Pierrick Roger
| Snapshot Date: 2024-07-02 14:00 -0400 (Tue, 02 Jul 2024) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: devel |
| git_last_commit: dfe3f6c |
| git_last_commit_date: 2024-04-30 11:37:31 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-07-03 11:43 -0400 (Wed, 03 Jul 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4693 |
| palomino6 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4413 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 RC (2024-06-06 r86719) -- "Race for Your Life" | 4407 |
| kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 RC (2024-06-06 r86719) -- "Race for Your Life" | 4356 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4407 |
| 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 197/2243 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.11.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino6 | 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: 1.11.0 |
| 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_1.11.0.tar.gz |
| StartedAt: 2024-07-02 20:32:21 -0400 (Tue, 02 Jul 2024) |
| EndedAt: 2024-07-02 20:33:29 -0400 (Tue, 02 Jul 2024) |
| EllapsedTime: 68.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.11.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck’
* using R version 4.4.1 RC (2024-06-06 r86719)
* 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 13.6.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.11.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking 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 RC (2024-06-06 r86719) -- "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 [2024-07-02 20:32:45.164][biodb::testContext]
biodb.INFO [2024-07-02 20:32:45.166][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-02 20:32:45.166][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-07-02 20:32:45.166][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-02 20:32:45.167][biodb::testContext]
biodb.INFO [2024-07-02 20:32:45.170][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-02 20:32:45.171][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-02 20:32:45.174][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:32:45.175][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-02 20:32:45.175][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-02 20:32:45.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.176][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-02 20:32:45.183][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-02 20:32:45.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.184][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-02 20:32:45.185][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-02 20:32:45.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.186][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-02 20:32:45.186][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-02 20:32:45.186][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-02 20:32:45.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.194][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[2024-07-02 20:32:45.194][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-02 20:32:45.195][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-02 20:32:45.195][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-02 20:32:45.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.196][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-02 20:32:45.196][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-02 20:32:45.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.197][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[2024-07-02 20:32:45.197][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-02 20:32:45.197][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-02 20:32:45.198][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-02 20:32:45.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.199][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-02 20:32:45.199][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-02 20:32:45.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.200][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-02 20:32:45.200][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-02 20:32:45.200][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-02 20:32:45.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.201][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-02 20:32:45.202][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-02 20:32:45.202][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-02 20:32:45.202][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-02 20:32:45.202][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-02 20:32:45.203][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-02 20:32:45.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.203][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[2024-07-02 20:32:45.204][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-02 20:32:45.204][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-02 20:32:45.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.205][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-02 20:32:45.205][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-02 20:32:45.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.206][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[2024-07-02 20:32:45.206][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-02 20:32:45.207][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-02 20:32:45.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.207][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-02 20:32:45.208][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-02 20:32:45.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.208][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[2024-07-02 20:32:45.209][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-02 20:32:45.209][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-02 20:32:45.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.210][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-02 20:32:45.210][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-02 20:32:45.219][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-02 20:32:45.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.220][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-02 20:32:45.220][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-02 20:32:45.221][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-02 20:32:45.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.223][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-02 20:32:45.235][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.241][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-02 20:32:45.241][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.241][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:32:45.242][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.242][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.242][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.242][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.243][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-02 20:32:45.243][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:32:45.243][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.244][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-02 20:32:45.244][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:32:45.244][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.244][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.245][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:32:45.245][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:32:45.245][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:32:45.245][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-02 20:32:45.245][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-02 20:32:45.245][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:32:45.245][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:32:45.245][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:32:45.246][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:32:45.246][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:32:45.246][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:32:45.246][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.247][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.247][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:32:45.247][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:32:45.247][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.248][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.248][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-02 20:32:45.249][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.249][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-02 20:32:45.249][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.249][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:32:45.250][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.250][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.250][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.251][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.251][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-02 20:32:45.251][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:32:45.251][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.252][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-02 20:32:45.252][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:32:45.252][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.253][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.253][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:32:45.253][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:32:45.253][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:32:45.253][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-02 20:32:45.253][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-02 20:32:45.253][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:32:45.253][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:32:45.254][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:32:45.254][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:32:45.254][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:32:45.254][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:32:45.255][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.255][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.255][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:32:45.255][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:32:45.256][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.256][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.256][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-02 20:32:45.257][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.257][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-02 20:32:45.257][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.258][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:32:45.258][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.258][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.259][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.259][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.262][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-02 20:32:45.263][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:32:45.263][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.263][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-02 20:32:45.264][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:32:45.264][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.264][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.265][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.265][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:32:45.265][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:32:45.265][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:32:45.266][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:32:45.266][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:32:45.266][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:32:45.266][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.267][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.267][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:32:45.267][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:32:45.267][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.268][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.268][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-02 20:32:45.268][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.269][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-02 20:32:45.270][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.270][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:32:45.270][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.271][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.271][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.271][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.272][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-02 20:32:45.272][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:32:45.272][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.272][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-02 20:32:45.273][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:32:45.273][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.273][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.273][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.274][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:32:45.274][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:32:45.274][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:32:45.275][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:32:45.275][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:32:45.275][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:32:45.275][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.276][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.276][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:32:45.276][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:32:45.276][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.277][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:32:45.279][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:32:45.279][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.282][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.DEBUG[2024-07-02 20:32:45.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.296][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[2024-07-02 20:32:45.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.297][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[2024-07-02 20:32:45.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.300][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[2024-07-02 20:32:45.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.301][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-02 20:32:45.304][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-02 20:32:45.304][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-02 20:32:45.305][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-02 20:32:45.305][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-02 20:32:45.306][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-02 20:32:45.306][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-02 20:32:45.306][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-02 20:32:45.307][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-02 20:32:45.307][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-02 20:32:45.308][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-02 20:32:45.308][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-02 20:32:45.308][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-02 20:32:45.309][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-02 20:32:45.309][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-02 20:32:45.310][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-02 20:32:45.310][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-02 20:32:45.312][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-02 20:32:45.313][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-02 20:32:45.313][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-02 20:32:45.314][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-02 20:32:45.314][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-02 20:32:45.314][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-02 20:32:45.315][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-02 20:32:45.315][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-02 20:32:45.316][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-02 20:32:45.316][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-02 20:32:45.317][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-02 20:32:45.317][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-02 20:32:45.318][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-02 20:32:45.318][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-02 20:32:45.318][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-02 20:32:45.319][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-02 20:32:45.319][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-02 20:32:45.320][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-02 20:32:45.320][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-02 20:32:45.321][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-02 20:32:45.321][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-02 20:32:45.322][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-02 20:32:45.322][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-02 20:32:45.322][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-02 20:32:45.323][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-02 20:32:45.323][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-02 20:32:45.324][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-02 20:32:45.327][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-02 20:32:45.327][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-02 20:32:45.328][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-02 20:32:45.328][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-02 20:32:45.329][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-02 20:32:45.329][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-02 20:32:45.329][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-02 20:32:45.330][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-02 20:32:45.330][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-02 20:32:45.330][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-02 20:32:45.331][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-02 20:32:45.331][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-02 20:32:45.332][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-02 20:32:45.332][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-02 20:32:45.332][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-02 20:32:45.333][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-02 20:32:45.333][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-02 20:32:45.333][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-02 20:32:45.334][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-02 20:32:45.334][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-02 20:32:45.335][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-02 20:32:45.335][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-02 20:32:45.335][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-02 20:32:45.336][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-02 20:32:45.336][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-02 20:32:45.337][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-02 20:32:45.337][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-02 20:32:45.337][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-02 20:32:45.338][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-02 20:32:45.338][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-02 20:32:45.338][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-02 20:32:45.339][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-02 20:32:45.339][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-02 20:32:45.340][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-02 20:32:45.340][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-02 20:32:45.340][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-02 20:32:45.341][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-02 20:32:45.341][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-02 20:32:45.341][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-02 20:32:45.343][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-02 20:32:45.344][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-02 20:32:45.345][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:32:45.346][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.346][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.351][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[2024-07-02 20:32:45.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.353][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.DEBUG[2024-07-02 20:32:45.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.354][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[2024-07-02 20:32:45.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.356][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[2024-07-02 20:32:45.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.361][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[2024-07-02 20:32:45.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.364][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[2024-07-02 20:32:45.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.366][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[2024-07-02 20:32:45.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.367][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[2024-07-02 20:32:45.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.369][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[2024-07-02 20:32:45.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.370][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[2024-07-02 20:32:45.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.372][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[2024-07-02 20:32:45.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.374][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[2024-07-02 20:32:45.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:32:45.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:45.376][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-02 20:32:45.382][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-02 20:32:45.383][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.383][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.383][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.383][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:32:45.384][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.384][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.384][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.385][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-02 20:32:45.385][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-02 20:32:45.385][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:32:45.385][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-02 20:32:45.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-02 20:32:45.387][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-02 20:32:45.387][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:32:45.387][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:32:45.387][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:32:45.387][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-02 20:32:45.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:32:45.388][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:32:45.388][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:32:45.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:32:45.389][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:32:45.389][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:32:45.389][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:45.389][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-02 20:32:45.390][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:32:45.390][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:32:45.390][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-02 20:32:45.390][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-02 20:32:45.390][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-02 20:32:45.393][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-02 20:32:45.394][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-02 20:32:45.394][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-02 20:32:45.394][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-02 20:32:45.395][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-02 20:32:45.395][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-02 20:32:45.406][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-02 20:32:45.407][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-02 20:32:45.409][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-02 20:32:45.411][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-02 20:32:45.412][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-02 20:32:45.413][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-02 20:32:45.413][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-02 20:32:45.413][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-02 20:32:45.418][biodb::testThat]
biodb.INFO [2024-07-02 20:32:45.418][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-07-02 20:32:45.418][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:32:45.419][biodb::testThat]
biodb.TRACE[2024-07-02 20:32:45.420][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[2024-07-02 20:32:45.421][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:45.422][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:45.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:45.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.433][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.TRACE[2024-07-02 20:32:45.437][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.437][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.438][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.444][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:45.444][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:45.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.445][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.453][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:45.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:45.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.455][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:45.455][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:45.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.455][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.456][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:45.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:45.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.462][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.462][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.462][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.464][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.464][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.465][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.466][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.467][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.467][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.467][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.468][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:45.469][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.469][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.470][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:45.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.471][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.471][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.471][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.473][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.473][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.474][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.474][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.475][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:45.476][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.476][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.477][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:45.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.478][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:45.478][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:45.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.479][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.479][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:45.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:45.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:45.503][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-07-02 20:32:45.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.533][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.535][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.538][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-02 20:32:45.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-02 20:32:45.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.539][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-02 20:32:45.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-02 20:32:45.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.540][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-02 20:32:45.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-02 20:32:45.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.541][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-02 20:32:45.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-02 20:32:45.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.578][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.578][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.578][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.589][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.590][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.590][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.594][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.596][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.597][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.598][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.598][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.598][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.602][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:45.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:45.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.604][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:45.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:45.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.606][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:45.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:45.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.607][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:45.608][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:45.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.608][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.608][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:45.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:45.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.616][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.616][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.616][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.625][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.625][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.625][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.629][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:45.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:45.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.631][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:45.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.632][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:45.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:45.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.636][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:45.636][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:45.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.637][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.637][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:45.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:45.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.641][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.642][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.643][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.644][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.645][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.645][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.645][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.649][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.651][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.652][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.653][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.653][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.654][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.654][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.658][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:45.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:45.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.659][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:45.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:45.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.660][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:45.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:45.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.661][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:45.661][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:45.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.662][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.662][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:45.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:45.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.669][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.669][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.670][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.677][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.678][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.678][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.682][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.682][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.683][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.688][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:45.688][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:45.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.689][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.691][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:45.691][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:45.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.691][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.693][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.693][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.694][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.696][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.696][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.698][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.698][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.699][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.701][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.701][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.702][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.703][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.704][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.706][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.706][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.707][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.709][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.709][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.709][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.711][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:45.711][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:45.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.712][ef$get] fields variable is a list.
