Pierrick Roger
| Snapshot Date: 2022-10-18 13:55:19 -0400 (Tue, 18 Oct 2022) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: RELEASE_3_15 |
| git_last_commit: 24c8926 |
| git_last_commit_date: 2022-04-26 12:18:32 -0400 (Tue, 26 Apr 2022) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-10-19 13:21:10 -0400 (Wed, 19 Oct 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4386 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" | 4138 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4205 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
|
To the developers/maintainers of the biodbChebi package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 177/2140 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.2.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: biodbChebi |
| Version: 1.2.0 |
| Command: F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=F:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings biodbChebi_1.2.0.tar.gz |
| StartedAt: 2022-10-18 22:22:55 -0400 (Tue, 18 Oct 2022) |
| EndedAt: 2022-10-18 22:25:51 -0400 (Tue, 18 Oct 2022) |
| EllapsedTime: 176.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=F:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings biodbChebi_1.2.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'F:/biocbuild/bbs-3.15-bioc/meat/biodbChebi.Rcheck'
* using R version 4.2.1 (2022-06-23 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbChebi/DESCRIPTION' ... OK
* this is package 'biodbChebi' version '1.2.0'
* 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 whether package 'biodbChebi' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
ChebiConn 4.51 2.27 31.69
ChebiEntry 0.97 0.06 10.00
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
Running 'testthat.R'
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.15-bioc/R/library' * installing *source* package 'biodbChebi' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbChebi)
biodbChebi.Rcheck/tests/testthat.Rout
R version 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2022-10-18 22:24:37.615][biodb::testContext]
biodb.INFO [2022-10-18 22:24:37.620][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 22:24:37.622][biodb::testContext] Test context - Generic tests
biodb.INFO [2022-10-18 22:24:37.624][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 22:24:37.626][biodb::testContext]
biodb.INFO [2022-10-18 22:24:37.656][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.4.2.
biodb.DEBUG[2022-10-18 22:24:37.661][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.15-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-10-18 22:24:37.675][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:24:37.678][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-10-18 22:24:37.680][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-10-18 22:24:37.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.689][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-10-18 22:24:37.723][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-10-18 22:24:37.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.732][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-10-18 22:24:37.734][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-10-18 22:24:37.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.740][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-10-18 22:24:37.741][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-10-18 22:24:37.743][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-10-18 22:24:37.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.748][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-10-18 22:24:37.749][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-10-18 22:24:37.750][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-10-18 22:24:37.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.755][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-10-18 22:24:37.757][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-10-18 22:24:37.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.760][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[2022-10-18 22:24:37.762][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-10-18 22:24:37.763][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-10-18 22:24:37.764][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-10-18 22:24:37.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.784][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-10-18 22:24:37.787][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-10-18 22:24:37.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.794][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-10-18 22:24:37.796][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-10-18 22:24:37.798][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-10-18 22:24:37.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.941][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-10-18 22:24:37.943][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-10-18 22:24:37.945][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-10-18 22:24:37.948][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-10-18 22:24:37.950][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-10-18 22:24:37.952][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-10-18 22:24:37.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.959][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-10-18 22:24:37.961][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-10-18 22:24:37.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.967][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-10-18 22:24:37.969][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-10-18 22:24:37.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.976][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-10-18 22:24:37.978][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-10-18 22:24:37.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.985][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-10-18 22:24:37.987][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-10-18 22:24:37.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:37.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:37.993][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-10-18 22:24:37.995][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-10-18 22:24:37.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:37.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.002][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-10-18 22:24:38.004][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-10-18 22:24:38.010][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-10-18 22:24:38.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.017][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-10-18 22:24:38.019][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-10-18 22:24:38.021][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-10-18 22:24:38.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.031][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-10-18 22:24:38.074][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.088][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-10-18 22:24:38.089][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.090][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:24:38.092][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.093][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.094][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.095][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.096][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 22:24:38.098][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:24:38.099][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.100][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-10-18 22:24:38.101][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:24:38.102][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.103][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.105][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:24:38.105][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:24:38.105][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:24:38.105][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 22:24:38.105][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 22:24:38.106][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:24:38.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:24:38.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:24:38.110][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:24:38.111][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:24:38.112][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:24:38.113][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.114][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.115][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:24:38.116][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:24:38.118][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.119][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.120][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-10-18 22:24:38.122][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.124][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 22:24:38.125][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.126][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:24:38.127][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.129][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.130][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.132][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.133][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 22:24:38.135][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:24:38.137][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.138][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-10-18 22:24:38.140][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:24:38.141][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.142][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.144][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:24:38.144][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:24:38.144][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:24:38.144][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 22:24:38.144][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 22:24:38.146][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:24:38.148][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:24:38.149][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:24:38.151][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:24:38.153][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:24:38.155][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:24:38.157][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.159][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.161][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:24:38.163][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:24:38.164][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.166][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.167][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-10-18 22:24:38.169][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.171][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-10-18 22:24:38.172][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.173][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:24:38.174][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.175][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.177][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.178][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.179][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 22:24:38.180][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:24:38.181][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.183][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-10-18 22:24:38.184][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:24:38.185][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.186][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.187][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.189][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:24:38.190][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:24:38.191][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:24:38.192][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:24:38.193][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:24:38.194][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:24:38.195][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.197][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.198][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:24:38.199][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:24:38.200][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.202][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.210][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-10-18 22:24:38.212][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.214][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 22:24:38.215][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.217][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:24:38.218][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.220][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.221][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.223][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.224][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 22:24:38.225][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:24:38.226][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.227][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-10-18 22:24:38.229][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:24:38.230][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.232][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.233][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.234][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:24:38.235][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:24:38.236][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:24:38.238][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:24:38.239][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:24:38.240][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:24:38.241][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.242][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.243][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:24:38.245][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:24:38.246][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.247][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:24:38.251][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:24:38.252][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.253][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[2022-10-18 22:24:38.