:38.538][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-11-08 21:25:38.540][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-11-08 21:25:38.541][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-08 21:25:38.541][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-08 21:25:38.542][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-11-08 21:25:38.542][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-11-08 21:25:38.546][biodb::testThat]
biodb.INFO [2024-11-08 21:25:38.546][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-11-08 21:25:38.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:38.546][biodb::testThat]
biodb.TRACE[2024-11-08 21:25:38.548][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-11-08 21:25:38.549][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:38.550][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:38.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:38.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:38.563][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.563][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.564][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.569][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:38.569][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:38.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.569][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.577][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:38.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:38.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.578][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:38.578][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:38.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.578][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.579][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:38.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:38.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.580][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.583][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.584][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.585][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.585][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.586][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.587][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.587][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.588][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.588][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.589][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:38.589][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.590][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.590][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:38.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.591][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.591][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.592][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.593][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.593][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.594][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.594][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.595][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:38.595][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.596][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.596][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:38.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.597][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:38.597][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:38.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.598][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.598][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:38.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:38.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:38.617][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-11-08 21:25:38.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.619][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.643][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.644][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.644][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-08 21:25:38.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-08 21:25:38.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.645][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-08 21:25:38.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-08 21:25:38.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.674][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.674][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.683][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.683][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.684][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.688][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.690][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.690][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.691][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.694][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:38.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:38.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.695][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:38.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:38.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:38.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:38.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.697][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:38.697][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:38.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.697][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:38.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:38.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.704][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.704][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.704][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.710][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.711][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.711][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.714][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:38.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:38.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.715][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:38.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:38.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.716][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:38.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:38.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.719][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:38.719][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:38.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.720][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.720][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:38.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:38.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.723][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.724][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.725][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.726][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.726][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.726][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.727][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.730][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.731][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.732][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.733][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.733][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.733][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.733][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.736][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:38.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:38.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.737][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:38.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:38.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.738][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:38.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:38.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.739][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:38.740][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:38.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.740][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.740][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:38.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:38.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.744][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.746][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.746][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.747][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.747][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.753][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.753][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.753][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.757][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.757][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.757][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.760][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:38.761][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:38.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.761][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.762][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:38.763][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:38.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.763][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.764][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.765][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.765][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.766][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.767][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.767][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.768][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.769][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.769][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.770][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.771][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.771][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.772][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.773][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.773][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.774][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.775][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.775][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.776][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.777][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.777][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.778][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:38.779][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:38.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.779][ef$get] fields variable is a list.
biodb.INFO [2024-11-08 21:25:38.781][biodb::testThat]
biodb.INFO [2024-11-08 21:25:38.781][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-11-08 21:25:38.782][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:38.782][biodb::testThat]
biodb.DEBUG[2024-11-08 21:25:38.786][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-11-08 21:25:38.789][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:38.790][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-11-08 21:25:38.790][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:38.791][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-11-08 21:25:38.791][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:38.798][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:38.798][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:38.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:38.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:38.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:38.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:38.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:38.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:38.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:38.802][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.802][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.803][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.810][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:38.811][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:38.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.811][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.811][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:38.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.812][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:38.813][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:38.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.813][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.813][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:38.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:38.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.814][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.815][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.815][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.816][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.817][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.817][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.818][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.819][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.819][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.819][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:38.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.820][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:38.820][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.821][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.821][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:38.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.822][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.822][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.823][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.824][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.824][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.825][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.826][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:38.826][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.827][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:38.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:38.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.828][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:38.828][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:38.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.829][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.829][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:38.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:38.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:38.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:38.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:38.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:38.839][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-11-08 21:25:38.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-11-08 21:25:38.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-11-08 21:25:38.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-11-08 21:25:38.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-11-08 21:25:38.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-11-08 21:25:38.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-11-08 21:25:38.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-08 21:25:38.846][biodb::testThat]
biodb.INFO [2024-11-08 21:25:38.846][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-11-08 21:25:38.846][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:38.847][biodb::testThat]
biodb.TRACE[2024-11-08 21:25:38.847][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.848][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.848][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:38.848][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-11-08 21:25:38.856][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.858][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:38.859][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-11-08 21:25:38.861][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-11-08 21:25:38.867][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:38.871][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-11-08 21:25:38.871][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:38.872][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-11-08 21:25:38.878][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:38.880][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:38.880][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-08 21:25:38.881][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:38.883][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-08 21:25:38.883][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-11-08 21:25:38.887][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.887][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:38.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.888][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.888][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.888][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.889][ef$get] fields variable is a list.
biodb.INFO [2024-11-08 21:25:38.890][biodb::testThat]
biodb.INFO [2024-11-08 21:25:38.890][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-11-08 21:25:38.890][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:38.890][biodb::testThat]
biodb.TRACE[2024-11-08 21:25:38.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:38.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:38.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:38.916][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:38.917][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:38.917][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-08 21:25:38.917][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:38.918][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-11-08 21:25:38.924][biodb::testThat]
biodb.INFO [2024-11-08 21:25:38.924][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-11-08 21:25:38.924][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:38.925][biodb::testThat]
biodb.TRACE[2024-11-08 21:25:38.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.936][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.937][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.938][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-08 21:25:38.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-08 21:25:38.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.939][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-08 21:25:38.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-08 21:25:38.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:38.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:38.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:38.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:38.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.950][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-08 21:25:38.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.952][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-08 21:25:38.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-08 21:25:38.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:38.953][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-08 21:25:38.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-08 21:25:38.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:38.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-08 21:25:38.956][biodb::testThat]
biodb.INFO [2024-11-08 21:25:38.956][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-11-08 21:25:38.956][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:38.956][biodb::testThat]
biodb.INFO [2024-11-08 21:25:38.959][biodb::testThat]
biodb.INFO [2024-11-08 21:25:38.959][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-11-08 21:25:38.959][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:38.959][biodb::testThat]
biodb.INFO [2024-11-08 21:25:38.963][biodb::testThat]
biodb.INFO [2024-11-08 21:25:38.963][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-11-08 21:25:38.964][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:38.964][biodb::testThat]
biodb.DEBUG[2024-11-08 21:25:38.965][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-11-08 21:25:39.468][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-11-08 21:25:40.747][biodb::testThat]
biodb.INFO [2024-11-08 21:25:40.747][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-11-08 21:25:40.747][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:40.747][biodb::testThat]
biodb.DEBUG[2024-11-08 21:25:41.112][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2024-11-08 21:25:41.473][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.474][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.479][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.480][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.480][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.480][ef$get] fields variable is a list.