biodb.INFO [2024-07-02 20:32:45.715][biodb::testThat]
biodb.INFO [2024-07-02 20:32:45.715][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-07-02 20:32:45.716][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:32:45.716][biodb::testThat]
biodb.DEBUG[2024-07-02 20:32:45.722][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-07-02 20:32:45.726][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:45.728][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-07-02 20:32:45.728][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:32:45.728][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-07-02 20:32:45.729][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:45.737][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:45.737][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:45.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:45.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:45.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:45.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:45.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:45.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:45.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:45.742][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.742][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.743][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.752][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:45.753][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:45.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.753][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.754][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:45.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:45.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.755][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:45.755][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:45.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.756][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.756][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:45.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:45.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.757][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.758][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.758][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:45.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:45.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.760][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.760][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.761][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:45.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.762][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.763][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.763][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.765][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:45.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.766][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:45.766][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.767][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.767][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:45.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:45.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.768][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.768][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.769][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:45.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.770][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.771][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.771][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.771][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.773][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:45.773][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.773][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.774][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:45.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:45.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.775][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:45.775][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:45.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.775][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.776][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:45.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:45.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:45.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:45.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:45.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:45.791][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-07-02 20:32:45.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-02 20:32:45.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-02 20:32:45.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-02 20:32:45.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-02 20:32:45.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-02 20:32:45.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-02 20:32:45.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-02 20:32:45.800][biodb::testThat]
biodb.INFO [2024-07-02 20:32:45.800][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-07-02 20:32:45.800][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:32:45.801][biodb::testThat]
biodb.TRACE[2024-07-02 20:32:45.802][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.802][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.802][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:45.803][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-07-02 20:32:45.814][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:45.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:45.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:45.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:45.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:45.818][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-07-02 20:32:45.820][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-02 20:32:45.827][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:32:45.834][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-02 20:32:45.835][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:32:45.835][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-02 20:32:45.843][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[2024-07-02 20:32:45.844][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:45.844][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:45.845][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:32:46.625][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:32:47.107][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:47.108][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-07-02 20:32:47.113][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-07-02 20:32:47.114][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-07-02 20:32:47.118][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:47.119][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:47.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.119][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.120][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:47.125][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:47.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.127][ef$get] fields variable is a list.
biodb.INFO [2024-07-02 20:32:47.129][biodb::testThat]
biodb.INFO [2024-07-02 20:32:47.129][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-07-02 20:32:47.129][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:32:47.130][biodb::testThat]
biodb.TRACE[2024-07-02 20:32:47.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:47.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:47.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:47.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:47.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:47.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:47.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:47.167][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-02 20:32:47.168][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:32:47.169][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-02 20:32:47.169][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:32:47.170][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-07-02 20:32:47.179][biodb::testThat]
biodb.INFO [2024-07-02 20:32:47.179][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-07-02 20:32:47.180][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:32:47.180][biodb::testThat]
biodb.TRACE[2024-07-02 20:32:47.187][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:47.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:47.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:47.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:47.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:47.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:47.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:47.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:47.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:47.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:47.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:47.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:47.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.194][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-02 20:32:47.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-02 20:32:47.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.195][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-02 20:32:47.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-02 20:32:47.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.200][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-02 20:32:47.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-02 20:32:47.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.202][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-02 20:32:47.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-02 20:32:47.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:47.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:47.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.210][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:47.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:47.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:47.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:47.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:47.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:47.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:47.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:47.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:47.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:47.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.218][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-02 20:32:47.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-02 20:32:47.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.219][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-02 20:32:47.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-02 20:32:47.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.220][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-02 20:32:47.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-02 20:32:47.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:47.221][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-02 20:32:47.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-02 20:32:47.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:47.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-02 20:32:47.225][biodb::testThat]
biodb.INFO [2024-07-02 20:32:47.225][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-07-02 20:32:47.225][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:32:47.225][biodb::testThat]
biodb.INFO [2024-07-02 20:32:47.228][biodb::testThat]
biodb.INFO [2024-07-02 20:32:47.229][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-07-02 20:32:47.229][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:32:47.230][biodb::testThat]
biodb.INFO [2024-07-02 20:32:47.233][biodb::testThat]
biodb.INFO [2024-07-02 20:32:47.233][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-07-02 20:32:47.234][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:32:47.234][biodb::testThat]
biodb.DEBUG[2024-07-02 20:32:47.235][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-07-02 20:32:47.716][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-07-02 20:32:48.674][biodb::testThat]
biodb.INFO [2024-07-02 20:32:48.674][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-07-02 20:32:48.675][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:32:48.675][biodb::testThat]
biodb.DEBUG[2024-07-02 20:32:49.047][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[2024-07-02 20:32:49.420][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:49.420][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:49.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:49.421][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:49.421][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:49.422][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:49.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:49.422][ef$get] fields variable is a list.
biodb.INFO [2024-07-02 20:32:49.423][biodb::testThat]
biodb.INFO [2024-07-02 20:32:49.423][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2024-07-02 20:32:49.424][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:32:49.424][biodb::testThat]
biodb.TRACE[2024-07-02 20:32:49.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:49.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:49.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:49.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:49.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:49.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:49.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:49.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:49.430][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:49.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:49.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:49.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:49.463][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.INFO [2024-07-02 20:32:49.464][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2024-07-02 20:32:49.469][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:49.470][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:49.475][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:32:49.950][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:32:50.430][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2024-07-02 20:32:50.431][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-07-02 20:32:50.431][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-07-02 20:32:50.433][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-07-02 20:32:50.458][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[2024-07-02 20:32:50.460][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:32:50.460][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-02 20:32:50.461][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:32:50.461][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-07-02 20:32:50.466][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-02 20:32:50.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-02 20:32:50.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:50.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:50.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:50.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:50.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:50.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:50.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:50.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:50.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:50.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:50.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:50.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:50.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:50.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:50.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:50.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:50.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:50.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:50.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:50.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:50.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:50.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:50.480][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[2024-07-02 20:32:50.481][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:50.482][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:50.482][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:32:50.815][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:32:51.152][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:51.153][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-07-02 20:32:51.155][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-07-02 20:32:51.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:51.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:51.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:51.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:51.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:51.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:51.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:51.159][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-07-02 20:32:51.174][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:51.175][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-07-02 20:32:51.175][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:51.176][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:51.176][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:51.176][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:51.177][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:51.177][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:51.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:51.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:51.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:51.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:51.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:51.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:51.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:51.186][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-07-02 20:32:51.187][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:51.187][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:51.188][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-07-02 20:32:51.527][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-07-02 20:32:51.870][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:51.871][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-07-02 20:32:51.872][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-07-02 20:32:51.873][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-07-02 20:32:51.874][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:32:51.874][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:51.875][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:51.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:51.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:51.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:51.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:51.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:51.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:51.879][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.TRACE[2024-07-02 20:32:51.880][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:51.880][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:51.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.881][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:51.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:51.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.882][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:51.883][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:51.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.883][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.883][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:51.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:51.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.885][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:51.885][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:51.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.885][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.886][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:51.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:51.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.887][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:51.888][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:51.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.888][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:51.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:51.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.889][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:51.890][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:51.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.890][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:51.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:51.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.892][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:51.892][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:51.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.892][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.893][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:51.893][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:51.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.894][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.894][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:51.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:51.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.895][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:51.895][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:51.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.896][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:51.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:51.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.897][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:51.898][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:51.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.898][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:51.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:51.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.900][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:51.900][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:51.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.901][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.901][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:51.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:51.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.907][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:51.908][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:51.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.908][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.909][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:51.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:51.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:51.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:51.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:51.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:51.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:51.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:51.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:51.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:51.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:51.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:51.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:51.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:51.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:51.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:51.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:51.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:51.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:51.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:51.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:51.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:51.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:51.921][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-07-02 20:32:51.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:51.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:51.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:51.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:51.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:51.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:51.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:51.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:51.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:51.929][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-02 20:32:51.930][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:51.931][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:51.931][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:32:52.269][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:32:52.602][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:52.603][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-07-02 20:32:52.605][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-07-02 20:32:52.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:52.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:52.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:52.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:52.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:52.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:52.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:52.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:52.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:52.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:52.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:52.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:52.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:52.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:52.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:52.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:52.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:52.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:52.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:52.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:52.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:52.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:52.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:52.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:52.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:52.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:52.625][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-07-02 20:32:52.626][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:52.626][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-07-02 20:32:52.626][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:52.627][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:52.627][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:52.627][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:52.628][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:52.628][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:52.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:52.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:52.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:52.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:52.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:52.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:52.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:52.636][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-07-02 20:32:52.637][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:52.637][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:52.638][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-07-02 20:32:52.979][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-07-02 20:32:53.323][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:53.324][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-07-02 20:32:53.325][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-07-02 20:32:53.326][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-07-02 20:32:53.327][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:32:53.327][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:53.327][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:53.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:53.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:53.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:53.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:53.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:53.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:53.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:53.332][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:53.333][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:53.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.333][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:53.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:53.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.335][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:53.340][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:53.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.340][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.341][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:53.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:53.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.342][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:53.342][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:53.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.342][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.343][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:53.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:53.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.344][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:53.344][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:53.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.345][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:53.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:53.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.346][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:53.347][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:53.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.347][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:53.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:53.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.349][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:53.349][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:53.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.349][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.350][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:53.350][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.350][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.351][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:53.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.352][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:53.352][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:53.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.353][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:53.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:53.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.354][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:53.354][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:53.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.355][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.355][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:53.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:53.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.356][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:53.357][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:53.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.357][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.357][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:53.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:53.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.358][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:53.359][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:53.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.359][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.360][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:53.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:53.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:53.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:53.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:53.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:53.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:53.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:53.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:53.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:53.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:53.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:53.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:53.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:53.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:53.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:53.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:53.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:53.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:53.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:53.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:53.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:53.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:53.375][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-07-02 20:32:53.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:53.386][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[2024-07-02 20:32:53.387][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:32:53.388][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-02 20:32:53.388][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:32:53.388][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-02 20:32:53.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:53.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:53.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:53.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:53.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:53.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:53.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:53.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:53.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:53.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:53.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:53.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:53.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:53.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:53.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:53.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:53.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:53.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:53.400][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-07-02 20:32:53.400][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:53.400][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-07-02 20:32:53.401][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:53.401][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:53.401][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:53.402][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:53.402][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:53.402][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:53.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:53.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:53.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:53.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:53.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:53.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:53.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:53.407][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-07-02 20:32:53.408][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:53.408][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:53.408][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-07-02 20:32:54.139][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-07-02 20:32:54.479][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:54.480][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-07-02 20:32:54.481][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-07-02 20:32:54.482][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-07-02 20:32:54.483][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:32:54.483][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:54.484][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:54.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:54.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:54.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:54.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:54.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:54.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:54.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:54.489][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:54.489][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:54.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.489][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:54.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:54.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.491][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:54.491][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:54.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.492][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:54.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:54.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.493][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.493][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:54.494][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:54.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.495][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.495][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:54.496][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:54.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.496][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.496][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:54.497][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:54.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.497][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.498][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:54.498][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.498][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.499][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:54.499][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:54.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.499][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.500][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:54.500][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:54.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.501][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.501][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:54.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:54.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.502][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:54.502][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:54.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.503][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.503][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:54.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:54.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.504][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:54.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:54.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.505][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:54.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:54.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:54.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:54.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:54.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:54.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:54.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:54.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:54.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:54.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:54.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:54.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:54.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:54.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:54.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:54.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:54.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:54.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:54.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:54.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:54.519][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-07-02 20:32:54.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:54.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:54.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:54.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:54.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:54.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:54.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:54.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:54.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:54.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:54.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:54.528][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-07-02 20:32:54.529][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:54.529][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-07-02 20:32:54.530][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:54.530][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:54.530][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:54.530][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:54.531][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:54.531][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:54.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:54.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:54.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:54.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:54.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:54.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:54.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:54.535][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-07-02 20:32:54.536][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:54.537][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:54.537][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-07-02 20:32:54.887][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-07-02 20:32:55.247][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:55.248][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-07-02 20:32:55.249][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-07-02 20:32:55.250][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-07-02 20:32:55.251][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:32:55.251][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:55.252][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:55.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:55.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:55.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:55.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:55.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:55.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:55.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:55.256][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:55.256][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:55.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.257][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:55.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:55.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.259][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:55.259][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:55.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.264][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.264][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:55.265][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:55.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.265][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.266][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:55.266][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:55.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.267][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.267][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:55.267][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:55.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.268][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.268][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:55.269][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:55.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.269][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:55.270][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.270][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.271][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:55.271][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:55.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.271][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.272][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:55.272][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:55.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.273][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.273][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:55.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:55.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.274][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:55.275][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:55.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.275][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.275][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:55.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:55.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.277][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:55.277][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:55.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.277][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:55.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:55.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:55.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:55.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:55.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:55.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:55.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:55.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:55.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:55.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:55.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:55.