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.259][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[2022-10-18 22:24:38.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.284][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[2022-10-18 22:24:38.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.291][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[2022-10-18 22:24:38.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.298][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[2022-10-18 22:24:38.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.305][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[2022-10-18 22:24:38.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.318][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[2022-10-18 22:24:38.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.324][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[2022-10-18 22:24:38.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.330][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[2022-10-18 22:24:38.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.346][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[2022-10-18 22:24:38.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.353][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[2022-10-18 22:24:38.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.361][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-10-18 22:24:38.366][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-10-18 22:24:38.367][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-10-18 22:24:38.369][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-10-18 22:24:38.370][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 22:24:38.372][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-10-18 22:24:38.374][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-10-18 22:24:38.375][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-10-18 22:24:38.377][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-10-18 22:24:38.379][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-10-18 22:24:38.380][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 22:24:38.382][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-10-18 22:24:38.383][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-10-18 22:24:38.385][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-10-18 22:24:38.387][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-10-18 22:24:38.389][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-10-18 22:24:38.392][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-10-18 22:24:38.395][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-10-18 22:24:38.397][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 22:24:38.399][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-10-18 22:24:38.402][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-10-18 22:24:38.404][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-10-18 22:24:38.406][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-10-18 22:24:38.409][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-10-18 22:24:38.411][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-10-18 22:24:38.414][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-10-18 22:24:38.416][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-10-18 22:24:38.417][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-10-18 22:24:38.419][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-10-18 22:24:38.420][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-10-18 22:24:38.422][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-10-18 22:24:38.425][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-10-18 22:24:38.428][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-10-18 22:24:38.430][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-10-18 22:24:38.433][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-10-18 22:24:38.435][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-10-18 22:24:38.438][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-10-18 22:24:38.441][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-10-18 22:24:38.443][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-10-18 22:24:38.446][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-10-18 22:24:38.448][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-10-18 22:24:38.451][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-10-18 22:24:38.454][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-10-18 22:24:38.457][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-10-18 22:24:38.459][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-10-18 22:24:38.462][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-10-18 22:24:38.465][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-10-18 22:24:38.467][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-10-18 22:24:38.470][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-10-18 22:24:38.473][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-10-18 22:24:38.475][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-10-18 22:24:38.478][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-10-18 22:24:38.480][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-10-18 22:24:38.483][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-10-18 22:24:38.486][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-10-18 22:24:38.489][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-10-18 22:24:38.492][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-10-18 22:24:38.504][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-10-18 22:24:38.506][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-10-18 22:24:38.509][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-10-18 22:24:38.511][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-10-18 22:24:38.513][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-10-18 22:24:38.516][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-10-18 22:24:38.517][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-10-18 22:24:38.519][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-10-18 22:24:38.520][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-10-18 22:24:38.522][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 22:24:38.523][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 22:24:38.525][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-10-18 22:24:38.526][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-10-18 22:24:38.529][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-10-18 22:24:38.531][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-10-18 22:24:38.534][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-10-18 22:24:38.537][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-10-18 22:24:38.539][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-10-18 22:24:38.542][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-10-18 22:24:38.544][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-10-18 22:24:38.547][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-10-18 22:24:38.550][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-10-18 22:24:38.553][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-10-18 22:24:38.555][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-10-18 22:24:38.558][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-10-18 22:24:38.560][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-10-18 22:24:38.595][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-10-18 22:24:38.598][initialize] This is biodb version 1.4.2.
biodb.DEBUG[2022-10-18 22:24:38.601][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:24:38.602][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.605][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.708][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.DEBUG[2022-10-18 22:24:38.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.731][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.DEBUG[2022-10-18 22:24:38.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.768][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[2022-10-18 22:24:38.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:24:38.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:38.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:38.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:38.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:38.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:38.800][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.15-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2022-10-18 22:24:38.809][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2022-10-18 22:24:38.811][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.813][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.814][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.816][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:24:38.817][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.818][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.819][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.820][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2022-10-18 22:24:38.822][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-10-18 22:24:38.823][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:24:38.824][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.825][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2022-10-18 22:24:38.827][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2022-10-18 22:24:38.828][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2022-10-18 22:24:38.834][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-10-18 22:24:38.836][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:24:38.836][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:24:38.836][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:24:38.837][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-10-18 22:24:38.838][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:24:38.839][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:24:38.840][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:24:38.842][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:24:38.843][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:24:38.844][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:24:38.845][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:24:38.845][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2022-10-18 22:24:38.846][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:24:38.847][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:24:38.848][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-10-18 22:24:38.850][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2022-10-18 22:24:38.850][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2022-10-18 22:24:38.856][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 22:24:38.857][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 22:24:38.859][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2022-10-18 22:24:38.861][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 22:24:38.863][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 22:24:38.865][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 22:24:38.889][super$initialize] Initialize connector chebi.