biodb.INFO [2024-11-08 21:25:41.481][biodb::testThat]
biodb.INFO [2024-11-08 21:25:41.481][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2024-11-08 21:25:41.481][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:41.482][biodb::testThat]
biodb.TRACE[2024-11-08 21:25:41.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.486][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.512][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:41.513][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:41.514][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-08 21:25:41.514][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.514][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-08 21:25:41.534][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:41.535][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:41.536][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-08 21:25:41.536][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.536][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-11-08 21:25:41.540][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-08 21:25:41.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-08 21:25:41.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.552][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:41.553][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:41.553][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-08 21:25:41.554][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.554][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-08 21:25:41.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:41.558][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-11-08 21:25:41.571][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:41.572][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-11-08 21:25:41.572][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.573][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2024-11-08 21:25:41.573][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:41.573][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:41.574][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:41.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:41.578][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.578][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.579][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.580][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.580][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.581][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.583][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.584][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.584][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.585][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.585][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.586][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.586][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.587][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.588][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.588][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.589][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.589][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.590][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.590][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.591][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.591][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.591][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.592][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.592][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.593][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.593][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.594][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.595][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.595][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.595][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.596][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.597][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.597][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.597][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.598][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.599][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.599][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.599][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.600][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.612][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-11-08 21:25:41.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.618][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:41.619][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:41.619][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-08 21:25:41.619][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.620][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-08 21:25:41.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.627][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.TRACE[2024-11-08 21:25:41.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.633][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[2024-11-08 21:25:41.633][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-11-08 21:25:41.633][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:41.634][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-11-08 21:25:41.634][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.635][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2024-11-08 21:25:41.635][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:41.635][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:41.636][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:41.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:41.639][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.640][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.640][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.644][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.644][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.645][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.645][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.646][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.646][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.647][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.647][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.648][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.648][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.649][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.650][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.650][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.651][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.652][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.652][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.653][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.653][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.653][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.654][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.654][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.655][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.655][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.656][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.657][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.657][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.658][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.658][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.659][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.659][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.659][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.660][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.661][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.661][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.661][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.662][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.674][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-11-08 21:25:41.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.683][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:41.684][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:41.685][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-08 21:25:41.685][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.685][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-08 21:25:41.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:41.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.695][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[2024-11-08 21:25:41.695][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-11-08 21:25:41.695][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:41.696][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-11-08 21:25:41.696][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.697][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2024-11-08 21:25:41.698][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:41.698][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:41.698][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:41.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:41.702][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.702][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.703][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.704][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.705][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.708][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.708][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.708][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.709][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.709][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.709][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.710][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.710][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.710][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.711][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.711][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.711][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.712][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.712][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.712][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.713][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.713][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.713][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.714][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.714][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.714][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.715][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.715][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.716][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.716][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.716][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.717][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.718][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.718][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.718][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.727][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-11-08 21:25:41.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:41.737][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-11-08 21:25:41.737][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:41.737][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-11-08 21:25:41.738][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.738][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2024-11-08 21:25:41.738][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:41.739][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:41.739][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:41.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:41.743][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.743][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.743][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.744][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.745][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.745][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.745][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.746][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.746][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.746][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.747][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.747][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.747][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.747][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.748][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.748][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.748][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.749][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.749][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.749][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.750][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.750][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.750][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.751][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.751][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.751][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.751][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.753][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.753][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.753][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.754][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.755][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.755][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.755][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.766][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-11-08 21:25:41.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:41.773][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-11-08 21:25:41.773][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:41.774][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-11-08 21:25:41.774][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.775][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2024-11-08 21:25:41.775][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:41.775][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:41.775][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:41.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:41.779][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.779][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.779][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.781][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.781][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.781][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.781][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.782][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.782][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.782][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.783][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.783][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.783][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.784][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.784][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.784][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.784][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.785][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.785][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.785][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.786][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.786][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.786][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.787][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.787][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.788][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.788][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.790][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.791][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.791][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.791][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.792][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.793][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.793][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.802][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-11-08 21:25:41.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:41.809][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-11-08 21:25:41.809][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:41.810][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-11-08 21:25:41.810][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.811][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2024-11-08 21:25:41.812][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:41.812][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:41.812][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:41.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:41.816][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.817][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.819][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.820][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.820][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.821][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.821][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.822][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.822][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.823][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.823][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.824][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.824][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.825][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.826][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.826][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.828][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.828][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.829][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.829][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.830][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.830][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.830][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.831][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.832][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.832][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.832][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.834][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.834][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.834][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.836][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.836][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.836][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.837][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.838][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.838][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.838][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.839][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.858][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-11-08 21:25:41.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:41.864][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-11-08 21:25:41.864][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:41.865][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-11-08 21:25:41.865][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.866][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2024-11-08 21:25:41.866][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:41.866][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:41.867][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:41.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:41.870][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.871][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.871][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.872][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.873][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.873][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.873][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.874][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.875][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.875][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.875][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.876][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.877][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.877][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.878][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.879][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.879][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.880][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.880][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.881][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.881][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.882][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.882][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.885][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.885][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.886][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.886][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.887][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.888][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.888][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.889][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.890][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.890][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.891][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.892][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.892][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.893][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.893][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.903][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-11-08 21:25:41.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:41.909][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-11-08 21:25:41.909][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:41.910][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-11-08 21:25:41.910][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.911][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2024-11-08 21:25:41.911][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:41.912][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:41.912][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:41.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:41.918][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.918][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.918][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.920][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.920][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.920][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.921][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.922][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.922][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.922][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.923][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.924][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.924][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.924][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.925][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.926][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.926][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.927][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.928][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.928][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.928][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.929][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.929][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.929][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.930][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.930][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.931][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.932][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.932][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.933][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.934][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.934][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.935][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.935][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.936][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.936][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.937][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.937][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.949][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-11-08 21:25:41.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:41.955][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-11-08 21:25:41.955][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:41.956][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-11-08 21:25:41.956][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:41.957][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2024-11-08 21:25:41.957][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:41.957][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:41.958][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:41.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:41.961][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.961][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.962][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.963][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.963][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.964][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.964][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:41.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:41.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.965][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.965][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.966][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.966][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:41.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:41.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.967][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.967][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.968][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:41.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:41.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.969][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.969][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.969][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:41.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.971][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.971][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:41.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.973][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.974][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.974][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.974][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.975][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:41.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.976][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.976][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.976][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:41.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.977][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.978][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.978][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.978][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:41.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:41.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.979][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.980][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.980][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.980][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:41.