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:55.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:55.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:55.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:55.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:55.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:55.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:55.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:55.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:55.289][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-07-02 20:32:55.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:55.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:55.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:55.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:55.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:55.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:55.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:55.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:55.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:55.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:55.313][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[2024-07-02 20:32:55.313][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-07-02 20:32:55.314][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:55.314][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-07-02 20:32:55.315][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:55.315][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:55.315][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:55.316][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:55.316][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:55.316][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:55.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:55.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:55.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:55.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:55.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:55.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:55.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:55.320][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2024-07-02 20:32:55.321][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:55.321][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:55.322][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2024-07-02 20:32:55.680][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2024-07-02 20:32:56.012][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:56.013][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2024-07-02 20:32:56.014][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2024-07-02 20:32:56.015][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2024-07-02 20:32:56.015][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:32:56.016][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:56.016][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:56.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:56.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:56.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:56.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:56.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:56.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:56.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:56.021][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.022][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.024][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:56.024][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:56.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.024][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.025][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:56.025][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:56.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.025][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.026][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:56.026][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:56.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.027][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.027][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:56.027][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:56.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.028][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.028][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:56.028][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:56.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.029][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.029][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:56.030][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.030][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.030][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:56.031][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:56.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.031][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.032][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:56.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:56.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.032][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:56.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:56.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.034][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:56.034][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:56.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.039][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.039][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:56.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:56.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.041][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:56.041][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:56.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.042][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:56.053][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-07-02 20:32:56.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:56.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:56.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:56.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:56.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:56.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:56.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:56.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:56.063][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-07-02 20:32:56.063][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:56.064][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-07-02 20:32:56.064][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:56.064][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:56.065][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:56.065][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:56.065][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:56.066][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:56.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:56.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:56.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:56.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:56.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:56.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:56.070][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[2024-07-02 20:32:56.070][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2024-07-02 20:32:56.071][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:56.071][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:56.072][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2024-07-02 20:32:56.424][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2024-07-02 20:32:56.765][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:56.767][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2024-07-02 20:32:56.768][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2024-07-02 20:32:56.769][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2024-07-02 20:32:56.770][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:32:56.770][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:56.770][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:56.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:56.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:56.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:56.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:56.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:56.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:56.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:56.775][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.776][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.776][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.778][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:56.778][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:56.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.779][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.779][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:56.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:56.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.780][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:56.781][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:56.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.781][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.781][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:56.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:56.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:56.783][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:56.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:56.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:56.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.785][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:56.785][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:56.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.786][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:56.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:56.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.787][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:56.787][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:56.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.788][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.788][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:56.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:56.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.789][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:56.790][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.791][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:56.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.792][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:56.792][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:56.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.792][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:56.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:56.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.794][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:56.794][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:56.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.795][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.795][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:56.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:56.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.796][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:56.797][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:56.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.797][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.798][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:56.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:56.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.799][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:56.799][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:56.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.802][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.803][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:56.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:56.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:56.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:56.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:56.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:56.816][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-07-02 20:32:56.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:56.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:56.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:56.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:56.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:56.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:56.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:56.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:56.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:56.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:56.823][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[2024-07-02 20:32:56.823][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-07-02 20:32:56.823][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:56.824][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-07-02 20:32:56.824][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:56.825][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:56.825][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:56.825][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:56.826][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:56.826][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:56.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:56.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:56.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:56.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:56.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:56.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:56.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:56.830][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2024-07-02 20:32:56.831][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:56.831][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:56.832][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2024-07-02 20:32:57.183][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2024-07-02 20:32:57.524][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:57.525][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2024-07-02 20:32:57.526][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2024-07-02 20:32:57.528][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2024-07-02 20:32:57.529][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:32:57.529][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:57.529][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:57.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:57.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:57.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:57.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:57.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:57.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:57.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:57.541][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:57.541][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:57.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.541][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:57.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:57.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.543][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:57.544][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:57.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.544][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.545][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:57.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:57.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.546][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:57.546][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:57.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.547][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:57.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:57.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.548][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:57.548][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:57.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.549][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.549][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:57.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:57.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.550][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:57.551][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:57.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.552][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:57.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:57.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.553][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:57.553][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:57.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.554][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.554][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:57.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:57.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.555][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:57.555][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:57.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.556][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.556][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:57.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:57.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.557][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:57.557][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:57.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.558][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:57.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:57.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.559][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:57.560][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:57.560][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.560][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:57.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:57.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.562][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:57.562][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:57.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.563][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.563][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:57.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:57.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.564][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:57.564][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:57.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.565][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.565][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:57.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:57.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:57.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:57.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:57.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:57.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:57.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:57.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:57.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:57.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:57.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:57.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:57.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:57.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:57.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:57.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:57.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:57.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:57.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:57.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:57.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:57.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:57.583][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-07-02 20:32:57.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:57.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:57.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:57.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:57.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:57.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:57.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:57.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:57.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:57.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:57.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:57.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:57.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:57.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:57.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:57.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:57.591][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-07-02 20:32:57.591][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:57.592][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-07-02 20:32:57.592][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:57.593][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:57.593][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:57.594][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:57.594][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:57.594][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:57.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:57.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:57.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:57.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:57.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:57.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:57.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:57.599][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2024-07-02 20:32:57.600][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:57.600][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:57.601][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2024-07-02 20:32:57.942][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2024-07-02 20:32:58.274][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:58.274][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2024-07-02 20:32:58.276][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2024-07-02 20:32:58.276][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2024-07-02 20:32:58.277][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:32:58.277][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:58.278][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:58.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:58.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:58.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:58.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:58.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:58.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:58.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:58.282][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:58.283][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:58.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.287][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:58.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:58.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.289][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:58.289][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:58.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.290][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.290][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:58.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:58.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.291][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:58.291][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:58.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.292][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:58.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:58.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.293][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:58.294][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:58.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.294][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:58.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:58.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.296][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:58.296][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:58.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.296][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:58.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:58.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.298][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:58.298][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:58.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.299][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.299][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:58.299][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:58.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.300][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.300][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:58.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:58.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.301][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:58.302][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:58.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.302][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:58.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:58.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.303][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:58.304][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:58.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.304][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.305][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:58.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:58.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.306][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:58.306][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:58.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.306][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.307][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:58.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:58.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.308][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:58.308][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:58.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.308][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.309][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:58.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:58.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:58.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:58.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:58.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:58.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:58.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:58.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:58.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:58.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:58.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:58.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:58.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:58.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:58.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:58.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:58.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:58.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:58.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:58.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:58.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:58.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:58.323][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-07-02 20:32:58.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:58.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:58.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:58.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:58.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:58.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:58.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:58.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:58.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:58.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:58.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:58.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:58.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:58.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:58.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:58.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:58.330][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-07-02 20:32:58.331][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:58.331][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-07-02 20:32:58.332][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:58.332][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:58.332][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:58.332][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:58.333][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:58.333][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:58.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:58.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:58.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:58.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:58.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:58.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:58.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:58.337][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2024-07-02 20:32:58.338][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:58.338][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:58.339][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2024-07-02 20:32:58.684][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2024-07-02 20:32:59.019][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:59.020][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2024-07-02 20:32:59.021][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2024-07-02 20:32:59.022][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2024-07-02 20:32:59.023][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:32:59.023][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:59.024][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:59.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:59.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:59.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:59.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:59.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:59.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:59.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:59.028][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.029][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.029][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.031][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:59.031][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:59.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.032][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.032][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:59.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:59.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.033][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:59.033][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:59.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.038][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.039][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:59.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:59.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.040][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:59.041][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:59.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.041][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:59.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:59.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.043][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:59.043][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:59.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.043][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:59.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:59.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.045][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:59.045][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:59.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.046][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.046][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:59.047][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.047][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.047][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:59.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.049][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:59.049][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:59.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.050][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:59.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:59.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.051][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:59.052][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:59.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.052][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.053][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:59.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:59.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.054][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:59.054][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:59.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.054][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.055][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:59.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:59.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.056][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:59.056][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:59.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.057][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.057][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:59.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:59.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:59.069][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-07-02 20:32:59.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:59.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:59.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:59.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:59.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:59.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:59.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:59.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:59.081][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-07-02 20:32:59.081][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:59.082][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-07-02 20:32:59.082][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:59.082][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:59.083][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:59.083][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:59.083][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:59.084][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:59.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:59.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:59.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:59.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:59.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:59.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:59.088][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[2024-07-02 20:32:59.089][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2024-07-02 20:32:59.090][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:59.090][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:59.091][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2024-07-02 20:32:59.430][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2024-07-02 20:32:59.767][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:32:59.768][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2024-07-02 20:32:59.770][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2024-07-02 20:32:59.771][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2024-07-02 20:32:59.771][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:32:59.771][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:32:59.772][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:32:59.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:59.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:59.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:59.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:59.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:59.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:59.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:32:59.776][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.777][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.777][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.779][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:59.779][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:59.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.779][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.780][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:32:59.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:32:59.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.781][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:59.781][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:59.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.782][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.782][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:32:59.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:32:59.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:59.783][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:59.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.784][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:32:59.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:32:59.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.785][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:59.785][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:59.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:32:59.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:32:59.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.792][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:59.793][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:32:59.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.793][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.794][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:59.794][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.795][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.795][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:32:59.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.796][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:59.796][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:59.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.797][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:59.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:32:59.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.798][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:59.799][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:59.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.799][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:32:59.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:32:59.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.801][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:59.801][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:59.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.801][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.802][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:32:59.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:32:59.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.803][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:59.803][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:59.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.804][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.804][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:32:59.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:32:59.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:32:59.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:32:59.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:32:59.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:59.816][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-07-02 20:32:59.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:32:59.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:32:59.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:32:59.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:32:59.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:59.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:59.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:59.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:59.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:59.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:59.825][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[2024-07-02 20:32:59.825][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-07-02 20:32:59.826][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:32:59.826][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-07-02 20:32:59.827][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:32:59.827][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:32:59.827][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:32:59.827][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:32:59.828][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:32:59.828][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:32:59.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:32:59.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:32:59.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:32:59.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:32:59.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:32:59.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:32:59.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:32:59.832][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2024-07-02 20:32:59.833][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:32:59.833][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:32:59.834][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2024-07-02 20:33:00.171][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2024-07-02 20:33:00.504][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:00.505][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2024-07-02 20:33:00.506][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2024-07-02 20:33:00.507][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2024-07-02 20:33:00.508][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:00.508][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:00.508][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:00.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:00.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:00.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:00.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:00.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:00.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:00.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:00.513][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:00.513][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:00.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.514][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:00.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:00.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.515][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:00.516][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:00.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.516][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.517][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:00.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:00.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.518][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:00.518][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:00.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.518][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.519][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:00.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:00.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.520][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:00.520][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:00.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.521][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:00.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:00.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.522][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:00.522][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:00.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.523][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.523][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:00.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:00.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.524][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:00.524][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:00.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.525][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.525][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:00.526][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:00.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.526][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:00.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:00.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.531][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:00.532][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:00.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.532][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:00.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:00.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.533][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:00.534][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:00.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.535][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:00.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:00.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.536][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:00.536][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:00.536][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.537][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:00.