biodb.DEBUG[2022-10-18 22:24:38.891][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2022-10-18 22:24:38.895][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2022-10-18 22:24:38.899][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2022-10-18 22:24:38.903][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 22:24:38.904][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 22:24:38.906][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2022-10-18 22:24:38.907][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2022-10-18 22:24:38.927][biodb::testThat]
biodb.INFO [2022-10-18 22:24:38.929][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2022-10-18 22:24:38.930][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:24:38.931][biodb::testThat]
biodb.TRACE[2022-10-18 22:24:38.968][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.15-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2022-10-18 22:24:38.973][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:24:38.978][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:24:38.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:38.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:38.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:39.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:39.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:39.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:39.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:39.018][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.019][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.020][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.022][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.044][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:39.046][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:39.047][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.048][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.079][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:39.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:39.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.090][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:39.091][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:39.092][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.094][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.096][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:39.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:39.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.104][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:39.144][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:39.146][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.147][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:39.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:39.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.157][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.159][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.160][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.161][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.172][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.173][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.174][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.175][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.177][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.186][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:39.188][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.189][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.190][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.192][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:39.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.201][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.202][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.203][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.205][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.216][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:39.217][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:39.219][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.220][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:39.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:39.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.233][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:39.235][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.236][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.237][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:39.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.247][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:39.249][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:39.250][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.251][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:39.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:39.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:39.356][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2022-10-18 22:24:39.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:39.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:39.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:39.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:39.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.413][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 22:24:39.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 22:24:39.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.418][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 22:24:39.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 22:24:39.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.423][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-10-18 22:24:39.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-10-18 22:24:39.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.429][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-10-18 22:24:39.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-10-18 22:24:39.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.578][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.579][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.580][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.581][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:39.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:39.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.611][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.614][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.615][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:39.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:39.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:39.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.636][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:39.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:39.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.641][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:39.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:39.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.646][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:39.647][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:39.648][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.649][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.650][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:39.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:39.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.664][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:39.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:39.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.670][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:39.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:39.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.676][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:39.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:39.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.681][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:39.682][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:39.683][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.685][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.686][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:39.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:39.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.719][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.721][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.722][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.724][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:39.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.765][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.766][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.767][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.769][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:39.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.796][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:39.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:39.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.801][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:39.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:39.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.806][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:39.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:39.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.811][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:39.812][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:39.813][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.814][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.815][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:39.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:39.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.829][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.834][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.839][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.844][ef$get] Asked field names are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.845][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.846][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.847][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.849][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:39.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.863][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.869][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.874][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.878][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.880][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.881][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.882][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.883][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:39.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.897][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:39.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:39.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.902][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:39.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:39.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.908][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:39.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:39.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.913][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:39.914][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:39.915][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.917][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.918][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:39.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:39.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.946][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.948][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.949][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.950][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:39.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:39.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:39.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:39.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:39.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.975][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:39.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:39.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.980][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:39.981][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:39.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.984][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:39.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:39.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:39.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:39.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.003][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:40.004][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:40.006][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.007][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.014][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:40.016][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:40.017][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.018][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.025][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:40.027][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:40.028][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.029][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.037][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:40.038][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:40.039][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.041][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.048][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:40.050][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:40.051][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.052][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.059][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:40.061][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:40.062][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.063][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.070][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:40.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:40.073][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.074][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.081][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:40.082][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:40.083][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.085][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.092][ef$get] Asked field names are: n.stars.
biodb.TRACE[2022-10-18 22:24:40.093][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:40.094][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.096][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.103][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:40.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:40.106][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.107][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.114][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:40.116][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:40.117][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.118][ef$get] fields variable is a list.
biodb.INFO [2022-10-18 22:24:40.127][biodb::testThat]
biodb.INFO [2022-10-18 22:24:40.128][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2022-10-18 22:24:40.129][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:24:40.130][biodb::testThat]
biodb.DEBUG[2022-10-18 22:24:40.143][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2022-10-18 22:24:40.150][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:24:40.156][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2022-10-18 22:24:40.158][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:24:40.160][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2022-10-18 22:24:40.162][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:24:40.209][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:24:40.211][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:24:40.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:40.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:40.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:40.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:40.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:40.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:40.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:40.229][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:40.231][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:40.232][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.233][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:40.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:40.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.258][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:40.260][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:40.262][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.263][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.266][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:40.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:40.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.279][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:40.281][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:40.283][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.285][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.287][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:40.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:40.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.301][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:40.303][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:40.305][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.307][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:40.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:40.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.321][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:40.323][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:40.324][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.326][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:40.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:40.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.337][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:40.338][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:40.339][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.341][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.342][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:40.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:40.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.351][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:40.353][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:40.354][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.355][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.357][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:40.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:40.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.365][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:40.367][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:40.368][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.369][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:40.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:40.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.379][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:40.381][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:40.382][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.383][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:40.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:40.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.393][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:40.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:40.402][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.403][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.404][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:40.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:40.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.413][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:40.414][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:40.415][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.416][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.418][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:40.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:40.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:40.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:40.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:40.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:40.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:40.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:40.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:40.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:40.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:40.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:40.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:40.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:40.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:40.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:40.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:40.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:40.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:40.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:40.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:40.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:40.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:40.480][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2022-10-18 22:24:40.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2022-10-18 22:24:40.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2022-10-18 22:24:40.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2022-10-18 22:24:40.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2022-10-18 22:24:40.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2022-10-18 22:24:40.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2022-10-18 22:24:40.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-10-18 22:24:40.503][biodb::testThat]
biodb.INFO [2022-10-18 22:24:40.504][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2022-10-18 22:24:40.506][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:24:40.507][biodb::testThat]
biodb.TRACE[2022-10-18 22:24:40.510][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:40.511][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:40.513][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.514][ef$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:40.516][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2022-10-18 22:24:40.547][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:40.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:40.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.552][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:40.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:40.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:40.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:40.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:40.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:40.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:40.565][function(conn, opt)] With value "squalene".
biodb.DEBUG[2022-10-18 22:24:40.581][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2022-10-18 22:24:40.606][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:24:40.623][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2022-10-18 22:24:40.625][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:24:40.627][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2022-10-18 22:24:40.647][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[2022-10-18 22:24:40.651][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:40.653][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:40.655][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2022-10-18 22:24:41.288][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2022-10-18 22:24:41.817][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:41.829][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2022-10-18 22:24:41.855][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2022-10-18 22:24:41.862][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2022-10-18 22:24:41.888][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:41.889][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:41.891][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:41.892][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:41.893][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:41.895][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:41.896][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:41.897][ef$get] fields variable is a list.