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:41.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.981][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.982][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.982][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.982][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:41.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:41.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:41.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:41.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:41.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.992][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-11-08 21:25:41.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:41.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:41.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:41.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:41.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:41.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:41.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:41.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:41.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:41.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:41.998][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[2024-11-08 21:25:41.998][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-11-08 21:25:41.998][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:41.999][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-11-08 21:25:41.999][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.002][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2024-11-08 21:25:42.002][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.002][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.003][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.006][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.007][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.007][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.008][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.009][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.009][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.009][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.010][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.011][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.011][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.011][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.012][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.012][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.013][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.014][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.014][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.015][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.016][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.016][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.017][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.017][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.017][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.018][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.018][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.019][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.019][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.020][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.021][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.021][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.021][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.023][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.023][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.023][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.024][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.025][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.025][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.025][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.026][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.038][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-11-08 21:25:42.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.044][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-11-08 21:25:42.045][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.045][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-11-08 21:25:42.046][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.046][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2024-11-08 21:25:42.046][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.047][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.047][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.051][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.051][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.051][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.053][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.053][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.053][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.054][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.055][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.055][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.055][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.055][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.056][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.057][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.057][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.058][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.059][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.059][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.063][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.063][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.063][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.064][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.064][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.064][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.065][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.066][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.066][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.066][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.068][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.068][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.068][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.069][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.070][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.070][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.070][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.071][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.072][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.072][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.072][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.072][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.082][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-11-08 21:25:42.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.090][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-11-08 21:25:42.090][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.091][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-11-08 21:25:42.091][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.092][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2024-11-08 21:25:42.092][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.092][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.093][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.096][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.097][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.097][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.098][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.098][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.099][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.099][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.100][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.100][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.101][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.102][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.102][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.103][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.104][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.104][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.104][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.105][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.106][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.106][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.107][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.107][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.107][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.108][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.108][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.109][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.109][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.109][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.111][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.111][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.111][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.111][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.112][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.113][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.113][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.113][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.113][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.114][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.115][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.115][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.115][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.128][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-11-08 21:25:42.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.134][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-11-08 21:25:42.134][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.135][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-11-08 21:25:42.135][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.136][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2024-11-08 21:25:42.136][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.136][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.137][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.140][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.140][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.141][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.142][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.142][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.143][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.143][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.144][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.144][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.145][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.145][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.146][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.146][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.147][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.147][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.147][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.150][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.150][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.150][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.151][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.151][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.151][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.152][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.152][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.153][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.153][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.153][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.155][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.155][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.155][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.157][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.157][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.157][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.158][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.159][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.159][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.159][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.169][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-11-08 21:25:42.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.175][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-11-08 21:25:42.175][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.175][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-11-08 21:25:42.176][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.178][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2024-11-08 21:25:42.178][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.179][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.179][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.183][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.183][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.184][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.185][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.185][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.186][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.186][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.187][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.187][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.188][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.188][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.189][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.189][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.189][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.190][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.190][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.190][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.191][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.191][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.191][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.192][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.192][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.192][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.193][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.194][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.194][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.194][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.195][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.196][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.196][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.197][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.198][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.198][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.198][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.199][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.200][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.200][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.212][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-11-08 21:25:42.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.218][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-11-08 21:25:42.218][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.218][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-11-08 21:25:42.219][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.219][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2024-11-08 21:25:42.219][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.220][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.220][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.223][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.224][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.224][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.225][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.226][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.226][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.226][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.227][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.228][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.228][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.228][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.229][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.230][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.230][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.231][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.231][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.232][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.233][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.233][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.234][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.234][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.234][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.237][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.237][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.238][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.239][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.240][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.240][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.240][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.241][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.242][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.242][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.242][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.243][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.244][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.244][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.244][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.245][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.255][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-11-08 21:25:42.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.260][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[2024-11-08 21:25:42.261][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-11-08 21:25:42.261][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.261][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-11-08 21:25:42.262][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.262][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2024-11-08 21:25:42.263][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.263][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.265][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.269][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.269][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.270][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.271][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.271][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.271][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.272][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.273][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.273][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.273][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.274][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.275][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.275][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.275][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.276][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.277][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.277][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.277][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.279][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.279][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.279][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.280][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.280][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.280][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.281][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.281][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.282][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.282][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.283][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.284][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.284][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.284][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.285][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.286][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.286][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.286][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.287][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.287][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.288][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.288][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.301][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-11-08 21:25:42.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.307][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-11-08 21:25:42.307][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.307][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-11-08 21:25:42.308][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.308][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2024-11-08 21:25:42.308][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.309][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.309][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.313][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.313][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.313][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.315][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.315][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.315][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.316][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.316][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.317][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.317][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.317][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.318][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.319][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.319][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.320][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.320][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.321][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.324][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.324][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.325][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.325][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.325][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.326][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.326][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.327][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.327][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.328][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.329][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.329][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.330][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.330][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.331][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.331][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.331][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.332][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.333][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.333][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.333][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.334][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.344][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-11-08 21:25:42.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.352][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-11-08 21:25:42.352][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.352][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-11-08 21:25:42.353][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.353][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2024-11-08 21:25:42.354][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.354][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.354][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.358][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.358][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.359][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.360][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.360][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.361][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.361][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.362][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.362][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.363][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.363][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.364][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.364][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.364][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.365][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.366][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.366][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.366][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.368][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.368][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.368][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.368][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.368][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.369][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.369][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.369][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.370][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.371][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.371][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.372][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.373][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.373][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.373][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.374][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.374][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.375][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.375][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.376][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.376][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.377][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.390][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-11-08 21:25:42.