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:00.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.538][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:00.538][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:00.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.539][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.539][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:00.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:00.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:00.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:00.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:00.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:00.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:00.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:00.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:00.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:00.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:00.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:00.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:00.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:00.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:00.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:00.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:00.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:00.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:00.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:00.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:00.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:00.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:00.550][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-07-02 20:33:00.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:00.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:00.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:00.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:00.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:00.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:00.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:00.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:00.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:00.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:00.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:00.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:00.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:00.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:00.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:00.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:00.557][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-07-02 20:33:00.557][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:00.558][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-07-02 20:33:00.558][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:00.559][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:00.559][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:00.559][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:00.559][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:00.560][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:00.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:00.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:00.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:00.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:00.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:00.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:00.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:00.567][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2024-07-02 20:33:00.568][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:00.568][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:00.569][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2024-07-02 20:33:00.914][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2024-07-02 20:33:01.247][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:01.248][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2024-07-02 20:33:01.249][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2024-07-02 20:33:01.250][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2024-07-02 20:33:01.251][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:01.251][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:01.251][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:01.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:01.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:01.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:01.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:01.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:01.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:01.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:01.257][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:01.257][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:01.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.257][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:01.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:01.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.259][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:01.259][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:01.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.260][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.260][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:01.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:01.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.261][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:01.262][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:01.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.262][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.262][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:01.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:01.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.264][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:01.264][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:01.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.264][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.265][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:01.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:01.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.266][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:01.266][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:01.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.267][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:01.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:01.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.268][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:01.268][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:01.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.269][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:01.270][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:01.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.270][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.270][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:01.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:01.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.271][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:01.272][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:01.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.272][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:01.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:01.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.274][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:01.274][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:01.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.275][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.279][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:01.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:01.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.280][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:01.280][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:01.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.281][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.281][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:01.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:01.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.282][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:01.283][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:01.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.283][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.284][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:01.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:01.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:01.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:01.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:01.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:01.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:01.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:01.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:01.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:01.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:01.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:01.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:01.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:01.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:01.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:01.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:01.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:01.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:01.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:01.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:01.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:01.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:01.295][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-07-02 20:33:01.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:01.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:01.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:01.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:01.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:01.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:01.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:01.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:01.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:01.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:01.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:01.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:01.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:01.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:01.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:01.302][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[2024-07-02 20:33:01.302][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-07-02 20:33:01.303][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:01.303][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-07-02 20:33:01.303][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:01.304][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:01.304][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:01.304][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:01.305][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:01.305][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:01.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:01.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:01.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:01.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:01.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:01.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:01.309][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[2024-07-02 20:33:01.309][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2024-07-02 20:33:01.310][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:01.313][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:01.314][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2024-07-02 20:33:01.649][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2024-07-02 20:33:01.990][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:01.991][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2024-07-02 20:33:01.992][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2024-07-02 20:33:01.993][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2024-07-02 20:33:01.994][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:01.994][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:01.995][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:01.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:01.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:01.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:01.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:01.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:01.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:01.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:01.999][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.000][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.000][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.002][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:02.002][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:02.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.002][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.003][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:02.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:02.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.004][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:02.004][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:02.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.005][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.005][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:02.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:02.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.006][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:02.006][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:02.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.007][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.007][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:02.007][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:02.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.008][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.008][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:02.009][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:02.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.009][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.009][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:02.010][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.010][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.010][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:02.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.011][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:02.012][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:02.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.012][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:02.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:02.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.014][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:02.014][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:02.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.014][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:02.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:02.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.027][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:02.028][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:02.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.028][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.029][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:02.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:02.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.030][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:02.030][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:02.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.031][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:02.047][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-07-02 20:33:02.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:02.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:02.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:02.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:02.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:02.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:02.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:02.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:02.054][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-07-02 20:33:02.055][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:02.055][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-07-02 20:33:02.056][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:02.056][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:02.056][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:02.057][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:02.057][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:02.057][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:02.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:02.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:02.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:02.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:02.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:02.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:02.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:02.061][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2024-07-02 20:33:02.062][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:02.063][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:02.063][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2024-07-02 20:33:02.408][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2024-07-02 20:33:02.845][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:02.846][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2024-07-02 20:33:02.847][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2024-07-02 20:33:02.848][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2024-07-02 20:33:02.849][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:02.849][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:02.850][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:02.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:02.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:02.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:02.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:02.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:02.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:02.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:02.858][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.859][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.859][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.861][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:02.861][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:02.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.862][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.862][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:02.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:02.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.863][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:02.863][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:02.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.864][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.864][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:02.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:02.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.866][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:02.866][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:02.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.866][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.867][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:02.867][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:02.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.868][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.868][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:02.868][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:02.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.869][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.869][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:02.869][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.870][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.870][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:02.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.872][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:02.872][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:02.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.872][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:02.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:02.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.874][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:02.874][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:02.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.875][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.875][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:02.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:02.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.876][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:02.877][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:02.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.877][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.877][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:02.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:02.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.879][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:02.879][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:02.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.879][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:02.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:02.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:02.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:02.897][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-07-02 20:33:02.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:02.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:02.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:02.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:02.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:02.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:02.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:02.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:02.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:02.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:02.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:02.904][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-07-02 20:33:02.905][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:02.905][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-07-02 20:33:02.906][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:02.906][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:02.907][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:02.907][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:02.907][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:02.907][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:02.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:02.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:02.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:02.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:02.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:02.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:02.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:02.912][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2024-07-02 20:33:02.913][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:02.913][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:02.914][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2024-07-02 20:33:03.267][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2024-07-02 20:33:03.657][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:03.658][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2024-07-02 20:33:03.659][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2024-07-02 20:33:03.660][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2024-07-02 20:33:03.660][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:03.661][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:03.661][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:03.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:03.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:03.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:03.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:03.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:03.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:03.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:03.666][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:03.666][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:03.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.667][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:03.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:03.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.668][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:03.669][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:03.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.669][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.670][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:03.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:03.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.671][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:03.672][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:03.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.672][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.673][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:03.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:03.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.678][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:03.678][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:03.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.679][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:03.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:03.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.680][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:03.681][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:03.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.681][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:03.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:03.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.683][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:03.683][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:03.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.684][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.684][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:03.684][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:03.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.685][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.685][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:03.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:03.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.686][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:03.686][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:03.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.687][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:03.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:03.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.688][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:03.689][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:03.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.689][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.690][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:03.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:03.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.691][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:03.691][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:03.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.691][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.692][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:03.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:03.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.693][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:03.693][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:03.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.694][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.694][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:03.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:03.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:03.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:03.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:03.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:03.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:03.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:03.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:03.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:03.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:03.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:03.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:03.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:03.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:03.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:03.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:03.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:03.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:03.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:03.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:03.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:03.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:03.705][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-07-02 20:33:03.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:03.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:03.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:03.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:03.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:03.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:03.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:03.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:03.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:03.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:03.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:03.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:03.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:03.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:03.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:03.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:03.716][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-07-02 20:33:03.716][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:03.717][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-07-02 20:33:03.717][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:03.717][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:03.718][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:03.718][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:03.718][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:03.718][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:03.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:03.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:03.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:03.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:03.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:03.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:03.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:03.723][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2024-07-02 20:33:03.724][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:03.724][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:03.724][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2024-07-02 20:33:04.112][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2024-07-02 20:33:04.451][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:04.452][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2024-07-02 20:33:04.454][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2024-07-02 20:33:04.454][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2024-07-02 20:33:04.455][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:04.455][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:04.456][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:04.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:04.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:04.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:04.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:04.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:04.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:04.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:04.460][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:04.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:04.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.461][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:04.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:04.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.463][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:04.463][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:04.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.463][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.464][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:04.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:04.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.465][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:04.465][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:04.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.466][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.466][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:04.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:04.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.467][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:04.467][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:04.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.468][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.468][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:04.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:04.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.469][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:04.470][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:04.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.475][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.477][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:04.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:04.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.479][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:04.479][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:04.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.480][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.481][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:04.481][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:04.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.481][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.482][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:04.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:04.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.483][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:04.483][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:04.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.484][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:04.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:04.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.486][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:04.487][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:04.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:04.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:04.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.489][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:04.489][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:04.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.490][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.490][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:04.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:04.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.491][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:04.492][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:04.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.493][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:04.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:04.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:04.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:04.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:04.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:04.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:04.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:04.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:04.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:04.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:04.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:04.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:04.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:04.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:04.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:04.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:04.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:04.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:04.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:04.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:04.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:04.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:04.505][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-07-02 20:33:04.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:04.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:04.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:04.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:04.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:04.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:04.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:04.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:04.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:04.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:04.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:04.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:04.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:04.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:04.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:04.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:04.516][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-07-02 20:33:04.517][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:04.517][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-07-02 20:33:04.518][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:04.518][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:04.518][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:04.519][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:04.519][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:04.519][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:04.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:04.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:04.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:04.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:04.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:04.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:04.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:04.524][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2024-07-02 20:33:04.525][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:04.525][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:04.526][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2024-07-02 20:33:04.875][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2024-07-02 20:33:05.219][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:05.220][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2024-07-02 20:33:05.221][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2024-07-02 20:33:05.222][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2024-07-02 20:33:05.223][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:05.223][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:05.223][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:05.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:05.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:05.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:05.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:05.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:05.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:05.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:05.228][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.228][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.229][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.230][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:05.231][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:05.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.231][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.232][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:05.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:05.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.233][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:05.233][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:05.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.233][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.234][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:05.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:05.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.235][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:05.235][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:05.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.236][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:05.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:05.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.237][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:05.237][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:05.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.238][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:05.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:05.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.239][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:05.239][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:05.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.240][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.240][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:05.241][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:05.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.241][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.241][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:05.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:05.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.247][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:05.247][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:05.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.248][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:05.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:05.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.250][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:05.250][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:05.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.251][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.251][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:05.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:05.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.253][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:05.253][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:05.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.253][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.254][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:05.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:05.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.255][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:05.255][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:05.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.256][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.256][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:05.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:05.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:05.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:05.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:05.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:05.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:05.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:05.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:05.268][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-07-02 20:33:05.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:05.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:05.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:05.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:05.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:05.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:05.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:05.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:05.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:05.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:05.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:05.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:05.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:05.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:05.275][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-07-02 20:33:05.275][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:05.276][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-07-02 20:33:05.276][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:05.277][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:05.277][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:05.277][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:05.277][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:05.278][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:05.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:05.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:05.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:05.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:05.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:05.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:05.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:05.285][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2024-07-02 20:33:05.286][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:05.287][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:05.287][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2024-07-02 20:33:05.628][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2024-07-02 20:33:05.960][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:05.961][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2024-07-02 20:33:05.962][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2024-07-02 20:33:05.963][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2024-07-02 20:33:05.964][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:05.964][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:05.964][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:05.