biodb.INFO [2022-10-18 22:24:41.900][biodb::testThat]
biodb.INFO [2022-10-18 22:24:41.901][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2022-10-18 22:24:41.902][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:24:41.903][biodb::testThat]
biodb.TRACE[2022-10-18 22:24:41.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:41.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:41.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:41.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:41.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:41.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:41.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:41.951][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:41.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:41.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:41.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:42.024][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:24:42.028][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:24:42.030][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-10-18 22:24:42.032][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:24:42.036][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2022-10-18 22:24:42.067][biodb::testThat]
biodb.INFO [2022-10-18 22:24:42.068][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2022-10-18 22:24:42.069][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:24:42.071][biodb::testThat]
biodb.TRACE[2022-10-18 22:24:42.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:42.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:42.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:42.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:42.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:42.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:42.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:42.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:42.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:42.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:42.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:42.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:42.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.143][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 22:24:42.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 22:24:42.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.150][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 22:24:42.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 22:24:42.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.158][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-10-18 22:24:42.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-10-18 22:24:42.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.166][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-10-18 22:24:42.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-10-18 22:24:42.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:42.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:42.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:42.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:42.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:42.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:42.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.221][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:42.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:42.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:42.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:42.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:42.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:42.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.235][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 22:24:42.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 22:24:42.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.240][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 22:24:42.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 22:24:42.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.248][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-10-18 22:24:42.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-10-18 22:24:42.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:42.254][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-10-18 22:24:42.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-10-18 22:24:42.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:42.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-10-18 22:24:42.263][biodb::testThat]
biodb.INFO [2022-10-18 22:24:42.264][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2022-10-18 22:24:42.265][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:24:42.266][biodb::testThat]
biodb.INFO [2022-10-18 22:24:42.273][biodb::testThat]
biodb.INFO [2022-10-18 22:24:42.274][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2022-10-18 22:24:42.276][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:24:42.277][biodb::testThat]
biodb.INFO [2022-10-18 22:24:42.284][biodb::testThat]
biodb.INFO [2022-10-18 22:24:42.285][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2022-10-18 22:24:42.286][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:24:42.287][biodb::testThat]
biodb.DEBUG[2022-10-18 22:24:42.293][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2022-10-18 22:24:42.906][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2022-10-18 22:24:43.837][biodb::testThat]
biodb.INFO [2022-10-18 22:24:43.839][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2022-10-18 22:24:43.840][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:24:43.841][biodb::testThat]
biodb.DEBUG[2022-10-18 22:24:44.349][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[2022-10-18 22:24:44.763][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:44.764][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:44.766][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:44.767][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:44.769][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:44.771][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:44.772][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:44.774][ef$get] fields variable is a list.
biodb.INFO [2022-10-18 22:24:44.776][biodb::testThat]
biodb.INFO [2022-10-18 22:24:44.778][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2022-10-18 22:24:44.779][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:24:44.780][biodb::testThat]
biodb.TRACE[2022-10-18 22:24:44.808][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:44.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:44.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:44.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:44.813][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:44.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:44.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:44.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:44.818][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:44.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:44.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:44.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:44.929][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:24:44.933][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:24:44.935][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-10-18 22:24:44.937][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:24:44.939][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2022-10-18 22:24:45.029][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:24:45.034][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:24:45.036][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-10-18 22:24:45.038][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:24:45.040][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2022-10-18 22:24:45.071][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 22:24:45.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 22:24:45.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:45.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:45.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:45.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:45.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:45.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:45.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:45.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:45.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:45.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:45.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:45.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:45.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:45.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:45.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:45.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:45.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:45.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:45.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:45.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:45.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:45.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:45.185][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:24:45.200][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:45.202][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:45.217][private$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[2022-10-18 22:24:45.957][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[2022-10-18 22:24:46.353][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:46.363][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2022-10-18 22:24:46.380][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2022-10-18 22:24:46.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:46.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:46.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:46.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:46.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:46.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:46.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:46.403][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2022-10-18 22:24:46.449][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:24:46.451][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2022-10-18 22:24:46.453][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:24:46.454][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:24:46.455][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:24:46.457][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:24:46.459][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:24:46.460][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:24:46.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:46.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:46.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:46.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:46.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:46.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:46.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:46.479][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2022-10-18 22:24:46.483][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:46.485][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:46.488][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2022-10-18 22:24:46.871][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2022-10-18 22:24:47.268][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:47.278][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2022-10-18 22:24:47.298][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2022-10-18 22:24:47.314][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2022-10-18 22:24:47.321][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:24:47.337][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:24:47.339][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:24:47.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:47.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:47.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:47.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:47.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:47.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:47.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:47.357][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:47.358][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:47.360][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.361][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:47.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:47.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.371][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:47.372][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:47.374][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.375][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.376][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:47.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:47.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.386][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:47.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:47.389][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.390][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.392][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:47.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:47.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.401][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:47.402][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:47.403][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.404][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:47.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:47.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.415][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:47.416][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:47.418][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.419][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:47.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:47.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.430][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:47.431][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:47.432][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.433][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.435][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:47.436][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:47.437][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.438][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.440][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:47.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:47.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.456][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:47.457][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:47.458][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.459][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:47.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:47.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.470][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:47.472][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:47.473][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.474][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:47.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:47.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.485][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:47.486][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:47.488][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.489][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.490][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:47.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:47.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.499][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:47.501][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:47.502][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.503][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.505][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:47.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:47.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:47.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:47.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:47.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:47.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:47.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:47.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:47.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:47.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:47.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:47.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:47.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:47.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:47.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:47.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:47.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:47.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:47.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:47.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:47.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:47.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:47.567][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2022-10-18 22:24:47.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:47.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:47.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:47.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:47.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:47.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:47.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:47.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:47.600][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[2022-10-18 22:24:47.605][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:47.606][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:47.608][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2022-10-18 22:24:47.979][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2022-10-18 22:24:48.376][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:48.391][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2022-10-18 22:24:48.414][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2022-10-18 22:24:48.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:48.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:48.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:48.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:48.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:48.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:48.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:48.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:48.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:48.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:48.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:48.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:48.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:48.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:48.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:48.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:48.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:48.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:48.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:48.502][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:24:48.508][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:48.510][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:48.513][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2022-10-18 22:24:48.885][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2022-10-18 22:24:49.279][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:49.289][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content"
biodb.TRACE[2022-10-18 22:24:49.305][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.request"
biodb.DEBUG[2022-10-18 22:24:49.398][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[2022-10-18 22:24:49.402][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:24:49.404][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-10-18 22:24:49.405][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:24:49.407][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2022-10-18 22:24:49.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:49.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:49.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:49.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:49.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:49.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:49.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:49.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:49.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:49.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:49.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:49.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:49.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:49.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:49.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:49.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:49.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:49.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:49.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:49.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:49.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:49.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:49.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:49.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:49.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:49.477][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[2022-10-18 22:24:49.479][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2022-10-18 22:24:49.480][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:24:49.482][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2022-10-18 22:24:49.484][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:24:49.485][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:24:49.487][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:24:49.488][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:24:49.489][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:24:49.490][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:24:49.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:49.505][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:49.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:49.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:49.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:49.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:49.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:49.520][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2022-10-18 22:24:49.523][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:49.524][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:49.526][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2022-10-18 22:24:49.908][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2022-10-18 22:24:50.322][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:50.336][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2022-10-18 22:24:50.359][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2022-10-18 22:24:50.381][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2022-10-18 22:24:50.391][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:24:50.417][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:24:50.420][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:24:50.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:50.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:50.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:50.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:50.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:50.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:50.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:50.449][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:50.451][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:50.453][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.455][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:50.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:50.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.472][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:50.474][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:50.476][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.478][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.489][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:50.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:50.495][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.497][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.500][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:50.503][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:50.505][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.506][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.509][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:50.511][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:50.513][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.515][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.517][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:50.520][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:50.521][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.523][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.526][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:50.528][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.530][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.532][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.534][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:50.536][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:50.538][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.540][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.543][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:50.545][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:50.547][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.549][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.552][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:50.