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.395][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-11-08 21:25:42.396][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.396][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-11-08 21:25:42.396][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.397][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2024-11-08 21:25:42.397][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.397][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.398][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.401][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.402][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.402][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.404][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.404][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.404][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.405][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.405][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.406][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.406][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.406][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.407][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.408][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.410][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.411][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.412][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.412][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.413][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.414][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.414][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.414][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.415][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.415][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.415][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.416][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.416][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.417][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.418][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.418][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.419][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.420][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.420][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.421][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.421][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.422][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.422][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.423][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.433][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-11-08 21:25:42.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.441][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-11-08 21:25:42.441][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.442][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-11-08 21:25:42.442][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.442][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2024-11-08 21:25:42.443][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.443][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.443][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.447][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.447][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.447][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.449][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.449][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.450][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.451][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.451][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.451][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.452][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.453][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.453][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.453][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.454][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.455][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.455][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.455][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.457][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.457][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.457][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.458][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.458][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.458][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.458][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.459][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.460][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.460][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.461][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.462][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.462][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.462][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.463][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.464][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.464][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.464][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.468][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.468][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.469][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.469][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.479][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-11-08 21:25:42.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.485][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-11-08 21:25:42.486][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.486][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-11-08 21:25:42.486][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.487][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2024-11-08 21:25:42.487][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.487][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.488][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.491][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.491][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.492][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.493][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.493][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.494][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.494][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.497][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.497][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.498][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.498][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.499][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.500][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.500][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.501][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.501][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.502][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.503][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.503][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.504][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.504][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.504][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.505][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.505][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.506][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.506][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.507][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.508][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.509][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.509][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.510][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.510][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.510][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.511][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.512][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.512][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.512][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.513][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.524][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-11-08 21:25:42.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.533][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:42.534][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:42.534][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-08 21:25:42.535][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.535][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-08 21:25:42.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.544][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.TRACE[2024-11-08 21:25:42.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.574][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.TRACE[2024-11-08 21:25:42.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.592][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[2024-11-08 21:25:42.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.616][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.TRACE[2024-11-08 21:25:42.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.627][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.TRACE[2024-11-08 21:25:42.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.633][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.TRACE[2024-11-08 21:25:42.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.657][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[2024-11-08 21:25:42.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.678][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:42.679][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:42.679][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2024-11-08 21:25:42.680][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.680][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2024-11-08 21:25:42.681][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:42.682][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:42.682][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2024-11-08 21:25:42.683][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.683][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2024-11-08 21:25:42.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.687][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.DEBUG[2024-11-08 21:25:42.687][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-11-08 21:25:42.687][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.688][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-11-08 21:25:42.688][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.689][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2024-11-08 21:25:42.689][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.689][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.689][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.693][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.693][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.694][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.695][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.695][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.696][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.696][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.697][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.697][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.699][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.699][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.700][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.701][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.701][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.702][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.702][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.703][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.703][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.704][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.704][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.707][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.707][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.708][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.708][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.709][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.709][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.710][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.711][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.711][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.712][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.713][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.713][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.714][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.714][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.715][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.715][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.716][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.726][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-11-08 21:25:42.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.732][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[2024-11-08 21:25:42.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:42.740][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-11-08 21:25:42.740][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:42.740][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-11-08 21:25:42.741][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.741][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2024-11-08 21:25:42.741][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:42.742][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:42.742][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:42.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.746][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.746][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.746][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.748][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.748][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.748][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.749][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:42.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:42.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.750][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.750][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.750][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.751][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:42.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:42.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.752][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.752][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.752][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:42.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:42.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.754][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.754][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.754][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:42.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.756][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.756][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:42.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.756][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.757][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.757][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.757][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.757][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:42.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:42.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.758][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.759][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.759][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.760][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.761][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.761][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:42.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:42.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.764][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.765][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.765][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.766][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:42.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:42.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.767][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.767][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.767][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.767][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:42.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:42.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:42.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:42.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:42.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.778][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-11-08 21:25:42.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.786][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:42.787][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:42.787][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-08 21:25:42.788][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.788][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-08 21:25:42.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.800][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.TRACE[2024-11-08 21:25:42.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.822][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.TRACE[2024-11-08 21:25:42.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.859][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.866][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.TRACE[2024-11-08 21:25:42.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.882][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.TRACE[2024-11-08 21:25:42.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.906][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[2024-11-08 21:25:42.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.922][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:42.923][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:42.924][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-08 21:25:42.924][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:42.924][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-08 21:25:42.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.964][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[2024-11-08 21:25:42.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.977][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.TRACE[2024-11-08 21:25:42.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.983][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[2024-11-08 21:25:42.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.994][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.TRACE[2024-11-08 21:25:42.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:42.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:42.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:42.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:42.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:42.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:42.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:42.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:42.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:42.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:42.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:42.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.012][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.TRACE[2024-11-08 21:25:43.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.055][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-08 21:25:43.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-08 21:25:43.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-08 21:25:43.058][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.058][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-11-08 21:25:43.059][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:43.059][biodb::testThat]
biodb.TRACE[2024-11-08 21:25:43.060][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-08 21:25:43.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-08 21:25:43.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.071][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.072][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.072][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-08 21:25:43.072][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.073][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-08 21:25:43.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.076][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.TRACE[2024-11-08 21:25:43.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.080][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.081][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.081][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-08 21:25:43.081][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.082][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-08 21:25:43.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.085][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.TRACE[2024-11-08 21:25:43.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.093][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-08 21:25:43.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.159][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.TRACE[2024-11-08 21:25:43.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.161][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.161][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.161][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.162][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.162][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.162][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.162][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.163][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.163][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.163][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.164][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.164][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.164][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.164][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.165][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.165][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.165][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.171][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-08 21:25:43.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.176][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.176][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.176][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.176][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.177][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.177][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.177][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.178][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.178][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.178][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.178][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.179][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.179][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.179][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.179][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.180][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.180][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.183][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-08 21:25:43.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.186][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[2024-11-08 21:25:43.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.188][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.189][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.189][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.189][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.189][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.191][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.191][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.192][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.192][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.192][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.193][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.193][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.197][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-08 21:25:43.197][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-08 21:25:43.197][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-08 21:25:43.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.226][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.227][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.228][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-08 21:25:43.228][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.229][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-08 21:25:43.230][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.231][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.231][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-08 21:25:43.231][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.232][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-08 21:25:43.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.260][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-08 21:25:43.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.269][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.TRACE[2024-11-08 21:25:43.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.271][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.271][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.272][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.272][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.272][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.272][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.273][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.274][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.274][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.274][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.275][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.275][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.275][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.276][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.279][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-08 21:25:43.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.293][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.293][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.294][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.294][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.294][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.294][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.295][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.295][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.295][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.295][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.296][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.296][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.299][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.299][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.300][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.300][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.300][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.303][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-08 21:25:43.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.309][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.309][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.309][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.310][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.310][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.310][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.311][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.311][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.311][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.312][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.312][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.313][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.313][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.316][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-08 21:25:43.316][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-08 21:25:43.316][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-08 21:25:43.319][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-08 21:25:43.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-08 21:25:43.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-08 21:25:43.321][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.322][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-11-08 21:25:43.322][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:43.322][biodb::testThat]