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:05.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:05.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:05.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:05.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:05.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:05.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:05.969][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.970][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.970][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:05.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:05.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.972][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:05.972][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:05.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.973][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.973][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:05.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:05.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.974][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:05.974][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:05.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.975][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:05.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:05.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.977][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:05.977][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:05.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.977][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:05.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:05.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.979][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:05.979][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:05.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.980][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:05.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:05.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.981][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:05.981][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:05.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.982][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.982][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:05.982][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:05.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.983][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.983][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:05.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:05.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.984][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:05.985][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:05.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.985][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:05.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:05.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.986][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:05.987][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:05.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.987][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:05.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:05.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.994][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:05.994][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:05.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.995][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.995][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:05.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:05.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.996][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:05.996][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:05.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.997][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.997][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:05.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:05.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:05.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:05.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:05.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:05.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:06.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:06.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:06.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:06.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:06.009][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-07-02 20:33:06.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:06.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:06.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:06.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:06.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:06.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:06.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:06.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:06.016][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-07-02 20:33:06.017][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:06.017][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-07-02 20:33:06.017][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:06.018][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:06.018][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:06.018][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:06.019][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:06.019][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:06.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:06.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:06.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:06.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:06.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:06.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:06.023][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.DEBUG[2024-07-02 20:33:06.023][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2024-07-02 20:33:06.024][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:06.024][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:06.028][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2024-07-02 20:33:06.410][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2024-07-02 20:33:06.744][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:06.745][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2024-07-02 20:33:06.747][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2024-07-02 20:33:06.748][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2024-07-02 20:33:06.748][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:06.749][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:06.749][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:06.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:06.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:06.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:06.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:06.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:06.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:06.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:06.753][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.754][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.754][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.756][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:06.756][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:06.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.757][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.757][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:06.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:06.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.758][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:06.758][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:06.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.759][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:06.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:06.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.760][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:06.761][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:06.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.761][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:06.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:06.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.763][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:06.763][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:06.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.764][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:06.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:06.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.765][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:06.766][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:06.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.766][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.767][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:06.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.768][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.768][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:06.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.769][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:06.769][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:06.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.770][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:06.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:06.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.771][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:06.771][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:06.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.772][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:06.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:06.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.773][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:06.774][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:06.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.774][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.775][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:06.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:06.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.776][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:06.776][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:06.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.776][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.781][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:06.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:06.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:06.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:06.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:06.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:06.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:06.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:06.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:06.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:06.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:06.794][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-07-02 20:33:06.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:06.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:06.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:06.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:06.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:06.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:06.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:06.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:06.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:06.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:06.801][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.DEBUG[2024-07-02 20:33:06.801][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-07-02 20:33:06.802][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:06.802][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-07-02 20:33:06.803][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:06.803][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:06.803][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:06.804][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:06.804][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:06.804][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:06.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:06.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:06.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:06.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:06.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:06.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:06.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:06.808][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2024-07-02 20:33:06.809][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:06.809][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:06.810][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2024-07-02 20:33:07.161][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2024-07-02 20:33:07.528][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:07.529][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2024-07-02 20:33:07.530][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2024-07-02 20:33:07.531][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2024-07-02 20:33:07.531][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:07.532][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:07.535][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:07.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:07.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:07.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:07.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:07.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:07.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:07.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:07.541][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:07.541][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:07.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.542][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:07.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:07.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.543][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:07.544][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:07.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.544][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.544][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:07.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:07.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.546][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:07.546][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:07.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.546][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:07.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:07.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.548][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:07.548][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:07.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.549][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.549][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:07.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:07.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.550][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:07.550][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:07.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:07.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:07.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.552][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:07.553][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:07.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.553][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.554][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:07.554][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:07.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.554][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:07.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:07.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.556][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:07.556][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:07.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.556][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:07.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:07.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.558][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:07.558][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:07.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.559][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:07.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:07.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.560][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:07.560][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:07.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.561][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.561][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:07.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:07.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.562][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:07.563][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:07.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.563][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.564][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:07.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:07.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:07.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:07.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:07.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:07.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:07.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:07.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:07.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:07.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:07.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:07.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:07.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:07.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:07.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:07.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:07.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:07.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:07.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:07.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:07.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:07.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:07.580][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-07-02 20:33:07.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:07.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:07.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:07.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:07.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:07.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:07.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:07.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:07.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:07.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:07.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:07.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:07.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:07.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:07.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:07.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:07.587][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-07-02 20:33:07.587][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:07.588][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-07-02 20:33:07.588][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:07.588][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:07.589][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:07.589][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:07.589][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:07.590][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:07.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:07.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:07.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:07.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:07.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:07.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:07.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:07.594][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2024-07-02 20:33:07.595][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:07.595][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:07.595][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2024-07-02 20:33:08.030][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2024-07-02 20:33:08.380][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:08.381][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2024-07-02 20:33:08.382][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2024-07-02 20:33:08.383][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2024-07-02 20:33:08.384][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:08.384][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:08.385][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:08.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.389][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:08.393][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:08.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.395][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:08.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:08.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.397][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:08.397][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:08.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.398][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.398][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:08.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:08.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.399][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:08.399][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:08.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.400][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.400][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:08.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:08.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.401][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:08.402][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:08.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.402][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:08.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:08.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.404][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:08.404][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:08.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.404][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:08.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:08.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.406][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:08.406][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:08.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.407][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.407][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:08.407][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.408][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.408][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:08.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.409][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.410][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.410][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.412][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:08.412][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:08.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.412][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.413][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:08.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:08.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.414][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:08.414][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:08.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.415][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.415][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:08.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:08.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.416][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:08.416][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:08.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.417][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.419][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:08.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:08.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:08.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:08.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:08.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:08.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:08.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:08.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:08.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:08.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:08.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:08.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:08.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:08.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:08.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:08.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:08.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:08.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:08.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:08.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:08.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:08.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.434][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-07-02 20:33:08.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.446][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[2024-07-02 20:33:08.447][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:08.447][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-02 20:33:08.448][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:08.448][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-02 20:33:08.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.520][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[2024-07-02 20:33:08.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.564][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[2024-07-02 20:33:08.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.581][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[2024-07-02 20:33:08.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.587][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[2024-07-02 20:33:08.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:08.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:08.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:08.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:08.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:08.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:08.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:08.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:08.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:08.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:08.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:08.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:08.627][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[2024-07-02 20:33:08.628][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:08.628][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:08.629][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:08.967][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:09.309][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:09.310][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2024-07-02 20:33:09.311][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2024-07-02 20:33:09.313][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-02 20:33:09.314][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:09.314][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:09.315][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:09.655][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:09.997][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:09.998][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2024-07-02 20:33:09.999][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2024-07-02 20:33:10.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:10.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:10.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:10.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:10.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:10.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:10.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:10.004][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-07-02 20:33:10.004][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:10.005][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-07-02 20:33:10.005][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:10.005][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:10.006][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:10.006][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:10.006][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:10.009][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:10.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:10.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:10.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:10.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:10.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:10.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:10.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:10.019][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2024-07-02 20:33:10.020][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:10.020][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:10.021][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2024-07-02 20:33:10.353][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2024-07-02 20:33:10.693][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:10.694][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2024-07-02 20:33:10.695][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2024-07-02 20:33:10.696][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2024-07-02 20:33:10.697][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:10.697][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:10.697][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:10.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:10.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:10.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:10.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:10.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:10.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:10.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:10.703][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:10.703][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:10.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:10.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:10.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.706][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:10.706][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:10.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.706][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.707][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:10.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:10.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.708][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:10.708][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:10.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.709][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.709][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:10.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:10.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.710][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:10.711][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:10.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.711][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:10.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:10.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.713][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:10.713][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:10.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.713][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:10.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:10.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.715][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:10.715][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:10.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.716][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.716][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:10.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:10.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.717][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:10.717][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:10.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.718][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.718][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:10.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:10.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.719][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.719][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.720][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.721][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:10.722][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:10.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.726][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:10.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:10.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.728][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:10.729][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:10.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.729][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.730][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:10.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:10.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.731][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:10.731][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:10.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.731][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.732][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:10.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:10.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:10.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:10.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:10.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:10.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:10.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:10.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:10.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:10.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:10.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:10.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:10.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:10.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:10.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:10.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:10.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:10.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:10.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:10.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:10.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:10.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:10.744][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-07-02 20:33:10.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:10.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:10.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:10.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:10.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:10.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:10.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:10.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:10.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:10.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:10.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:10.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:10.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:10.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:10.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:10.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:10.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:10.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:10.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:10.761][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-07-02 20:33:10.761][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:10.762][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-07-02 20:33:10.763][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:10.763][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:10.763][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:10.764][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:10.764][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:10.764][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:10.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:10.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:10.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:10.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:10.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:10.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:10.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:10.769][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2024-07-02 20:33:10.770][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:10.770][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:10.771][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2024-07-02 20:33:11.137][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2024-07-02 20:33:11.477][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:11.478][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2024-07-02 20:33:11.479][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2024-07-02 20:33:11.480][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2024-07-02 20:33:11.481][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:11.481][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:11.481][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:11.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.485][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.486][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:11.487][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:11.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:11.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:11.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.489][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:11.489][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:11.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.489][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.490][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:11.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:11.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.491][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:11.491][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:11.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.492][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:11.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:11.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.493][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:11.494][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:11.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.494][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:11.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:11.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.496][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:11.496][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:11.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.497][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:11.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:11.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.499][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:11.499][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:11.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.499][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.500][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:11.500][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:11.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.501][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.501][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:11.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:11.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.507][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.507][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.508][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.510][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:11.510][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:11.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.511][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:11.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:11.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.512][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:11.512][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:11.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.513][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.513][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:11.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:11.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.515][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:11.515][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:11.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.516][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.516][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:11.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:11.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:11.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:11.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:11.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:11.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:11.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:11.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:11.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:11.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:11.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:11.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:11.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:11.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:11.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:11.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:11.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:11.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:11.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:11.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:11.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:11.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.532][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-07-02 20:33:11.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.543][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[2024-07-02 20:33:11.544][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:11.547][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-02 20:33:11.548][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:11.549][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-02 20:33:11.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.807][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[2024-07-02 20:33:11.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.817][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[2024-07-02 20:33:11.818][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:11.818][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-02 20:33:11.819][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:11.819][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-02 20:33:11.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.830][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[2024-07-02 20:33:11.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.870][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[2024-07-02 20:33:11.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.901][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[2024-07-02 20:33:11.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.927][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.TRACE[2024-07-02 20:33:11.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:11.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:11.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.981][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-02 20:33:11.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-02 20:33:11.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-02 20:33:11.985][biodb::testThat]
biodb.INFO [2024-07-02 20:33:11.985][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-07-02 20:33:11.985][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:11.986][biodb::testThat]