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:50.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.566][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:50.569][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:50.571][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.573][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.576][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:50.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:50.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.590][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:50.593][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:50.595][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.596][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:50.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:50.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:50.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:50.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:50.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:50.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:50.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:50.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:50.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:50.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:50.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:50.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:50.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:50.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:50.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:50.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:50.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:50.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:50.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:50.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:50.679][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2022-10-18 22:24:50.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:50.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:50.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:50.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:50.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:50.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:50.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:50.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:50.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:50.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:50.735][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.DEBUG[2022-10-18 22:24:50.736][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2022-10-18 22:24:50.738][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:24:50.740][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2022-10-18 22:24:50.742][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:24:50.743][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:24:50.745][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:24:50.746][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:24:50.747][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:24:50.748][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:24:50.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:50.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:50.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:50.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:50.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:50.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:50.766][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[2022-10-18 22:24:50.767][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2022-10-18 22:24:50.771][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:50.772][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:50.774][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2022-10-18 22:24:52.034][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2022-10-18 22:24:52.428][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:52.438][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2022-10-18 22:24:52.453][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2022-10-18 22:24:52.467][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2022-10-18 22:24:52.479][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:24:52.497][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:24:52.499][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:24:52.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:52.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:52.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:52.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:52.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:52.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:52.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:52.517][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:52.518][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:52.520][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.521][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:52.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:52.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.534][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:52.536][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:52.538][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.540][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.542][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:52.544][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:52.546][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.549][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.552][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:52.554][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:52.556][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.558][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.560][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:52.562][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:52.564][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.566][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.568][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:52.570][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:52.572][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.574][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.576][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:52.579][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.581][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.582][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.584][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:52.586][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:52.588][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.590][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.592][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:52.594][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:52.596][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.597][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:52.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:52.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.614][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:52.616][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:52.618][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.620][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.622][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:52.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:52.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.635][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:52.637][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:52.639][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.641][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:52.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:52.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:52.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:52.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:52.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:52.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:52.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:52.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:52.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:52.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:52.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:52.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:52.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:52.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:52.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:52.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:52.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:52.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:52.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:52.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:52.727][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2022-10-18 22:24:52.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:52.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:52.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:52.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:52.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:52.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:52.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:52.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:52.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:52.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:52.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:52.772][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2022-10-18 22:24:52.773][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:24:52.775][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2022-10-18 22:24:52.777][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:24:52.778][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:24:52.780][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:24:52.781][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:24:52.782][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:24:52.783][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:24:52.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:52.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:52.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:52.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:52.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:52.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:52.801][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[2022-10-18 22:24:52.803][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2022-10-18 22:24:52.806][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:52.808][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:52.809][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2022-10-18 22:24:53.190][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2022-10-18 22:24:53.601][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:53.611][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2022-10-18 22:24:53.627][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2022-10-18 22:24:53.642][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2022-10-18 22:24:53.649][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:24:53.666][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:24:53.668][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:24:53.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:53.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:53.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:53.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:53.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:53.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:53.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:53.687][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:53.689][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:53.690][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.691][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:53.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:53.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.703][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:53.705][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:53.706][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.707][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.709][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:53.711][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:53.713][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.715][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.717][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:53.719][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:53.720][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.721][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.723][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:53.724][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:53.726][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.728][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.730][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:53.732][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:53.734][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.736][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.746][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:53.747][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.749][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.750][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.751][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:53.753][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:53.754][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.755][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.757][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:53.758][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:53.759][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.760][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:53.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:53.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.771][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:53.773][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:53.774][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.775][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.777][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:53.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:53.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.787][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:53.788][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:53.790][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.791][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:53.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:53.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:53.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:53.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:53.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:53.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:53.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:53.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:53.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:53.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:53.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:53.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:53.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:53.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:53.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:53.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:53.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:53.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:53.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:53.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:53.849][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2022-10-18 22:24:53.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:53.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:53.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:53.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:53.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:53.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:53.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:53.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:53.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:53.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:53.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:53.891][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2022-10-18 22:24:53.893][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:24:53.895][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2022-10-18 22:24:53.902][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:24:53.904][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:24:53.906][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:24:53.907][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:24:53.908][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:24:53.910][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:24:53.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:53.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:53.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:53.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:53.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:53.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:53.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:53.929][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2022-10-18 22:24:53.933][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:53.934][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:53.936][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2022-10-18 22:24:54.354][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2022-10-18 22:24:54.750][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:54.759][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2022-10-18 22:24:54.776][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2022-10-18 22:24:54.792][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2022-10-18 22:24:54.800][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:24:54.836][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:24:54.839][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:24:54.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:54.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:54.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:54.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:54.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:54.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:54.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:54.868][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:54.869][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:54.870][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.871][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:54.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:54.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.882][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:54.883][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:54.884][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.886][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.887][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:54.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:54.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.896][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:54.897][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:54.899][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.900][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.901][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:54.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:54.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.911][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:54.912][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:54.914][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.915][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:54.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:54.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.925][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:54.927][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:54.928][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.929][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:54.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:54.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.939][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:54.941][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:54.942][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.943][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.944][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:54.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:54.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.953][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:54.955][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:54.956][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.957][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.958][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:54.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:54.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.967][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:54.969][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:54.970][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.971][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:54.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:54.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.982][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:54.984][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:54.986][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.987][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:54.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:54.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:54.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:54.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.006][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:55.008][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:55.010][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.011][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.014][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:55.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:55.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.027][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:55.029][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:55.031][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.033][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.035][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:55.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:55.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:55.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:55.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:55.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:55.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:55.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:55.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:55.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:55.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:55.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:55.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:55.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:55.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:55.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:55.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:55.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:55.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:55.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:55.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:55.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:55.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:55.128][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2022-10-18 22:24:55.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:55.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:55.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:55.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:55.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:55.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:55.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:55.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:55.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:55.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:55.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:55.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:55.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:55.