biodb.TRACE[2024-11-08 21:25:43.323][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-08 21:25:43.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-08 21:25:43.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.334][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.335][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.335][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-08 21:25:43.336][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.336][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-08 21:25:43.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.342][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.343][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.344][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-08 21:25:43.344][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.344][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-08 21:25:43.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.353][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[2024-11-08 21:25:43.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.356][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-08 21:25:43.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.361][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.361][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.362][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.362][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.362][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.362][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.363][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.363][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.363][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.363][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.364][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.364][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.364][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.365][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.365][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.365][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.366][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.369][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-08 21:25:43.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.373][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.374][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.374][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.374][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.374][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.375][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.375][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.375][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.375][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.376][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.376][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.376][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.377][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.378][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.378][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.381][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-08 21:25:43.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.384][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.TRACE[2024-11-08 21:25:43.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.386][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.386][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.386][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.386][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.387][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.387][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.387][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.388][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.388][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.388][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.388][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.389][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.389][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.389][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.389][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.390][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.390][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.393][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-08 21:25:43.393][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-08 21:25:43.394][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-08 21:25:43.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.404][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.405][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.405][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-08 21:25:43.405][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.406][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-08 21:25:43.407][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.408][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.408][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-08 21:25:43.408][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.409][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-08 21:25:43.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.412][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.TRACE[2024-11-08 21:25:43.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.425][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.428][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-08 21:25:43.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.433][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.433][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.434][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.434][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.434][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.434][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.435][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.435][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.436][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.436][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.436][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.437][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.437][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.437][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.437][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.441][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-08 21:25:43.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.442][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.446][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.446][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.446][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.446][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.447][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.447][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.448][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.448][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.448][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.448][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.449][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.450][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.453][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-08 21:25:43.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.455][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.TRACE[2024-11-08 21:25:43.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.458][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.458][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.458][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.458][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.459][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.459][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.459][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.460][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.460][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.460][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.461][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.461][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.461][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.461][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.462][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.462][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.465][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-08 21:25:43.465][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-08 21:25:43.465][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-08 21:25:43.468][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-08 21:25:43.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-08 21:25:43.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-08 21:25:43.470][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.470][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-11-08 21:25:43.471][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:43.471][biodb::testThat]
biodb.TRACE[2024-11-08 21:25:43.472][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-08 21:25:43.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-08 21:25:43.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.481][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.482][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.482][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-08 21:25:43.483][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.483][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-08 21:25:43.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.490][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.490][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.491][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-08 21:25:43.491][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.492][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-08 21:25:43.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.495][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[2024-11-08 21:25:43.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.503][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-08 21:25:43.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.510][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.510][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.511][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.511][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.511][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.511][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.512][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.512][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.512][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.512][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.513][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.513][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.513][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.514][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.514][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.514][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.514][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.517][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-08 21:25:43.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.522][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.522][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.523][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.523][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.523][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.523][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.524][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.524][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.525][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.525][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.525][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.526][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.526][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.526][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.530][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-08 21:25:43.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.534][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.535][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.535][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.535][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.535][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.536][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.536][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.536][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.536][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.537][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.537][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.537][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.538][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.538][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.539][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.539][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.542][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-08 21:25:43.542][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-08 21:25:43.542][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-08 21:25:43.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.556][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.557][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.557][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-08 21:25:43.558][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.558][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-08 21:25:43.559][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.560][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.560][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-08 21:25:43.560][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.561][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-08 21:25:43.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.564][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.TRACE[2024-11-08 21:25:43.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.570][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[2024-11-08 21:25:43.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.578][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-08 21:25:43.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.583][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.584][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.584][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.584][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.584][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.585][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.585][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.585][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.586][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.586][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.586][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.586][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.587][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.587][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.587][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.588][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.588][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.591][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-08 21:25:43.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.598][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.598][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.599][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.599][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.599][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.599][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.600][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.601][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.601][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.601][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.601][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.602][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.602][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.605][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-08 21:25:43.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.610][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.610][private$selectFields]
biodb.TRACE[2024-11-08 21:25:43.611][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-08 21:25:43.611][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-08 21:25:43.611][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.611][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.612][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.612][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.612][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.613][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.613][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.613][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-08 21:25:43.614][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.614][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.614][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.614][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-08 21:25:43.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.618][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-08 21:25:43.618][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-08 21:25:43.618][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-08 21:25:43.623][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-08 21:25:43.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-08 21:25:43.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-08 21:25:43.625][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.626][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-11-08 21:25:43.626][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:43.626][biodb::testThat]
biodb.DEBUG[2024-11-08 21:25:43.627][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-11-08 21:25:43.627][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:43.627][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-11-08 21:25:43.628][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.629][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2024-11-08 21:25:43.629][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:43.629][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:43.630][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:43.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.633][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.634][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.634][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.635][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:43.636][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:43.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.636][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.636][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:43.637][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:43.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.637][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.637][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:43.638][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:43.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.638][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.638][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.639][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.639][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.639][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.640][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.640][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.640][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:43.641][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.641][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.641][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.642][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.642][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.642][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:43.642][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:43.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.643][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.643][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:43.644][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:43.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.644][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.644][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:43.644][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:43.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.645][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.654][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-11-08 21:25:43.655][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-11-08 21:25:43.657][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.658][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-11-08 21:25:43.658][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:43.658][biodb::testThat]
biodb.DEBUG[2024-11-08 21:25:43.661][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-11-08 21:25:43.661][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-11-08 21:25:43.662][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-11-08 21:25:43.662][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-11-08 21:25:43.663][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2024-11-08 21:25:43.664][loadFileContents] Loaded 3 files from cache: [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2024-11-08 21:25:43.664][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:43.664][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-11-08 21:25:43.665][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:43.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.668][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.668][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.669][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.670][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:43.670][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:43.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.671][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.671][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:43.671][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:43.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.672][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.672][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:43.672][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:43.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.673][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.673][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.673][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.674][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.674][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.674][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.675][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.675][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:43.675][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.676][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.676][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.676][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.677][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.677][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:43.677][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:43.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.678][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.678][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:43.678][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:43.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.679][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.679][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:43.679][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:43.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.680][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.692][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.693][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.693][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.694][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:43.695][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:43.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.695][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.695][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:43.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:43.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.696][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:43.696][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:43.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.697][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.697][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:43.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:43.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.698][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:43.698][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:43.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.699][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.699][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:43.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:43.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.700][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.700][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.701][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.702][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.702][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.703][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.703][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.704][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:43.704][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.705][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.705][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:43.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.706][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.706][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.707][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.708][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:43.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:43.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.708][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:43.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:43.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.710][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:43.710][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:43.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.710][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.711][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:43.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:43.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.712][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:43.712][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:43.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.712][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.713][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:43.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:43.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:43.724][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.724][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.725][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.726][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:43.726][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:43.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.727][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.727][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:43.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:43.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.728][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:43.728][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:43.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.728][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.729][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:43.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:43.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.730][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:43.730][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:43.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.730][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.731][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:43.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:43.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.732][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.732][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:43.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.733][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.734][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.734][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.734][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:43.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.735][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:43.736][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.736][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.736][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:43.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:43.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.737][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.738][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.738][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.739][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:43.739][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:43.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.740][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.740][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:43.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:43.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.741][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:43.741][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:43.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.742][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.742][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:43.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:43.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.743][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:43.743][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:43.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.744][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:43.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:43.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:43.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:43.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:43.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:43.760][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-11-08 21:25:43.760][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-11-08 21:25:43.760][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-11-08 21:25:43.764][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.765][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-11-08 21:25:43.765][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:43.765][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.774][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.774][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-11-08 21:25:43.774][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:43.775][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.777][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.777][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-11-08 21:25:43.777][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:43.778][biodb::testThat]