biodb.TRACE[2024-07-02 20:33:11.987][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-02 20:33:11.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-02 20:33:11.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:11.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:11.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:11.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:11.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:11.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:11.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:11.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:11.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:11.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:11.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:11.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:11.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:11.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:11.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:11.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:11.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:11.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:11.997][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[2024-07-02 20:33:11.998][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:11.999][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-02 20:33:11.999][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:12.000][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-02 20:33:12.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:12.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:12.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:12.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:12.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:12.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:12.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:12.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:12.007][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[2024-07-02 20:33:12.008][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:12.009][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-02 20:33:12.009][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:12.009][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-02 20:33:12.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:12.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:12.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:12.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:12.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:12.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:12.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:12.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:12.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:12.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:12.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:12.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:12.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:12.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:12.020][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.TRACE[2024-07-02 20:33:12.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:12.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:12.023][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-02 20:33:12.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:12.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:12.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:12.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:12.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:12.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:12.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:12.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.029][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.029][private$selectFields]
biodb.TRACE[2024-07-02 20:33:12.029][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:12.029][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:12.030][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.030][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.030][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.037][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.037][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.038][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.038][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.038][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.039][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.040][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:12.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.046][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-02 20:33:12.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:12.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:12.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:12.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:12.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:12.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:12.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:12.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.053][private$selectFields]
biodb.TRACE[2024-07-02 20:33:12.053][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:12.054][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:12.054][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.055][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.055][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.055][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.056][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.056][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.056][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.057][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.057][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.058][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:12.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.061][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-02 20:33:12.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:12.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:12.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:12.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:12.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:12.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:12.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:12.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.067][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.068][private$selectFields]
biodb.TRACE[2024-07-02 20:33:12.068][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:12.068][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:12.068][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.069][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.069][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.070][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.070][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.071][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.071][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:12.071][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.072][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.072][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.072][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:12.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:12.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.076][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-02 20:33:12.076][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-02 20:33:12.077][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-02 20:33:12.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:12.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:12.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:12.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:12.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:12.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:12.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:12.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:12.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:12.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:12.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:12.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:12.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:12.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:12.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:12.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:12.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:12.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:12.110][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[2024-07-02 20:33:12.111][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:12.111][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:12.112][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:12.444][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:12.785][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:12.786][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2024-07-02 20:33:12.788][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2024-07-02 20:33:12.789][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-02 20:33:12.790][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:12.790][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:12.791][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:13.128][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:13.458][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:13.459][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2024-07-02 20:33:13.460][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2024-07-02 20:33:13.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.494][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-02 20:33:13.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.507][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.507][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.507][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.508][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.508][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.508][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.508][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.509][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.509][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.509][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.510][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.510][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.510][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.511][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.511][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.512][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.515][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-02 20:33:13.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.531][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.532][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.532][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.532][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.532][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.533][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.533][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.534][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.534][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.535][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.535][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.538][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.539][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.539][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.540][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.543][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-02 20:33:13.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.549][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.549][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.549][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.550][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.550][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.550][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.550][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.552][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.552][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.552][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.553][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.553][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.553][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.554][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.565][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-02 20:33:13.565][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-02 20:33:13.565][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-02 20:33:13.568][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-02 20:33:13.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-02 20:33:13.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-02 20:33:13.571][biodb::testThat]
biodb.INFO [2024-07-02 20:33:13.571][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-07-02 20:33:13.572][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:13.572][biodb::testThat]
biodb.TRACE[2024-07-02 20:33:13.573][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-02 20:33:13.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-02 20:33:13.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:13.583][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[2024-07-02 20:33:13.584][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:13.585][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-02 20:33:13.585][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:13.586][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-02 20:33:13.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.597][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[2024-07-02 20:33:13.598][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:13.598][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-02 20:33:13.598][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:13.599][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-02 20:33:13.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.603][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[2024-07-02 20:33:13.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.613][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-02 20:33:13.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.616][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[2024-07-02 20:33:13.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.619][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.619][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.619][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.619][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.620][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.620][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.620][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.621][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.621][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.621][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.622][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.622][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.623][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.623][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.623][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.624][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.628][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-02 20:33:13.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.638][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.638][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.638][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.639][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.639][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.640][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.641][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.641][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.641][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.642][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.642][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.642][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.643][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.646][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-02 20:33:13.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.651][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[2024-07-02 20:33:13.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.653][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.654][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.654][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.654][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.655][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.655][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.656][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.656][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.657][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.657][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.658][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.658][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.662][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-02 20:33:13.662][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-02 20:33:13.663][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-02 20:33:13.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:13.675][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[2024-07-02 20:33:13.677][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:13.677][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-02 20:33:13.677][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:13.678][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-02 20:33:13.679][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[2024-07-02 20:33:13.680][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:13.680][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-02 20:33:13.681][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:13.681][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-02 20:33:13.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.692][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[2024-07-02 20:33:13.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.700][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.701][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[2024-07-02 20:33:13.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.705][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-02 20:33:13.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.710][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.711][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.711][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.711][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.711][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.712][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.713][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.713][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.714][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.714][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.714][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.714][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.715][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.718][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-02 20:33:13.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.724][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.724][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.725][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.725][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.725][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.726][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.726][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.726][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.727][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.727][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.727][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.728][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.728][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.729][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.729][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.733][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-02 20:33:13.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.736][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.TRACE[2024-07-02 20:33:13.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.739][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.739][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.739][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.739][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.740][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.740][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.741][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.741][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.742][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.742][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.742][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.742][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.743][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.743][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.743][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.748][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-02 20:33:13.748][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-02 20:33:13.748][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-02 20:33:13.752][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-02 20:33:13.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-02 20:33:13.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-02 20:33:13.754][biodb::testThat]
biodb.INFO [2024-07-02 20:33:13.755][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-07-02 20:33:13.755][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:13.755][biodb::testThat]
biodb.TRACE[2024-07-02 20:33:13.756][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-02 20:33:13.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-02 20:33:13.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:13.767][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[2024-07-02 20:33:13.768][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:13.768][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-02 20:33:13.769][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:13.769][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-02 20:33:13.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.777][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[2024-07-02 20:33:13.778][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:13.778][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-02 20:33:13.779][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:13.779][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-02 20:33:13.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:13.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.793][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-02 20:33:13.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.798][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.799][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.799][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.799][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.799][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.800][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.800][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.804][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.805][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.805][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.805][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.806][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.806][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.809][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-02 20:33:13.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.815][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.815][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.815][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.816][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.816][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.816][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.816][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.817][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.817][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.818][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.818][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.819][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.819][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.819][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.819][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.820][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.823][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-02 20:33:13.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.829][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.829][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.829][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.830][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.830][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.830][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.831][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.832][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.832][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.832][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.833][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.833][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.833][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.834][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.837][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-02 20:33:13.838][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-02 20:33:13.838][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-02 20:33:13.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:13.854][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[2024-07-02 20:33:13.855][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:13.855][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-02 20:33:13.855][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:13.856][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-02 20:33:13.857][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[2024-07-02 20:33:13.858][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:13.858][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-02 20:33:13.858][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:13.859][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-02 20:33:13.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.869][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.TRACE[2024-07-02 20:33:13.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:13.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:13.879][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-02 20:33:13.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.882][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[2024-07-02 20:33:13.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.884][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.885][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.885][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.885][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.885][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.886][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.886][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.886][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.887][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.887][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.888][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.888][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.888][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.888][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.889][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.889][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.893][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-02 20:33:13.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:13.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.898][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.899][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.899][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.899][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.900][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.900][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.903][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.904][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.904][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.905][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.905][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.905][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.905][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.906][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.906][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.910][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-02 20:33:13.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.913][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.TRACE[2024-07-02 20:33:13.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.916][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.916][private$selectFields]
biodb.TRACE[2024-07-02 20:33:13.916][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-02 20:33:13.916][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-02 20:33:13.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.917][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.917][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.918][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.918][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.919][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.919][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.919][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-02 20:33:13.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.920][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.920][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.920][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-02 20:33:13.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:13.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:13.924][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-02 20:33:13.924][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-02 20:33:13.924][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-02 20:33:13.931][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-02 20:33:13.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-02 20:33:13.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:13.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-02 20:33:13.933][biodb::testThat]
biodb.INFO [2024-07-02 20:33:13.934][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-07-02 20:33:13.934][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:13.934][biodb::testThat]
biodb.DEBUG[2024-07-02 20:33:13.935][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-07-02 20:33:13.935][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:13.935][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-07-02 20:33:13.936][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:13.936][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:13.936][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:13.937][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:13.937][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:13.937][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:13.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:13.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:13.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:13.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:13.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:13.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:13.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:13.942][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2024-07-02 20:33:13.943][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:13.943][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:13.943][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2024-07-02 20:33:14.273][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2024-07-02 20:33:14.607][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:14.608][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2024-07-02 20:33:14.610][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2024-07-02 20:33:14.610][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2024-07-02 20:33:14.611][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:14.611][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:14.612][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:14.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:14.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:14.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:14.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:14.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:14.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:14.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:14.616][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:14.617][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:14.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.617][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:14.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:14.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.619][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:14.619][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:14.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.619][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.620][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:14.620][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:14.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.620][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.621][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:14.621][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:14.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.622][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:14.622][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:14.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.623][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.623][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:14.623][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:14.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.624][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.624][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:14.624][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:14.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.625][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.625][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:14.625][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:14.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.626][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.626][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:14.627][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:14.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.627][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.627][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:14.628][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:14.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.628][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.628][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:14.629][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:14.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.629][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:14.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:14.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:14.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:14.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:14.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:14.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:14.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:14.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:14.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:14.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:14.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:14.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:14.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:14.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:14.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:14.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:14.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:14.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:14.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:14.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:14.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:14.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:14.640][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-07-02 20:33:14.640][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-07-02 20:33:14.643][biodb::testThat]
biodb.INFO [2024-07-02 20:33:14.643][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-07-02 20:33:14.644][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:14.644][biodb::testThat]
biodb.DEBUG[2024-07-02 20:33:14.647][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-07-02 20:33:14.648][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-07-02 20:33:14.648][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-07-02 20:33:14.649][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-07-02 20:33:14.649][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-07-02 20:33:14.649][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:14.650][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:14.650][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:14.650][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:14.650][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:14.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:14.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:14.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:14.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:14.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:14.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:14.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:14.655][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2024-07-02 20:33:14.656][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:14.656][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:14.657][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2024-07-02 20:33:14.988][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2024-07-02 20:33:15.322][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:15.323][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2024-07-02 20:33:15.324][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2024-07-02 20:33:15.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:15.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:15.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:15.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:15.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:15.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:15.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:15.329][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2024-07-02 20:33:15.330][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:15.330][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:15.330][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2024-07-02 20:33:15.660][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2024-07-02 20:33:15.999][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:16.000][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2024-07-02 20:33:16.002][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2024-07-02 20:33:16.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:16.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:16.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:16.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:16.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:16.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:16.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:16.013][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2024-07-02 20:33:16.014][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:16.015][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:16.015][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2024-07-02 20:33:16.365][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2024-07-02 20:33:16.700][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:16.700][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2024-07-02 20:33:16.702][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2024-07-02 20:33:16.703][private$doSaveContentToFile] Saving to cache [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2024-07-02 20:33:16.703][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:16.704][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-07-02 20:33:16.704][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:16.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:16.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:16.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:16.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:16.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:16.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:16.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:16.709][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.710][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.710][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.712][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:16.712][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:16.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.713][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.713][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:16.713][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:16.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.714][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.714][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:16.714][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:16.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.715][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:16.716][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:16.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.716][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.716][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:16.717][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:16.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.717][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.718][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:16.718][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:16.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.718][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.719][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:16.719][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:16.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.719][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.720][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:16.720][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:16.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.721][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.721][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:16.721][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:16.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.722][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.722][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:16.722][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:16.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.723][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:16.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:16.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:16.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:16.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:16.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:16.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:16.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:16.736][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.736][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.737][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.738][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:16.739][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:16.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.739][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.739][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:16.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:16.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.741][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:16.741][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:16.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.741][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.742][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:16.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:16.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.743][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:16.743][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:16.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.744][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.744][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:16.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:16.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.745][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:16.745][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:16.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.746][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:16.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:16.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.747][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:16.748][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:16.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.748][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.748][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:16.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:16.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.749][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:16.750][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:16.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.750][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.750][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:16.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:16.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.752][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:16.752][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:16.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.752][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:16.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:16.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.754][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:16.754][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:16.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.755][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.755][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:16.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:16.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.756][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:16.756][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:16.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.757][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.757][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:16.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:16.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.758][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:16.759][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:16.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.759][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.759][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:16.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:16.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:16.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:16.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:16.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:16.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:16.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:16.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:16.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:16.772][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.773][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.773][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.775][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:16.775][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:16.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.776][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.776][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:16.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:16.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.777][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:16.777][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:16.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.778][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.778][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:16.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:16.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.779][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:16.779][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:16.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.780][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:16.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:16.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.781][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:16.782][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:16.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.782][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.782][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:16.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:16.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.783][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:16.784][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:16.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.784][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.785][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:16.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:16.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.786][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:16.786][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:16.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.786][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.787][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:16.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:16.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.788][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:16.788][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:16.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.789][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:16.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:16.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.790][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:16.790][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:16.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.791][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:16.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:16.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.792][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:16.793][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:16.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.793][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.793][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:16.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:16.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.795][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:16.795][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:16.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.799][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.799][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:16.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:16.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:16.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:16.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:16.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:16.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:16.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:16.818][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-07-02 20:33:16.818][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-07-02 20:33:16.818][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-07-02 20:33:16.823][biodb::testThat]