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:55.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:55.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:55.164][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2022-10-18 22:24:55.165][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:24:55.167][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2022-10-18 22:24:55.169][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:24:55.170][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:24:55.172][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:24:55.173][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:24:55.174][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:24:55.176][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:24:55.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:55.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:55.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:55.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:55.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:55.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:55.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:55.201][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2022-10-18 22:24:55.204][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:55.206][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:55.207][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2022-10-18 22:24:55.685][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2022-10-18 22:24:56.110][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:56.120][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2022-10-18 22:24:56.136][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2022-10-18 22:24:56.150][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2022-10-18 22:24:56.157][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:24:56.173][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:24:56.175][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:24:56.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:56.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:56.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:56.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:56.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:56.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:56.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:56.201][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:56.202][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:56.204][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.205][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:56.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:56.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.215][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:56.217][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:56.218][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.219][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.221][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:56.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:56.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.231][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:56.233][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:56.234][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.235][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.237][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:56.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:56.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.246][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:56.248][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:56.249][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.250][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:56.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:56.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.260][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:56.262][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:56.263][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.264][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:56.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:56.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.276][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:56.277][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:56.279][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.280][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.281][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:56.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:56.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.290][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:56.292][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:56.293][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.294][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.296][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:56.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:56.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.305][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:56.306][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:56.308][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.309][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:56.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:56.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.321][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:56.322][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:56.323][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.325][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.327][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:56.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:56.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.336][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:56.337][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:56.338][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.340][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.341][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:56.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:56.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.351][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:56.352][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:56.359][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.361][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.363][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:56.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:56.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:56.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:56.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:56.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:56.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:56.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:56.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:56.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:56.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:56.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:56.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:56.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:56.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:56.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:56.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:56.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:56.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:56.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:56.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:56.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:56.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:56.428][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2022-10-18 22:24:56.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:56.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:56.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:56.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:56.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:56.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:56.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:56.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:56.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:56.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:56.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:56.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:56.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:56.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:56.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:56.458][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[2022-10-18 22:24:56.460][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2022-10-18 22:24:56.461][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:24:56.463][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2022-10-18 22:24:56.465][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:24:56.467][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:24:56.469][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:24:56.470][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:24:56.471][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:24:56.472][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:24:56.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:56.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:56.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:56.485][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:56.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:56.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:56.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:56.491][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2022-10-18 22:24:56.494][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:56.495][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:56.497][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2022-10-18 22:24:56.886][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2022-10-18 22:24:57.276][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:57.287][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2022-10-18 22:24:57.303][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2022-10-18 22:24:57.317][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2022-10-18 22:24:57.323][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:24:57.341][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:24:57.342][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:24:57.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:57.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:57.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:57.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:57.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:57.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:57.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:57.362][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:57.363][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:57.365][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.366][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:57.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:57.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.379][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:57.381][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:57.389][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.390][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.392][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:57.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:57.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.402][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:57.403][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:57.404][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.405][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.407][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:57.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:57.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:57.417][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:57.418][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.420][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:57.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:57.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.431][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:57.433][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:57.434][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.435][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:57.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:57.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.446][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:57.447][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:57.448][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.449][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.451][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:57.452][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:57.453][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.455][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.456][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:57.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:57.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.466][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:57.467][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:57.468][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.469][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:57.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:57.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.480][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:57.482][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:57.483][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.484][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.486][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:57.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:57.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.494][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:57.496][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:57.497][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.498][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.500][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:57.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:57.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.509][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:57.511][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:57.512][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.513][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.515][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:57.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:57.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:57.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:57.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:57.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:57.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:57.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:57.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:57.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:57.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:57.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:57.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:57.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:57.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:57.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:57.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:57.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:57.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:57.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:57.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:57.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:57.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:57.586][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2022-10-18 22:24:57.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:57.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:57.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:57.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:57.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:57.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:57.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:57.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:57.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:57.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:57.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:57.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:57.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:57.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:57.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:57.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:57.617][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2022-10-18 22:24:57.618][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:24:57.620][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2022-10-18 22:24:57.622][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:24:57.624][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:24:57.626][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:24:57.627][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:24:57.629][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:24:57.630][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:24:57.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:57.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:57.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:57.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:57.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:57.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:57.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:57.649][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2022-10-18 22:24:57.652][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:57.653][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:57.655][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2022-10-18 22:24:58.031][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2022-10-18 22:24:58.446][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:24:58.456][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2022-10-18 22:24:58.472][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2022-10-18 22:24:58.486][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2022-10-18 22:24:58.493][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:24:58.509][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:24:58.511][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:24:58.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:58.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:58.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:58.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:58.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:58.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:58.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:24:58.529][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:58.531][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:58.532][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.533][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:58.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:58.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.544][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:58.545][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:58.546][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.547][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.549][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:24:58.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:24:58.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.558][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:58.559][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:58.560][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.562][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.563][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:24:58.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:24:58.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.572][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:58.574][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:58.582][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.583][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:24:58.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:24:58.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.594][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:58.596][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:58.597][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.598][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:24:58.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:24:58.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.610][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:58.611][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:24:58.613][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.614][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.615][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:58.617][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:58.618][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.619][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.621][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:24:58.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:58.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.634][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:58.636][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:58.637][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.639][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:58.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:24:58.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.650][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:58.651][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:58.652][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.653][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:24:58.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:24:58.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.664][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:58.666][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:58.667][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.668][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.670][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:24:58.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:24:58.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.679][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:58.681][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:58.682][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.683][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.685][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:24:58.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:24:58.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:58.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:58.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:58.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:58.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:58.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:58.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:24:58.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:24:58.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:58.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:58.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:58.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:58.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:58.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:58.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:58.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:58.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:58.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:58.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:24:58.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:24:58.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:58.756][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2022-10-18 22:24:58.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:58.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:58.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:58.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:58.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:24:58.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:58.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:24:58.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:24:58.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:24:58.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:58.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:58.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:58.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:58.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:58.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:58.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:24:58.791][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2022-10-18 22:24:58.792][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:24:58.794][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2022-10-18 22:24:58.796][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:24:58.797][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:24:58.799][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:24:58.800][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:24:58.801][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:24:58.802][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:24:58.