biodb.DEBUG[2024-11-08 21:25:43.778][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.780][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.781][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2024-11-08 21:25:43.781][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.782][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2024-11-08 21:25:43.785][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:43.785][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:43.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.786][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:43.786][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.786][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:43.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:43.787][ef$get] fields variable is a list.
biodb.INFO [2024-11-08 21:25:43.787][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.787][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2024-11-08 21:25:43.788][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:43.788][biodb::testThat]
biodb.ERROR[2024-11-08 21:25:43.792][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-11-08 21:25:43.796][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-11-08 21:25:43.800][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-08 21:25:43.801][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-11-08 21:25:43.801][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-11-08 21:25:43.801][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-08 21:25:43.801][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.802][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.802][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.802][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.INFO [2024-11-08 21:25:43.805][biodb::testContext]
biodb.INFO [2024-11-08 21:25:43.806][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-08 21:25:43.806][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-11-08 21:25:43.806][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-08 21:25:43.806][biodb::testContext]
biodb.INFO [2024-11-08 21:25:43.807][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-08 21:25:43.807][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-08 21:25:43.809][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:43.809][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-08 21:25:43.809][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-08 21:25:43.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.810][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-08 21:25:43.811][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-08 21:25:43.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.811][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[2024-11-08 21:25:43.811][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-08 21:25:43.812][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-08 21:25:43.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.813][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-08 21:25:43.813][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-08 21:25:43.813][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-08 21:25:43.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.814][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-08 21:25:43.814][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-08 21:25:43.814][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-08 21:25:43.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.815][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-08 21:25:43.815][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-08 21:25:43.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.816][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[2024-11-08 21:25:43.816][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-08 21:25:43.816][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-08 21:25:43.817][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-08 21:25:43.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.818][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-08 21:25:43.818][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-08 21:25:43.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.819][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-08 21:25:43.819][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-08 21:25:43.819][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-08 21:25:43.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.820][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-08 21:25:43.820][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-08 21:25:43.820][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-08 21:25:43.821][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-08 21:25:43.821][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-08 21:25:43.821][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-08 21:25:43.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.822][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[2024-11-08 21:25:43.822][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-08 21:25:43.822][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-08 21:25:43.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.823][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-08 21:25:43.823][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-08 21:25:43.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.824][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-08 21:25:43.824][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-08 21:25:43.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.825][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-08 21:25:43.825][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-08 21:25:43.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.826][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-08 21:25:43.827][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-08 21:25:43.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.827][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-08 21:25:43.828][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-08 21:25:43.833][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-08 21:25:43.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.834][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[2024-11-08 21:25:43.834][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-08 21:25:43.834][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-08 21:25:43.834][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-08 21:25:43.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.835][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-08 21:25:43.836][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.836][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-08 21:25:43.836][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.837][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:43.837][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.837][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.837][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.837][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.838][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-08 21:25:43.838][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:43.838][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.838][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-08 21:25:43.839][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:43.839][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.839][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.839][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:43.839][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:43.839][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:43.839][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-08 21:25:43.839][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-08 21:25:43.840][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:43.840][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:43.840][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:43.840][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:43.840][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:43.841][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:43.841][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.841][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.841][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:43.842][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:43.842][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.842][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.842][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-08 21:25:43.843][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.843][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-08 21:25:43.843][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.844][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:43.844][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.844][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.844][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.844][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.845][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-08 21:25:43.845][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:43.845][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.845][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-08 21:25:43.846][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:43.846][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.846][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.846][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:43.846][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:43.846][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:43.846][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-08 21:25:43.846][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-08 21:25:43.847][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:43.847][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:43.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:43.847][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:43.847][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:43.848][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:43.848][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.848][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.848][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:43.848][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:43.849][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.849][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.849][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-08 21:25:43.850][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.850][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-08 21:25:43.850][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.850][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:43.851][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.851][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.851][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.851][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.852][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-08 21:25:43.852][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:43.852][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.852][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-08 21:25:43.852][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:43.853][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.853][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.853][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.853][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:43.854][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:43.854][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:43.854][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:43.854][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:43.854][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:43.855][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.855][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.855][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:43.855][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:43.856][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.856][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.856][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-08 21:25:43.856][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.857][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-08 21:25:43.857][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.857][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:43.857][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.858][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.858][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.858][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.858][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-08 21:25:43.859][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:43.859][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.859][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-08 21:25:43.862][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:43.862][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.862][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.863][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.863][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:43.863][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:43.863][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:43.863][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:43.864][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:43.864][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:43.864][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.864][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.864][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:43.865][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:43.865][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.865][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:43.865][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:43.866][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.866][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[2024-11-08 21:25:43.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.872][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[2024-11-08 21:25:43.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.875][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[2024-11-08 21:25:43.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.878][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[2024-11-08 21:25:43.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.882][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[2024-11-08 21:25:43.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.883][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-08 21:25:43.883][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-08 21:25:43.884][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-08 21:25:43.884][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-08 21:25:43.885][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-08 21:25:43.885][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-08 21:25:43.885][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-08 21:25:43.885][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-08 21:25:43.886][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-08 21:25:43.886][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-08 21:25:43.887][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-08 21:25:43.887][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-08 21:25:43.887][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-08 21:25:43.888][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-08 21:25:43.888][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-08 21:25:43.888][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-08 21:25:43.889][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-08 21:25:43.889][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-08 21:25:43.889][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-08 21:25:43.890][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-08 21:25:43.890][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-08 21:25:43.890][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-08 21:25:43.891][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-08 21:25:43.891][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-08 21:25:43.891][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-08 21:25:43.892][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-08 21:25:43.892][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-08 21:25:43.892][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-08 21:25:43.893][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-08 21:25:43.893][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-08 21:25:43.893][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-08 21:25:43.894][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-08 21:25:43.894][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-08 21:25:43.894][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-08 21:25:43.895][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-08 21:25:43.895][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-08 21:25:43.895][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-08 21:25:43.896][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-08 21:25:43.896][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-08 21:25:43.896][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-08 21:25:43.897][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-08 21:25:43.897][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-08 21:25:43.897][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-08 21:25:43.898][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-08 21:25:43.898][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-08 21:25:43.898][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-08 21:25:43.899][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-08 21:25:43.899][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-08 21:25:43.899][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-08 21:25:43.900][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-08 21:25:43.900][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-08 21:25:43.900][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-08 21:25:43.901][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-08 21:25:43.901][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-08 21:25:43.901][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-08 21:25:43.902][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-08 21:25:43.902][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-08 21:25:43.902][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-08 21:25:43.903][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-08 21:25:43.903][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-08 21:25:43.903][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-08 21:25:43.904][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-08 21:25:43.904][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-08 21:25:43.904][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-08 21:25:43.905][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-08 21:25:43.905][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-08 21:25:43.905][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-08 21:25:43.906][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-08 21:25:43.906][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-08 21:25:43.906][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-08 21:25:43.907][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-08 21:25:43.907][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-08 21:25:43.907][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-08 21:25:43.908][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-08 21:25:43.908][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-08 21:25:43.908][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-08 21:25:43.909][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-08 21:25:43.909][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-08 21:25:43.909][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-08 21:25:43.910][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-08 21:25:43.910][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-08 21:25:43.910][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-08 21:25:43.911][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-08 21:25:43.911][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-08 21:25:43.911][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-08 21:25:43.912][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:43.912][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.912][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.935][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.DEBUG[2024-11-08 21:25:43.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:43.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.939][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-11-08 21:25:43.940][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-11-08 21:25:43.940][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.941][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.941][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.941][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:43.941][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.941][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.942][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.942][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-11-08 21:25:43.942][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-08 21:25:43.942][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-11-08 21:25:43.943][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-11-08 21:25:43.944][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:43.944][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:43.944][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:43.944][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:43.944][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-08 21:25:43.944][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:43.945][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:43.945][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:43.945][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:43.945][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:43.945][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:43.946][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-08 21:25:43.946][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-11-08 21:25:43.946][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:43.946][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:43.946][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:43.946][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-11-08 21:25:43.946][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-11-08 21:25:43.947][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-08 21:25:43.947][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-08 21:25:43.948][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-11-08 21:25:43.948][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-08 21:25:43.948][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-08 21:25:43.949][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-08 21:25:43.950][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-11-08 21:25:43.950][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-11-08 21:25:43.950][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-11-08 21:25:43.950][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-11-08 21:25:43.951][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-08 21:25:43.951][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-08 21:25:43.951][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-11-08 21:25:43.952][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-11-08 21:25:43.952][biodb::testThat]
biodb.INFO [2024-11-08 21:25:43.952][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2024-11-08 21:25:43.952][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:43.953][biodb::testThat]