biodb.INFO [2024-07-02 20:33:16.823][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-07-02 20:33:16.823][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:16.824][biodb::testThat]
biodb.INFO [2024-07-02 20:33:16.832][biodb::testThat]
biodb.INFO [2024-07-02 20:33:16.832][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-07-02 20:33:16.832][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:16.833][biodb::testThat]
biodb.INFO [2024-07-02 20:33:16.835][biodb::testThat]
biodb.INFO [2024-07-02 20:33:16.836][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-07-02 20:33:16.836][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:16.836][biodb::testThat]
biodb.DEBUG[2024-07-02 20:33:16.837][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[2024-07-02 20:33:16.838][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:16.839][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:16.839][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:17.261][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:17.729][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:17.730][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2024-07-02 20:33:17.731][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2024-07-02 20:33:17.737][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:17.737][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:17.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:17.738][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:17.738][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:17.739][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:17.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:17.739][ef$get] fields variable is a list.
biodb.INFO [2024-07-02 20:33:17.740][biodb::testThat]
biodb.INFO [2024-07-02 20:33:17.740][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2024-07-02 20:33:17.740][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:17.740][biodb::testThat]
biodb.ERROR[2024-07-02 20:33:17.745][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-07-02 20:33:17.751][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-07-02 20:33:17.755][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-02 20:33:17.756][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-02 20:33:17.756][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-02 20:33:17.756][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-02 20:33:17.756][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.757][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.757][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-02 20:33:17.761][biodb::testContext]
biodb.INFO [2024-07-02 20:33:17.762][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-02 20:33:17.762][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-07-02 20:33:17.762][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-02 20:33:17.762][biodb::testContext]
biodb.INFO [2024-07-02 20:33:17.763][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-02 20:33:17.764][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-02 20:33:17.765][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:33:17.766][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-02 20:33:17.766][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-02 20:33:17.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.767][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-02 20:33:17.767][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-02 20:33:17.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.768][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-02 20:33:17.768][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-02 20:33:17.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.769][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-02 20:33:17.770][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-02 20:33:17.770][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-02 20:33:17.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.771][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-02 20:33:17.771][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-02 20:33:17.771][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-02 20:33:17.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.772][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-02 20:33:17.773][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-02 20:33:17.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.773][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-02 20:33:17.774][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-02 20:33:17.774][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-02 20:33:17.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.775][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-02 20:33:17.775][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-02 20:33:17.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.776][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-02 20:33:17.776][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-02 20:33:17.777][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-02 20:33:17.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.778][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-02 20:33:17.778][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-02 20:33:17.778][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-02 20:33:17.779][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-02 20:33:17.779][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-02 20:33:17.779][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-02 20:33:17.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.780][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-02 20:33:17.780][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-02 20:33:17.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.781][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-02 20:33:17.781][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-02 20:33:17.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.782][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-02 20:33:17.783][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-02 20:33:17.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.784][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-02 20:33:17.784][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-02 20:33:17.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.785][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-02 20:33:17.785][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-02 20:33:17.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.786][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-02 20:33:17.786][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-02 20:33:17.792][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-02 20:33:17.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.794][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-02 20:33:17.794][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-02 20:33:17.794][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-02 20:33:17.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.795][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-02 20:33:17.796][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.796][self$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[2024-07-02 20:33:17.797][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.797][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:17.797][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.797][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.802][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.802][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.802][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-02 20:33:17.803][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:17.803][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.803][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-02 20:33:17.804][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:17.804][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.804][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.804][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:33:17.804][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:33:17.804][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:33:17.804][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-02 20:33:17.804][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-02 20:33:17.805][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:17.805][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:17.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:17.805][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:17.806][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:17.806][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:17.806][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.806][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.807][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:17.807][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:17.807][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.807][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.808][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-02 20:33:17.808][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.808][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-02 20:33:17.809][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.809][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:17.809][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.809][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.810][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.810][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.810][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-02 20:33:17.810][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:17.811][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.811][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-02 20:33:17.811][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:17.811][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.812][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.812][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:33:17.812][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:33:17.812][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:33:17.812][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-02 20:33:17.812][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-02 20:33:17.812][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:17.813][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:17.813][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:17.813][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:17.813][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:17.813][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:17.814][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.814][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.814][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:17.814][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:17.815][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.815][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.815][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-02 20:33:17.816][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.816][self$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[2024-07-02 20:33:17.816][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.817][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:17.817][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.817][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.817][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.818][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.818][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-02 20:33:17.818][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:17.818][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.819][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-02 20:33:17.819][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:17.819][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.819][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.820][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.820][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:17.820][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:17.820][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:17.821][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:17.821][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:17.821][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:17.821][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.822][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.822][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:17.822][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:17.822][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.823][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.823][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-02 20:33:17.823][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.824][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-02 20:33:17.824][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.824][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:17.824][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.825][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.825][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.825][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.825][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-02 20:33:17.826][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:17.826][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.826][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-02 20:33:17.826][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:17.827][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.827][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.827][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.827][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:17.828][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:17.828][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:17.828][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:17.828][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:17.829][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:17.829][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.829][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.829][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:17.829][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:17.830][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.830][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:17.830][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:33:17.831][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.834][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[2024-07-02 20:33:17.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.851][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-02 20:33:17.851][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-02 20:33:17.851][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-02 20:33:17.852][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-02 20:33:17.852][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-02 20:33:17.852][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-02 20:33:17.853][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-02 20:33:17.853][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-02 20:33:17.854][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-02 20:33:17.854][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-02 20:33:17.854][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-02 20:33:17.855][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-02 20:33:17.855][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-02 20:33:17.855][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-02 20:33:17.856][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-02 20:33:17.856][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-02 20:33:17.856][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-02 20:33:17.857][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-02 20:33:17.857][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-02 20:33:17.858][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-02 20:33:17.858][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-02 20:33:17.858][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-02 20:33:17.859][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-02 20:33:17.859][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-02 20:33:17.860][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-02 20:33:17.860][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-02 20:33:17.860][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-02 20:33:17.861][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-02 20:33:17.861][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-02 20:33:17.862][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-02 20:33:17.862][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-02 20:33:17.862][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-02 20:33:17.863][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-02 20:33:17.863][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-02 20:33:17.863][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-02 20:33:17.864][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-02 20:33:17.864][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-02 20:33:17.865][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-02 20:33:17.865][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-02 20:33:17.865][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-02 20:33:17.866][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-02 20:33:17.866][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-02 20:33:17.866][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-02 20:33:17.867][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-02 20:33:17.867][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-02 20:33:17.867][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-02 20:33:17.868][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-02 20:33:17.868][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-02 20:33:17.869][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-02 20:33:17.869][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-02 20:33:17.869][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-02 20:33:17.870][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-02 20:33:17.870][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-02 20:33:17.870][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-02 20:33:17.871][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-02 20:33:17.871][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-02 20:33:17.871][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-02 20:33:17.872][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-02 20:33:17.872][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-02 20:33:17.873][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-02 20:33:17.873][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-02 20:33:17.873][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-02 20:33:17.874][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-02 20:33:17.874][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-02 20:33:17.874][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-02 20:33:17.875][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-02 20:33:17.875][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-02 20:33:17.875][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-02 20:33:17.876][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-02 20:33:17.876][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-02 20:33:17.877][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-02 20:33:17.877][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-02 20:33:17.877][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-02 20:33:17.878][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-02 20:33:17.878][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-02 20:33:17.878][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-02 20:33:17.879][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-02 20:33:17.879][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-02 20:33:17.879][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-02 20:33:17.880][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-02 20:33:17.880][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-02 20:33:17.881][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-02 20:33:17.881][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-02 20:33:17.881][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-02 20:33:17.882][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-02 20:33:17.882][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:33:17.882][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.883][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.883][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[2024-07-02 20:33:17.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.895][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.DEBUG[2024-07-02 20:33:17.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.901][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.DEBUG[2024-07-02 20:33:17.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.909][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[2024-07-02 20:33:17.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:17.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:17.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:17.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:17.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:17.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:17.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:17.913][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-02 20:33:17.913][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-02 20:33:17.914][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.914][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.914][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.914][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:17.915][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.915][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.915][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.915][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-02 20:33:17.916][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-02 20:33:17.916][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:17.916][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.916][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-02 20:33:17.917][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:17.918][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:33:17.918][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:33:17.918][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:33:17.918][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-02 20:33:17.918][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:17.918][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:17.919][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:17.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:17.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:17.919][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:17.920][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:17.920][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-02 20:33:17.920][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:17.920][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:17.920][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:17.921][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-02 20:33:17.921][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-02 20:33:17.921][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-02 20:33:17.921][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-02 20:33:17.922][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-02 20:33:17.922][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-02 20:33:17.923][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-02 20:33:17.923][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-02 20:33:17.924][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-02 20:33:17.924][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-02 20:33:17.925][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-02 20:33:17.925][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-02 20:33:17.925][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-02 20:33:17.926][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-02 20:33:17.926][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-02 20:33:17.926][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-02 20:33:17.927][biodb::testThat]
biodb.INFO [2024-07-02 20:33:17.927][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2024-07-02 20:33:17.927][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:17.928][biodb::testThat]
biodb.DEBUG[2024-07-02 20:33:17.929][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-02 20:33:17.930][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:17.930][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:17.931][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2024-07-02 20:33:18.280][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2024-07-02 20:33:18.846][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:18.847][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2024-07-02 20:33:18.848][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2024-07-02 20:33:18.850][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[2024-07-02 20:33:18.851][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:18.851][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:18.852][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:19.188][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:19.530][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:19.531][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2024-07-02 20:33:19.532][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2024-07-02 20:33:19.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:19.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:19.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:19.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:19.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:19.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:19.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:19.537][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-02 20:33:19.538][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:19.538][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:19.539][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:19.871][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:20.207][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:20.208][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2024-07-02 20:33:20.210][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2024-07-02 20:33:20.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:20.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:20.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:20.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:20.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:20.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:20.214][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[2024-07-02 20:33:20.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:20.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:20.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:20.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:20.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:20.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:20.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:20.224][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[2024-07-02 20:33:20.226][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:20.226][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-07-02 20:33:20.226][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:20.227][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-07-02 20:33:20.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:20.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:20.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:20.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:20.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:20.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:20.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:20.231][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[2024-07-02 20:33:20.232][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:20.237][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-07-02 20:33:20.237][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:20.238][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-07-02 20:33:20.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:20.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:20.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:20.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:20.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:20.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:20.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:20.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:20.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:20.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:20.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:20.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:20.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:20.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:20.245][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[2024-07-02 20:33:20.247][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:20.247][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-07-02 20:33:20.247][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:20.248][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-07-02 20:33:20.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:20.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:20.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:20.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:20.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:20.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:20.258][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[2024-07-02 20:33:20.258][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[2024-07-02 20:33:20.259][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:20.260][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-07-02 20:33:20.260][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:20.260][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-07-02 20:33:20.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:20.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:20.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:20.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:20.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:20.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:20.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:20.264][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[2024-07-02 20:33:20.265][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:20.266][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:20.266][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:20.598][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:20.929][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:20.930][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2024-07-02 20:33:20.932][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2024-07-02 20:33:20.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:20.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:20.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:20.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:20.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:20.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:20.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-02 20:33:20.938][biodb::testThat]
biodb.INFO [2024-07-02 20:33:20.938][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2024-07-02 20:33:20.939][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:20.939][biodb::testThat]
biodb.DEBUG[2024-07-02 20:33:20.940][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-02 20:33:20.941][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:20.942][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:20.942][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:21.277][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:21.617][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:21.618][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2024-07-02 20:33:21.619][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2024-07-02 20:33:21.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:21.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:21.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:21.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:21.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:21.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:21.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:21.625][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[2024-07-02 20:33:21.626][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:21.626][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:21.627][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:21.959][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:22.293][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:22.294][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2024-07-02 20:33:22.295][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2024-07-02 20:33:22.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:22.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-02 20:33:22.301][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-02 20:33:22.302][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-02 20:33:22.302][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-02 20:33:22.302][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-02 20:33:22.302][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.303][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.303][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-02 20:33:22.305][biodb::testContext]
biodb.INFO [2024-07-02 20:33:22.306][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-02 20:33:22.306][biodb::testContext] Test context - Test web services
biodb.INFO [2024-07-02 20:33:22.306][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-02 20:33:22.306][biodb::testContext]
biodb.INFO [2024-07-02 20:33:22.307][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-02 20:33:22.308][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-02 20:33:22.310][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:33:22.311][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-02 20:33:22.312][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-02 20:33:22.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.313][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[2024-07-02 20:33:22.313][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-02 20:33:22.313][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-02 20:33:22.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.314][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-02 20:33:22.314][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-02 20:33:22.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.315][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-02 20:33:22.316][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-02 20:33:22.316][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-02 20:33:22.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.317][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-02 20:33:22.317][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-02 20:33:22.318][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-02 20:33:22.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.318][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[2024-07-02 20:33:22.318][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-02 20:33:22.319][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-02 20:33:22.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.320][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-02 20:33:22.320][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-02 20:33:22.320][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-02 20:33:22.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.321][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-02 20:33:22.321][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-02 20:33:22.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.322][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-02 20:33:22.323][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-02 20:33:22.323][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-02 20:33:22.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.324][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-02 20:33:22.324][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-02 20:33:22.324][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-02 20:33:22.325][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-02 20:33:22.325][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-02 20:33:22.325][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-02 20:33:22.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.326][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-02 20:33:22.326][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-02 20:33:22.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.327][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-02 20:33:22.328][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-02 20:33:22.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.329][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-02 20:33:22.329][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-02 20:33:22.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.330][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-02 20:33:22.330][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-02 20:33:22.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.331][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-02 20:33:22.331][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-02 20:33:22.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.332][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-02 20:33:22.333][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-02 20:33:22.348][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-02 20:33:22.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.349][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-02 20:33:22.350][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-02 20:33:22.350][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-02 20:33:22.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.351][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[2024-07-02 20:33:22.351][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-02 20:33:22.352][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.352][self$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[2024-07-02 20:33:22.352][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.353][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:22.353][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.353][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.354][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.354][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.354][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-02 20:33:22.354][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:22.355][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.355][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-02 20:33:22.355][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:22.355][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.356][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.356][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:33:22.356][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:33:22.356][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:33:22.356][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-02 20:33:22.356][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-02 20:33:22.356][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:22.356][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:22.357][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:22.357][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:22.357][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:22.357][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:22.358][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.358][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.358][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:22.358][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:22.359][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.359][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.359][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-02 20:33:22.360][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.360][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-02 20:33:22.360][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.361][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:22.361][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.361][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.362][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.362][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.362][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-02 20:33:22.362][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:22.363][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.363][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-02 20:33:22.363][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:22.364][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.364][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.364][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:33:22.364][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:33:22.364][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:33:22.364][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-02 20:33:22.364][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-02 20:33:22.364][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:22.365][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:22.365][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:22.365][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:22.365][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:22.366][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:22.366][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.366][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.366][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:22.367][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:22.367][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.367][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.367][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-02 20:33:22.368][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.368][self$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[2024-07-02 20:33:22.368][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.369][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:22.369][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.369][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.369][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.370][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.370][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-02 20:33:22.370][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:22.371][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.371][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-02 20:33:22.371][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:22.371][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.372][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.372][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.372][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:22.372][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:22.373][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:22.373][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:22.373][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:22.373][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:22.374][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.374][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.374][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:22.374][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:22.375][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.375][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.375][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-02 20:33:22.379][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.383][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-02 20:33:22.384][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.384][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:22.384][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.384][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.385][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.385][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.385][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-02 20:33:22.386][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:22.386][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.386][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-02 20:33:22.386][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:22.387][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.387][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.387][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.387][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:22.