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:24:58.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:24:58.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:24:58.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:24:58.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:24:58.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:24:58.823][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[2022-10-18 22:24:58.824][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2022-10-18 22:24:58.828][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:24:58.829][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:24:58.831][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2022-10-18 22:24:59.739][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2022-10-18 22:25:00.159][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:00.184][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2022-10-18 22:25:00.204][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2022-10-18 22:25:00.225][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2022-10-18 22:25:00.234][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:00.260][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:00.263][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:00.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:00.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:00.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:00.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:00.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:00.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:00.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:00.291][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:00.293][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:00.295][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.297][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:00.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:00.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.313][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:00.315][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:00.317][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.319][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.322][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:00.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:00.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.333][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:00.335][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:00.336][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.337][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.339][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:00.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:00.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.352][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:00.355][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:00.357][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.359][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:00.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:00.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.373][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:00.376][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:00.378][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.380][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.383][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:00.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:00.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.409][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:00.412][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:00.414][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.417][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.419][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:00.422][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:00.424][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.426][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.428][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:00.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:00.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.442][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:00.444][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:00.446][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.448][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:00.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:00.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.464][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:00.466][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:00.468][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.470][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:00.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:00.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.487][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:00.489][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:00.491][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.493][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.495][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:00.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:00.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.509][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:00.511][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:00.513][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.515][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.518][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:00.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:00.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:00.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:00.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:00.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:00.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:00.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:00.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:00.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:00.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:00.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:00.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:00.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:00.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:00.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:00.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:00.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:00.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:00.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:00.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:00.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:00.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:00.614][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2022-10-18 22:25:00.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:00.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:00.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:00.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:00.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:00.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:00.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:00.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:00.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:00.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:00.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:00.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:00.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:00.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:00.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:00.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:00.671][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2022-10-18 22:25:00.673][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:00.676][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2022-10-18 22:25:00.678][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:00.680][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:00.682][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:00.684][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:00.686][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:00.688][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:00.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:00.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:00.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:00.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:00.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:00.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:00.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:00.715][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2022-10-18 22:25:00.719][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:00.721][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:00.724][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2022-10-18 22:25:01.112][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2022-10-18 22:25:01.928][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:01.942][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2022-10-18 22:25:01.966][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2022-10-18 22:25:01.989][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2022-10-18 22:25:02.008][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:02.030][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:02.031][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:02.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:02.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:02.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:02.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:02.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:02.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:02.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:02.050][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:02.051][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:02.053][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.054][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:02.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:02.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.067][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:02.069][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:02.070][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.071][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.073][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:02.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:02.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.082][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:02.084][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:02.085][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.086][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.088][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:02.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:02.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.097][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:02.099][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:02.100][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.101][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:02.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:02.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.113][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:02.114][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:02.116][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.117][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:02.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:02.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.128][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:02.129][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:02.130][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.132][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.134][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:02.135][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:02.136][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.137][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.139][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:02.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:02.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.148][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:02.149][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:02.151][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.152][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:02.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:02.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.168][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:02.170][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:02.172][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.173][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.175][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:02.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:02.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.185][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:02.186][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:02.187][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.189][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.190][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:02.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:02.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.199][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:02.201][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:02.202][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.203][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.205][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:02.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:02.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:02.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:02.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:02.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:02.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:02.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:02.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:02.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:02.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:02.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:02.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:02.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:02.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:02.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:02.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:02.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:02.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:02.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:02.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:02.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:02.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:02.272][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2022-10-18 22:25:02.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:02.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:02.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:02.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:02.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:02.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:02.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:02.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:02.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:02.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:02.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:02.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:02.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:02.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:02.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:02.301][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[2022-10-18 22:25:02.303][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2022-10-18 22:25:02.305][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:02.307][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2022-10-18 22:25:02.308][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:02.310][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:02.311][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:02.313][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:02.314][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:02.315][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:02.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:02.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:02.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:02.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:02.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:02.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:02.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:02.341][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2022-10-18 22:25:02.345][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:02.346][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:02.348][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2022-10-18 22:25:02.732][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2022-10-18 22:25:03.226][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:03.241][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2022-10-18 22:25:03.264][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2022-10-18 22:25:03.285][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2022-10-18 22:25:03.294][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:03.321][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:03.324][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:03.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:03.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:03.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:03.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:03.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:03.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:03.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:03.364][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:03.366][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:03.368][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.370][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:03.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:03.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.385][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:03.387][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:03.389][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.391][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.394][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:03.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:03.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.407][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:03.409][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:03.411][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.413][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.415][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:03.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:03.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.429][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:03.431][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:03.433][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.435][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:03.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:03.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.451][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:03.453][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:03.454][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.456][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:03.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:03.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.472][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:03.474][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:03.476][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.478][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.480][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:03.482][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:03.484][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.486][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.488][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:03.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:03.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.502][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:03.504][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:03.506][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.508][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:03.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:03.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.524][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:03.526][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:03.528][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.530][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.532][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:03.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:03.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.545][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:03.547][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:03.549][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.551][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.553][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:03.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:03.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.567][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:03.569][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:03.579][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.582][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.585][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:03.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:03.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:03.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:03.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:03.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:03.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:03.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:03.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:03.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:03.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:03.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:03.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:03.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:03.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:03.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:03.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:03.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:03.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:03.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:03.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:03.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:03.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:03.683][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2022-10-18 22:25:03.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:03.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:03.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:03.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:03.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:03.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:03.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:03.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:03.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:03.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:03.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:03.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:03.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:03.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:03.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:03.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:03.722][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2022-10-18 22:25:03.723][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:03.725][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2022-10-18 22:25:03.727][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:03.728][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:03.729][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:03.731][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:03.734][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:03.735][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:03.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:03.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:03.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:03.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:03.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:03.