biodb.DEBUG[2024-11-08 21:25:43.954][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-11-08 21:25:43.955][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.955][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-11-08 21:25:43.955][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.956][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-11-08 21:25:43.957][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.958][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.958][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-11-08 21:25:43.959][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.959][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-11-08 21:25:43.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.963][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.964][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.964][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-11-08 21:25:43.964][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.965][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-11-08 21:25:43.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.976][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.977][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.978][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-11-08 21:25:43.978][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.978][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-11-08 21:25:43.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.982][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.983][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.983][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-11-08 21:25:43.983][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.984][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-11-08 21:25:43.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.990][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.991][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.992][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-11-08 21:25:43.992][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.992][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-11-08 21:25:43.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:43.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:43.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:43.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:43.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:43.996][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:43.996][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:43.997][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-11-08 21:25:43.997][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:43.997][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-11-08 21:25:43.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:43.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:43.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.001][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:44.002][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:44.002][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2024-11-08 21:25:44.002][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:44.003][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2024-11-08 21:25:44.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:44.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-08 21:25:44.008][biodb::testThat]
biodb.INFO [2024-11-08 21:25:44.008][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2024-11-08 21:25:44.008][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:44.008][biodb::testThat]
biodb.DEBUG[2024-11-08 21:25:44.009][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:44.010][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:44.011][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2024-11-08 21:25:44.011][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:44.011][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2024-11-08 21:25:44.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:44.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.016][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:44.016][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:44.017][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2024-11-08 21:25:44.017][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:44.017][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2024-11-08 21:25:44.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:44.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.020][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.INFO [2024-11-08 21:25:44.022][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-08 21:25:44.022][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-11-08 21:25:44.022][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-11-08 21:25:44.023][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-08 21:25:44.023][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.023][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.024][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-08 21:25:44.025][biodb::testContext]
biodb.INFO [2024-11-08 21:25:44.025][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-08 21:25:44.025][biodb::testContext] Test context - Test web services
biodb.INFO [2024-11-08 21:25:44.026][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-08 21:25:44.026][biodb::testContext]
biodb.INFO [2024-11-08 21:25:44.026][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-08 21:25:44.027][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-08 21:25:44.028][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:44.029][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-08 21:25:44.029][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.030][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-08 21:25:44.030][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.031][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[2024-11-08 21:25:44.031][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-08 21:25:44.031][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.032][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-08 21:25:44.035][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-08 21:25:44.035][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-08 21:25:44.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.036][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-08 21:25:44.036][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-08 21:25:44.037][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.037][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-08 21:25:44.038][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-08 21:25:44.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.038][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-08 21:25:44.039][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-08 21:25:44.039][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-08 21:25:44.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.040][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-08 21:25:44.040][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.041][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[2024-11-08 21:25:44.041][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-08 21:25:44.041][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-08 21:25:44.041][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.042][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-08 21:25:44.042][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-08 21:25:44.043][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-08 21:25:44.043][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-08 21:25:44.043][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-08 21:25:44.043][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-08 21:25:44.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.044][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-08 21:25:44.044][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-08 21:25:44.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.045][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-08 21:25:44.046][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-08 21:25:44.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.046][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[2024-11-08 21:25:44.046][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-08 21:25:44.047][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-08 21:25:44.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.047][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-08 21:25:44.048][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-08 21:25:44.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.049][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-08 21:25:44.049][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-08 21:25:44.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.050][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-08 21:25:44.050][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-08 21:25:44.055][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-08 21:25:44.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.056][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-08 21:25:44.056][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-08 21:25:44.057][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-08 21:25:44.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.058][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-08 21:25:44.058][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.058][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-08 21:25:44.059][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.059][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:44.059][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.059][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.060][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.060][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.060][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-08 21:25:44.060][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:44.061][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.061][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-08 21:25:44.061][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:44.061][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.061][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.062][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:44.062][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:44.062][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:44.062][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-08 21:25:44.062][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-08 21:25:44.062][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:44.062][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.062][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.063][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:44.063][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.063][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.063][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.064][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.064][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:44.064][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:44.064][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.065][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.065][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-08 21:25:44.065][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.066][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-08 21:25:44.066][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.066][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:44.066][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.067][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.067][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.067][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.067][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-08 21:25:44.068][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:44.068][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.068][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-08 21:25:44.068][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:44.068][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.069][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.069][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:44.069][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:44.069][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:44.069][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-08 21:25:44.069][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-08 21:25:44.069][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:44.069][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.070][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.070][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:44.070][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.070][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.071][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.071][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.071][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:44.071][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:44.071][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.072][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.072][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-08 21:25:44.072][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.073][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-08 21:25:44.073][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.073][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:44.073][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.074][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.074][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.074][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.074][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-08 21:25:44.075][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:44.075][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.075][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-08 21:25:44.075][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:44.075][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.076][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.076][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.076][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:44.076][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.077][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.077][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:44.077][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.077][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.077][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.078][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.078][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:44.078][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:44.078][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.079][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.079][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-08 21:25:44.079][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.079][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-08 21:25:44.080][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.080][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:44.080][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.080][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.081][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.081][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.081][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-08 21:25:44.081][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:44.082][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.082][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-08 21:25:44.082][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:44.082][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.082][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.083][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.083][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:44.083][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.084][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:44.084][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.084][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.084][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.084][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.085][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:44.085][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:44.085][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.085][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.086][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:44.086][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.089][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[2024-11-08 21:25:44.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.097][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[2024-11-08 21:25:44.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.102][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[2024-11-08 21:25:44.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.104][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-08 21:25:44.104][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-08 21:25:44.104][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-08 21:25:44.105][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-08 21:25:44.105][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-08 21:25:44.105][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-08 21:25:44.106][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-08 21:25:44.106][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-08 21:25:44.106][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-08 21:25:44.107][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-08 21:25:44.107][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-08 21:25:44.107][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-08 21:25:44.108][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-08 21:25:44.108][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-08 21:25:44.108][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-08 21:25:44.109][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-08 21:25:44.109][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-08 21:25:44.109][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-08 21:25:44.110][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-08 21:25:44.110][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-08 21:25:44.110][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-08 21:25:44.111][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-08 21:25:44.111][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-08 21:25:44.111][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-08 21:25:44.112][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-08 21:25:44.112][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-08 21:25:44.112][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-08 21:25:44.113][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-08 21:25:44.113][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-08 21:25:44.113][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-08 21:25:44.114][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-08 21:25:44.114][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-08 21:25:44.114][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-08 21:25:44.115][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-08 21:25:44.115][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-08 21:25:44.115][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-08 21:25:44.118][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-08 21:25:44.118][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-08 21:25:44.118][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-08 21:25:44.119][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-08 21:25:44.119][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-08 21:25:44.119][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-08 21:25:44.120][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-08 21:25:44.120][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-08 21:25:44.120][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-08 21:25:44.121][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-08 21:25:44.121][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-08 21:25:44.121][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-08 21:25:44.122][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-08 21:25:44.122][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-08 21:25:44.122][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-08 21:25:44.123][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-08 21:25:44.123][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-08 21:25:44.123][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-08 21:25:44.124][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-08 21:25:44.124][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-08 21:25:44.124][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-08 21:25:44.125][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-08 21:25:44.125][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-08 21:25:44.125][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-08 21:25:44.126][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-08 21:25:44.126][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-08 21:25:44.126][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-08 21:25:44.127][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-08 21:25:44.127][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-08 21:25:44.127][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-08 21:25:44.128][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-08 21:25:44.128][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-08 21:25:44.128][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-08 21:25:44.129][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-08 21:25:44.129][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-08 21:25:44.129][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-08 21:25:44.130][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-08 21:25:44.130][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-08 21:25:44.130][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-08 21:25:44.131][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-08 21:25:44.131][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-08 21:25:44.131][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-08 21:25:44.132][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-08 21:25:44.132][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-08 21:25:44.132][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-08 21:25:44.133][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-08 21:25:44.133][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-08 21:25:44.133][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-08 21:25:44.134][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-08 21:25:44.134][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:44.134][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.135][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.138][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[2024-11-08 21:25:44.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.146][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[2024-11-08 21:25:44.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.148][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[2024-11-08 21:25:44.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.154][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[2024-11-08 21:25:44.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.160][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-11-08 21:25:44.160][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-11-08 21:25:44.161][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.161][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.161][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.162][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:44.162][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.162][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.162][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.163][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-11-08 21:25:44.163][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-08 21:25:44.163][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:44.163][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-11-08 21:25:44.164][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.165][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:44.165][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:44.165][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:44.165][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-08 21:25:44.165][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.165][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.165][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:44.166][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.166][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.166][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.166][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-08 21:25:44.166][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-11-08 21:25:44.167][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:44.167][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:44.167][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.167][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-11-08 21:25:44.167][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-11-08 21:25:44.168][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-08 21:25:44.168][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-08 21:25:44.168][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-11-08 21:25:44.169][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-08 21:25:44.169][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-08 21:25:44.169][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-08 21:25:44.170][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-11-08 21:25:44.171][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-11-08 21:25:44.171][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-11-08 21:25:44.171][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-11-08 21:25:44.172][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-08 21:25:44.172][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-08 21:25:44.172][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-11-08 21:25:44.172][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-11-08 21:25:44.173][biodb::testThat]
biodb.INFO [2024-11-08 21:25:44.173][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-11-08 21:25:44.173][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:44.173][biodb::testThat]
biodb.DEBUG[2024-11-08 21:25:44.174][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-11-08 21:25:44.175][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:44.176][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-11-08 21:25:44.176][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:44.177][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-11-08 21:25:44.177][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:44.178][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:44.179][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-11-08 21:25:44.179][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:44.180][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2024-11-08 21:25:44.182][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-08 21:25:44.182][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-11-08 21:25:44.183][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-11-08 21:25:44.183][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-08 21:25:44.183][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.183][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.184][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-08 21:25:44.185][biodb::testContext]
biodb.INFO [2024-11-08 21:25:44.185][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-08 21:25:44.186][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-11-08 21:25:44.186][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-08 21:25:44.186][biodb::testContext]