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:22.388][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:22.388][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:22.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:22.389][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:22.389][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.389][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.389][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:22.390][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:22.390][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.390][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:22.390][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:33:22.391][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.413][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-02 20:33:22.414][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-02 20:33:22.414][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-02 20:33:22.414][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-02 20:33:22.415][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-02 20:33:22.415][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-02 20:33:22.416][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-02 20:33:22.416][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-02 20:33:22.416][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-02 20:33:22.417][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-02 20:33:22.417][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-02 20:33:22.418][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-02 20:33:22.418][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-02 20:33:22.418][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-02 20:33:22.419][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-02 20:33:22.419][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-02 20:33:22.419][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-02 20:33:22.420][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-02 20:33:22.420][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-02 20:33:22.421][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-02 20:33:22.421][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-02 20:33:22.421][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-02 20:33:22.422][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-02 20:33:22.422][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-02 20:33:22.423][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-02 20:33:22.423][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-02 20:33:22.423][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-02 20:33:22.424][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-02 20:33:22.424][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-02 20:33:22.424][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-02 20:33:22.425][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-02 20:33:22.425][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-02 20:33:22.426][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-02 20:33:22.426][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-02 20:33:22.426][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-02 20:33:22.427][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-02 20:33:22.427][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-02 20:33:22.427][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-02 20:33:22.428][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-02 20:33:22.428][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-02 20:33:22.429][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-02 20:33:22.429][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-02 20:33:22.429][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-02 20:33:22.430][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-02 20:33:22.430][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-02 20:33:22.430][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-02 20:33:22.431][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-02 20:33:22.431][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-02 20:33:22.432][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-02 20:33:22.432][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-02 20:33:22.432][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-02 20:33:22.433][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-02 20:33:22.433][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-02 20:33:22.433][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-02 20:33:22.434][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-02 20:33:22.434][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-02 20:33:22.435][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-02 20:33:22.435][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-02 20:33:22.435][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-02 20:33:22.436][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-02 20:33:22.436][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-02 20:33:22.436][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-02 20:33:22.437][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-02 20:33:22.437][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-02 20:33:22.438][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-02 20:33:22.438][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-02 20:33:22.438][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-02 20:33:22.439][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-02 20:33:22.439][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-02 20:33:22.439][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-02 20:33:22.440][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-02 20:33:22.440][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-02 20:33:22.441][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-02 20:33:22.441][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-02 20:33:22.441][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-02 20:33:22.442][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-02 20:33:22.442][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-02 20:33:22.442][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-02 20:33:22.443][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-02 20:33:22.443][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-02 20:33:22.444][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-02 20:33:22.444][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-02 20:33:22.444][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-02 20:33:22.445][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-02 20:33:22.445][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-02 20:33:22.446][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:33:22.446][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.446][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.447][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[2024-07-02 20:33:22.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.448][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[2024-07-02 20:33:22.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.450][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[2024-07-02 20:33:22.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.451][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[2024-07-02 20:33:22.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:22.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:22.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:22.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:22.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:22.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:22.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:22.478][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-02 20:33:22.479][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-02 20:33:22.479][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.479][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.480][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.480][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:22.480][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.481][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.481][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.481][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-02 20:33:22.481][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-02 20:33:22.482][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:22.482][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.482][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-02 20:33:22.482][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:33:22.483][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-02 20:33:22.484][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:22.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:22.484][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:22.484][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:22.485][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:22.485][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:22.485][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:22.485][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-02 20:33:22.485][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:22.486][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:22.486][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:22.486][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-02 20:33:22.486][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-02 20:33:22.486][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-02 20:33:22.487][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-02 20:33:22.487][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-02 20:33:22.488][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-02 20:33:22.488][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-02 20:33:22.489][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-02 20:33:22.490][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-02 20:33:22.490][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-02 20:33:22.490][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-02 20:33:22.491][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-02 20:33:22.491][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-02 20:33:22.491][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-02 20:33:22.492][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-02 20:33:22.492][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-02 20:33:22.493][biodb::testThat]
biodb.INFO [2024-07-02 20:33:22.493][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-07-02 20:33:22.493][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:22.493][biodb::testThat]
biodb.DEBUG[2024-07-02 20:33:22.494][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-02 20:33:22.496][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:22.496][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-02 20:33:22.496][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:22.497][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-02 20:33:22.498][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-02 20:33:22.499][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:22.499][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:22.500][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-02 20:33:22.832][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-02 20:33:23.162][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:23.163][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2024-07-02 20:33:23.165][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2024-07-02 20:33:23.168][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-02 20:33:23.169][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-02 20:33:23.169][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-02 20:33:23.169][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-02 20:33:23.170][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.170][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.171][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.171][FUN] Functions in observer BiodbConfig: [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 [2024-07-02 20:33:23.172][biodb::testContext]
biodb.INFO [2024-07-02 20:33:23.173][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-02 20:33:23.173][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-07-02 20:33:23.173][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-02 20:33:23.174][biodb::testContext]
biodb.INFO [2024-07-02 20:33:23.174][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-02 20:33:23.175][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-02 20:33:23.177][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:33:23.177][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-02 20:33:23.177][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-02 20:33:23.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.178][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-02 20:33:23.178][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-02 20:33:23.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.179][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-02 20:33:23.180][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-02 20:33:23.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.181][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-02 20:33:23.181][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-02 20:33:23.181][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-02 20:33:23.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.182][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.DEBUG[2024-07-02 20:33:23.182][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-02 20:33:23.183][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-02 20:33:23.183][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-02 20:33:23.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.184][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-02 20:33:23.184][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-02 20:33:23.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.185][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-02 20:33:23.185][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-02 20:33:23.186][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-02 20:33:23.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.186][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-02 20:33:23.187][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-02 20:33:23.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.188][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-02 20:33:23.188][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-02 20:33:23.188][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-02 20:33:23.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.189][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-02 20:33:23.189][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-02 20:33:23.190][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-02 20:33:23.190][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-02 20:33:23.190][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-02 20:33:23.190][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-02 20:33:23.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.191][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[2024-07-02 20:33:23.191][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-02 20:33:23.192][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-02 20:33:23.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.193][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-02 20:33:23.193][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-02 20:33:23.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.194][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[2024-07-02 20:33:23.194][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-02 20:33:23.194][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-02 20:33:23.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.195][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-02 20:33:23.195][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-02 20:33:23.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.196][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-02 20:33:23.197][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-02 20:33:23.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.198][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-02 20:33:23.198][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-02 20:33:23.204][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-02 20:33:23.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.205][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-02 20:33:23.205][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-02 20:33:23.206][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-02 20:33:23.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.207][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-02 20:33:23.207][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.208][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-02 20:33:23.208][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.208][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:23.209][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.209][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.209][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.209][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.210][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-02 20:33:23.210][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:23.210][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.210][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-02 20:33:23.211][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:23.211][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.211][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.212][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:33:23.212][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:33:23.212][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:33:23.212][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-02 20:33:23.212][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-02 20:33:23.212][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:23.212][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:23.212][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:23.213][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:23.213][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:23.213][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:23.213][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.214][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.214][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:23.214][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:23.214][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.215][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.215][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-02 20:33:23.215][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.216][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-02 20:33:23.216][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.216][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:23.217][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.217][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.217][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.217][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.218][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-02 20:33:23.218][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:23.218][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.218][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-02 20:33:23.219][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:23.219][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.219][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.219][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:33:23.219][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:33:23.219][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:33:23.219][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-02 20:33:23.219][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-02 20:33:23.220][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:23.220][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:23.220][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:23.220][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:23.221][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:23.221][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:23.221][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.221][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.222][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:23.222][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:23.222][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.222][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.223][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-02 20:33:23.223][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.224][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-02 20:33:23.224][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.224][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:23.224][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.225][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.225][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.225][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.225][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-02 20:33:23.226][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:23.226][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.226][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-02 20:33:23.226][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:23.227][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.227][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.227][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.227][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:23.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:23.228][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:23.228][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:23.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:23.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:23.229][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.229][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.229][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:23.230][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:23.230][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.230][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.230][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-02 20:33:23.231][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.231][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-02 20:33:23.231][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.232][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:23.232][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.232][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.233][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.233][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.233][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-02 20:33:23.233][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:23.234][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.234][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-02 20:33:23.234][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:23.234][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.235][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.235][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.235][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-02 20:33:23.235][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:23.236][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:23.239][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:23.241][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:23.241][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:23.242][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.242][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.242][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:23.242][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:23.243][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.243][self$setPropertyValue]
biodb.DEBUG[2024-07-02 20:33:23.243][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:33:23.244][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.245][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[2024-07-02 20:33:23.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.246][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[2024-07-02 20:33:23.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.248][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[2024-07-02 20:33:23.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.249][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[2024-07-02 20:33:23.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.250][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[2024-07-02 20:33:23.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.251][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[2024-07-02 20:33:23.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.253][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[2024-07-02 20:33:23.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.255][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[2024-07-02 20:33:23.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.256][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[2024-07-02 20:33:23.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.257][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[2024-07-02 20:33:23.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.258][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[2024-07-02 20:33:23.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.259][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[2024-07-02 20:33:23.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.261][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[2024-07-02 20:33:23.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.262][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[2024-07-02 20:33:23.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.263][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[2024-07-02 20:33:23.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.264][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-02 20:33:23.265][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-02 20:33:23.265][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-02 20:33:23.266][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-02 20:33:23.266][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-02 20:33:23.266][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-02 20:33:23.267][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-02 20:33:23.267][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-02 20:33:23.268][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-02 20:33:23.268][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-02 20:33:23.268][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-02 20:33:23.269][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-02 20:33:23.269][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-02 20:33:23.270][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-02 20:33:23.270][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-02 20:33:23.270][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-02 20:33:23.271][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-02 20:33:23.271][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-02 20:33:23.272][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-02 20:33:23.272][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-02 20:33:23.272][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-02 20:33:23.273][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-02 20:33:23.273][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-02 20:33:23.274][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-02 20:33:23.274][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-02 20:33:23.274][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-02 20:33:23.275][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-02 20:33:23.275][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-02 20:33:23.276][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-02 20:33:23.276][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-02 20:33:23.276][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-02 20:33:23.277][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-02 20:33:23.277][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-02 20:33:23.278][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-02 20:33:23.278][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-02 20:33:23.278][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-02 20:33:23.279][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-02 20:33:23.279][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-02 20:33:23.280][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-02 20:33:23.280][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-02 20:33:23.280][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-02 20:33:23.281][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-02 20:33:23.281][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-02 20:33:23.282][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-02 20:33:23.282][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-02 20:33:23.282][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-02 20:33:23.283][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-02 20:33:23.283][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-02 20:33:23.284][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-02 20:33:23.284][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-02 20:33:23.284][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-02 20:33:23.285][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-02 20:33:23.285][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-02 20:33:23.286][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-02 20:33:23.286][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-02 20:33:23.286][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-02 20:33:23.287][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-02 20:33:23.287][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-02 20:33:23.287][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-02 20:33:23.288][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-02 20:33:23.288][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-02 20:33:23.288][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-02 20:33:23.289][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-02 20:33:23.289][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-02 20:33:23.290][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-02 20:33:23.290][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-02 20:33:23.290][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-02 20:33:23.291][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-02 20:33:23.291][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-02 20:33:23.291][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-02 20:33:23.292][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-02 20:33:23.292][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-02 20:33:23.293][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-02 20:33:23.293][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-02 20:33:23.293][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-02 20:33:23.294][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-02 20:33:23.294][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-02 20:33:23.294][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-02 20:33:23.295][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-02 20:33:23.295][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-02 20:33:23.296][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-02 20:33:23.296][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-02 20:33:23.296][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-02 20:33:23.297][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-02 20:33:23.297][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-02 20:33:23.298][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-02 20:33:23.298][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.298][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.299][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[2024-07-02 20:33:23.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.300][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[2024-07-02 20:33:23.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.302][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[2024-07-02 20:33:23.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.303][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[2024-07-02 20:33:23.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.307][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[2024-07-02 20:33:23.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.310][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[2024-07-02 20:33:23.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.311][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[2024-07-02 20:33:23.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.313][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[2024-07-02 20:33:23.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.314][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[2024-07-02 20:33:23.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.316][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[2024-07-02 20:33:23.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.317][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[2024-07-02 20:33:23.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-02 20:33:23.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.329][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-02 20:33:23.329][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-02 20:33:23.330][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.330][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.330][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.331][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-02 20:33:23.331][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.331][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.331][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.332][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-02 20:33:23.332][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-02 20:33:23.332][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-02 20:33:23.332][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-02 20:33:23.333][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-02 20:33:23.334][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-02 20:33:23.334][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-02 20:33:23.334][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-02 20:33:23.334][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-02 20:33:23.334][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-02 20:33:23.334][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:23.335][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:23.335][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-02 20:33:23.335][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-02 20:33:23.335][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-02 20:33:23.336][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-02 20:33:23.336][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:23.336][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-02 20:33:23.336][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-02 20:33:23.336][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-02 20:33:23.337][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-02 20:33:23.337][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-02 20:33:23.337][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-02 20:33:23.337][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-02 20:33:23.338][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-02 20:33:23.338][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-02 20:33:23.338][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-02 20:33:23.339][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-02 20:33:23.339][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-02 20:33:23.340][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-02 20:33:23.340][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-02 20:33:23.341][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-02 20:33:23.341][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-02 20:33:23.342][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-02 20:33:23.342][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-02 20:33:23.342][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-02 20:33:23.342][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-02 20:33:23.343][biodb::testThat]
biodb.INFO [2024-07-02 20:33:23.343][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-07-02 20:33:23.343][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-02 20:33:23.344][biodb::testThat]
biodb.DEBUG[2024-07-02 20:33:23.345][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-02 20:33:23.346][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:23.346][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-02 20:33:23.347][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:23.347][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-02 20:33:23.348][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[2024-07-02 20:33:23.349][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-02 20:33:23.350][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-07-02 20:33:23.350][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-02 20:33:23.350][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-07-02 20:33:23.352][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-07-02 20:33:23.352][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-02 20:33:23.353][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-07-02 20:33:23.353][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-02 20:33:23.354][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-02 20:33:23.354][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-02 20:33:23.354][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-02 20:33:23.354][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-02 20:33:23.355][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-02 20:33:23.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:23.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:23.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:23.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:23.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:23.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:23.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-02 20:33:23.359][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2024-07-02 20:33:23.360][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-02 20:33:23.360][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-02 20:33:23.360][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2024-07-02 20:33:24.563][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2024-07-02 20:33:25.547][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-02 20:33:25.548][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2024-07-02 20:33:25.549][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2024-07-02 20:33:25.550][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2024-07-02 20:33:25.550][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-02 20:33:25.551][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-02 20:33:25.551][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-02 20:33:25.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-02 20:33:25.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:25.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:25.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:25.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:25.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:25.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-02 20:33:25.556][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:25.557][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:25.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.557][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:25.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:25.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.559][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:25.559][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:25.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.560][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.560][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-02 20:33:25.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-02 20:33:25.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.561][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:25.561][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:25.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.562][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.562][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-02 20:33:25.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-02 20:33:25.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.563][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-02 20:33:25.564][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-02 20:33:25.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.564][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-02 20:33:25.565][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-02 20:33:25.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.565][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.566][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:25.566][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:25.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.566][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.567][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:25.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-02 20:33:25.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.568][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:25.568][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:25.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.569][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.569][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-02 20:33:25.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-02 20:33:25.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.570][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:25.570][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:25.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.571][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:25.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-02 20:33:25.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.572][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:25.572][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:25.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.573][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-02 20:33:25.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-02 20:33:25.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.575][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:25.575][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:25.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.575][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.576][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-02 20:33:25.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-02 20:33:25.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.577][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:25.577][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:25.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.577][ef$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.578][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-02 20:33:25.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-02 20:33:25.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:25.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:25.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:25.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:25.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:25.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:25.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-02 20:33:25.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-02 20:33:25.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:25.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:25.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:25.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:25.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:25.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:25.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:25.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:25.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:25.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:25.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-02 20:33:25.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-02 20:33:25.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-02 20:33:25.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-02 20:33:25.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-02 20:33:25.589][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-07-02 20:33:25.591][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-02 20:33:25.591][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-02 20:33:25.592][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-02 20:33:25.592][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-02 20:33:25.592][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-02 20:33:25.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-02 20:33:25.593][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-02 20:33:25.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-02 20:33:25.593][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-02 20:33:25.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 386 ]
>
> proc.time()
user system elapsed
5.994 0.438 41.343
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.821 | 0.246 | 1.754 | |
| ChebiEntry | 0.136 | 0.009 | 0.154 | |