biodb.INFO [2024-11-08 21:25:44.187][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-08 21:25:44.187][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-08 21:25:44.188][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:44.189][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-08 21:25:44.189][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.190][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-08 21:25:44.190][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.191][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-08 21:25:44.191][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.192][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-08 21:25:44.192][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-08 21:25:44.193][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-08 21:25:44.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.193][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-08 21:25:44.194][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-08 21:25:44.194][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.195][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-08 21:25:44.195][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-08 21:25:44.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.196][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-08 21:25:44.196][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-08 21:25:44.196][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-08 21:25:44.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.197][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-08 21:25:44.197][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.200][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-08 21:25:44.201][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-08 21:25:44.201][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-08 21:25:44.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.202][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-08 21:25:44.202][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-08 21:25:44.202][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-08 21:25:44.202][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-08 21:25:44.203][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-08 21:25:44.203][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-08 21:25:44.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.204][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-08 21:25:44.204][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-08 21:25:44.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.205][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-08 21:25:44.205][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-08 21:25:44.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.206][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-08 21:25:44.206][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-08 21:25:44.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.207][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-08 21:25:44.207][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-08 21:25:44.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.208][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-08 21:25:44.208][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-08 21:25:44.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.209][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-08 21:25:44.209][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-08 21:25:44.214][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-08 21:25:44.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.215][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-08 21:25:44.215][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-08 21:25:44.215][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-08 21:25:44.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.216][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-08 21:25:44.216][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.217][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-08 21:25:44.217][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.217][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:44.217][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.218][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.218][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.218][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.218][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-08 21:25:44.219][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:44.219][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.219][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-08 21:25:44.219][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:44.220][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.220][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.220][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:44.220][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:44.220][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:44.220][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-08 21:25:44.220][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-08 21:25:44.220][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:44.221][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.221][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.221][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:44.221][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.221][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.222][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.222][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.222][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:44.222][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:44.222][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.223][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.223][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-08 21:25:44.223][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.224][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-08 21:25:44.224][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.224][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:44.224][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.225][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.225][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.225][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.225][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-08 21:25:44.226][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:44.226][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.226][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-08 21:25:44.226][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:44.227][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.227][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.227][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:44.227][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:44.227][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:44.227][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-08 21:25:44.227][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-08 21:25:44.227][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:44.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.228][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.228][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:44.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.229][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.229][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.229][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:44.229][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:44.230][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.230][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.230][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-08 21:25:44.231][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.231][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-08 21:25:44.231][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.231][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:44.232][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.232][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.232][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.232][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.233][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-08 21:25:44.233][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:44.233][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.233][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-08 21:25:44.234][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:44.234][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.234][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.234][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.235][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:44.235][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.235][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.235][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:44.236][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.236][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.236][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.236][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.236][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:44.237][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:44.237][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.237][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.237][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-08 21:25:44.238][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.238][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-08 21:25:44.238][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.239][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:44.239][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.239][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.239][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.240][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.240][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-08 21:25:44.240][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:44.240][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.240][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-08 21:25:44.241][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:44.241][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.241][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.241][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.242][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-08 21:25:44.242][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.242][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.242][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:44.243][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.243][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.243][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.243][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.244][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:44.244][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:44.244][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.244][self$setPropertyValue]
biodb.DEBUG[2024-11-08 21:25:44.245][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:44.245][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.260][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[2024-11-08 21:25:44.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.263][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-08 21:25:44.264][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-08 21:25:44.264][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-08 21:25:44.264][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-08 21:25:44.265][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-08 21:25:44.265][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-08 21:25:44.265][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-08 21:25:44.266][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-08 21:25:44.266][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-08 21:25:44.266][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-08 21:25:44.267][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-08 21:25:44.267][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-08 21:25:44.267][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-08 21:25:44.268][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-08 21:25:44.268][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-08 21:25:44.268][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-08 21:25:44.269][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-08 21:25:44.269][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-08 21:25:44.269][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-08 21:25:44.270][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-08 21:25:44.270][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-08 21:25:44.270][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-08 21:25:44.271][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-08 21:25:44.271][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-08 21:25:44.271][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-08 21:25:44.272][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-08 21:25:44.272][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-08 21:25:44.272][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-08 21:25:44.273][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-08 21:25:44.273][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-08 21:25:44.273][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-08 21:25:44.274][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-08 21:25:44.274][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-08 21:25:44.274][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-08 21:25:44.275][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-08 21:25:44.275][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-08 21:25:44.275][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-08 21:25:44.276][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-08 21:25:44.276][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-08 21:25:44.276][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-08 21:25:44.276][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-08 21:25:44.277][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-08 21:25:44.277][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-08 21:25:44.277][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-08 21:25:44.278][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-08 21:25:44.278][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-08 21:25:44.278][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-08 21:25:44.279][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-08 21:25:44.279][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-08 21:25:44.279][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-08 21:25:44.280][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-08 21:25:44.282][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-08 21:25:44.283][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-08 21:25:44.283][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-08 21:25:44.283][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-08 21:25:44.284][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-08 21:25:44.284][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-08 21:25:44.284][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-08 21:25:44.285][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-08 21:25:44.285][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-08 21:25:44.285][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-08 21:25:44.286][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-08 21:25:44.286][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-08 21:25:44.286][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-08 21:25:44.287][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-08 21:25:44.287][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-08 21:25:44.287][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-08 21:25:44.288][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-08 21:25:44.288][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-08 21:25:44.288][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-08 21:25:44.289][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-08 21:25:44.289][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-08 21:25:44.289][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-08 21:25:44.290][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-08 21:25:44.290][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-08 21:25:44.290][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-08 21:25:44.291][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-08 21:25:44.291][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-08 21:25:44.291][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-08 21:25:44.292][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-08 21:25:44.292][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-08 21:25:44.292][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-08 21:25:44.293][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-08 21:25:44.293][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-08 21:25:44.293][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-08 21:25:44.294][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-08 21:25:44.294][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.294][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.304][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.DEBUG[2024-11-08 21:25:44.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-08 21:25:44.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-08 21:25:44.319][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-11-08 21:25:44.319][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-11-08 21:25:44.320][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.320][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.321][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.321][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-08 21:25:44.321][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.321][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.321][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.322][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-11-08 21:25:44.322][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-08 21:25:44.322][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-08 21:25:44.322][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-11-08 21:25:44.323][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-08 21:25:44.324][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-08 21:25:44.324][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-08 21:25:44.324][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-08 21:25:44.324][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-08 21:25:44.324][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.324][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.325][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-08 21:25:44.325][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-08 21:25:44.325][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-08 21:25:44.325][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-08 21:25:44.326][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-08 21:25:44.326][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-11-08 21:25:44.326][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-08 21:25:44.326][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-08 21:25:44.326][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-08 21:25:44.326][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-11-08 21:25:44.326][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-11-08 21:25:44.327][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-08 21:25:44.327][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-08 21:25:44.328][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-11-08 21:25:44.328][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-08 21:25:44.328][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-08 21:25:44.329][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-08 21:25:44.330][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-11-08 21:25:44.330][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-11-08 21:25:44.330][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-11-08 21:25:44.331][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-11-08 21:25:44.331][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-08 21:25:44.331][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-08 21:25:44.332][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-11-08 21:25:44.332][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-11-08 21:25:44.332][biodb::testThat]
biodb.INFO [2024-11-08 21:25:44.333][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-11-08 21:25:44.333][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-08 21:25:44.333][biodb::testThat]
biodb.DEBUG[2024-11-08 21:25:44.334][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-11-08 21:25:44.335][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:44.335][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-11-08 21:25:44.336][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:44.336][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-11-08 21:25:44.337][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-08 21:25:44.338][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-08 21:25:44.338][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-11-08 21:25:44.339][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:44.339][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-11-08 21:25:44.341][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-11-08 21:25:44.341][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-08 21:25:44.341][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-11-08 21:25:44.342][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-08 21:25:44.343][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2024-11-08 21:25:44.343][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-08 21:25:44.343][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-08 21:25:44.344][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-08 21:25:44.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-08 21:25:44.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-08 21:25:44.348][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:44.348][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:44.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.349][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:44.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:44.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.350][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:44.350][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:44.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.351][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.351][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-08 21:25:44.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-08 21:25:44.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.352][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:44.352][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:44.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.353][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.353][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-08 21:25:44.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-08 21:25:44.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.354][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-08 21:25:44.354][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-08 21:25:44.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.355][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.355][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-08 21:25:44.355][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-08 21:25:44.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.356][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.356][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:44.357][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:44.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.357][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.357][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:44.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-08 21:25:44.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.358][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:44.358][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:44.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.359][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.359][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-08 21:25:44.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-08 21:25:44.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.360][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:44.361][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:44.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.361][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:44.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-08 21:25:44.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.362][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:44.363][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:44.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.363][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-08 21:25:44.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-08 21:25:44.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.367][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:44.367][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:44.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.367][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.368][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-08 21:25:44.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-08 21:25:44.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.369][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:44.369][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:44.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.369][ef$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.370][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-08 21:25:44.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-08 21:25:44.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:44.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:44.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:44.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:44.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:44.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:44.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-08 21:25:44.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-08 21:25:44.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:44.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:44.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:44.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:44.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:44.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:44.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:44.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:44.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:44.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:44.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-08 21:25:44.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-08 21:25:44.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-08 21:25:44.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-08 21:25:44.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-08 21:25:44.379][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-11-08 21:25:44.380][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-08 21:25:44.381][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-11-08 21:25:44.381][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-11-08 21:25:44.381][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-08 21:25:44.381][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-08 21:25:44.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-08 21:25:44.382][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-08 21:25:44.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-08 21:25:44.382][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-08 21:25:44.382][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 358 ]
>
> proc.time()
user system elapsed
4.079 0.196 6.725
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.689 | 0.178 | 2.317 | |
| ChebiEntry | 0.102 | 0.004 | 0.107 | |