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:03.753][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.DEBUG[2022-10-18 22:25:03.755][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2022-10-18 22:25:03.758][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:03.759][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:03.761][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2022-10-18 22:25:04.153][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2022-10-18 22:25:04.753][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:04.763][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2022-10-18 22:25:04.777][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2022-10-18 22:25:04.791][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2022-10-18 22:25:04.797][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:04.813][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:04.815][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:04.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:04.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:04.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:04.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:04.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:04.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:04.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:04.833][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:04.834][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:04.836][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.837][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:04.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:04.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.847][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:04.849][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:04.850][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.856][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.859][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:04.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:04.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.869][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:04.871][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:04.872][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.873][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.875][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:04.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:04.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.884][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:04.885][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:04.887][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.888][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.889][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:04.891][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:04.892][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.893][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.894][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:04.896][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:04.897][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.898][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.900][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:04.901][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:04.902][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.904][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.905][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:04.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:04.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.916][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:04.918][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:04.919][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.920][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:04.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:04.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.930][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:04.932][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:04.933][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.934][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:04.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:04.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.945][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:04.946][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:04.947][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.949][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.950][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:04.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:04.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.959][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:04.960][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:04.962][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.963][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:04.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:04.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:04.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:04.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:04.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:04.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:04.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:04.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:04.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:04.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:04.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:04.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:04.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:04.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:04.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:04.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:05.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:05.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:05.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:05.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:05.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:05.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:05.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:05.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:05.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:05.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:05.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:05.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:05.025][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2022-10-18 22:25:05.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:05.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:05.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:05.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:05.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:05.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:05.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:05.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:05.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:05.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:05.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:05.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:05.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:05.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:05.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:05.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:05.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:05.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:05.054][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[2022-10-18 22:25:05.055][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2022-10-18 22:25:05.056][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:05.058][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2022-10-18 22:25:05.060][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:05.061][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:05.063][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:05.064][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:05.065][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:05.067][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:05.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:05.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:05.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:05.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:05.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:05.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:05.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:05.086][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2022-10-18 22:25:05.089][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:05.090][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:05.092][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2022-10-18 22:25:05.466][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2022-10-18 22:25:05.884][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:05.898][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2022-10-18 22:25:05.933][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2022-10-18 22:25:05.955][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2022-10-18 22:25:05.964][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:05.991][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:05.994][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:05.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:05.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:06.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:06.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:06.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:06.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:06.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:06.022][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:06.024][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:06.026][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.028][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:06.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:06.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.044][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:06.046][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:06.048][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.050][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.053][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:06.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:06.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.066][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:06.068][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:06.070][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.072][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.074][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:06.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:06.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.087][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:06.088][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:06.089][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.090][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.092][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:06.093][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:06.094][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.096][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.097][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:06.098][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:06.100][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.101][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.102][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:06.103][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:06.105][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.106][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.107][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:06.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:06.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.126][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:06.129][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:06.132][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.134][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:06.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:06.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.151][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:06.154][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:06.156][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.158][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:06.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:06.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.169][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:06.171][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:06.172][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.173][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.175][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:06.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:06.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.184][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:06.185][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:06.186][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.188][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:06.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:06.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:06.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:06.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:06.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:06.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:06.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:06.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:06.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:06.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:06.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:06.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:06.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:06.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:06.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:06.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:06.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:06.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:06.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:06.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:06.243][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2022-10-18 22:25:06.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:06.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:06.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:06.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:06.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:06.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:06.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:06.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:06.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:06.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:06.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:06.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:06.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:06.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:06.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:06.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:06.274][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2022-10-18 22:25:06.275][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:06.277][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2022-10-18 22:25:06.279][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:06.280][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:06.282][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:06.283][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:06.284][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:06.291][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:06.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:06.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:06.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:06.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:06.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:06.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:06.309][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[2022-10-18 22:25:06.310][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2022-10-18 22:25:06.314][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:06.315][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:06.317][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2022-10-18 22:25:06.741][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2022-10-18 22:25:07.178][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:07.193][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2022-10-18 22:25:07.217][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2022-10-18 22:25:07.235][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2022-10-18 22:25:07.241][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:07.267][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:07.269][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:07.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:07.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:07.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:07.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:07.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:07.286][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:07.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:07.290][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:07.292][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:07.293][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.294][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:07.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:07.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.305][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:07.307][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:07.308][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.309][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.311][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:07.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:07.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.320][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:07.321][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:07.323][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.324][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.325][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:07.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:07.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.337][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:07.339][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:07.340][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.341][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:07.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:07.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.352][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:07.353][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:07.355][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.356][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:07.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:07.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.367][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:07.368][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:07.369][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.370][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.372][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:07.373][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:07.375][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.376][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.378][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:07.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:07.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.387][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:07.388][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:07.390][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.391][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:07.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:07.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.402][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:07.403][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:07.404][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.405][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.407][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:07.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:07.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.417][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:07.418][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:07.419][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.421][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.422][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:07.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:07.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.441][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:07.443][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:07.444][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.446][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.447][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:07.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:07.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:07.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:07.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:07.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:07.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:07.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:07.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:07.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:07.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:07.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:07.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:07.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:07.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:07.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:07.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:07.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:07.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:07.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:07.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:07.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:07.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:07.516][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2022-10-18 22:25:07.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:07.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:07.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:07.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:07.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:07.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:07.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:07.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:07.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:07.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:07.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:07.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:07.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:07.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:07.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:07.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:07.550][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2022-10-18 22:25:07.551][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:07.553][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2022-10-18 22:25:07.555][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:07.556][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:07.557][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:07.559][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:07.560][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:07.561][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:07.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:07.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:07.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:07.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:07.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:07.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:07.578][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.DEBUG[2022-10-18 22:25:07.580][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2022-10-18 22:25:07.583][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:07.585][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:07.586][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2022-10-18 22:25:07.975][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2022-10-18 22:25:08.465][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:08.479][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2022-10-18 22:25:08.502][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2022-10-18 22:25:08.523][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2022-10-18 22:25:08.531][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:08.558][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:08.561][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:08.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:08.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:08.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:08.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:08.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:08.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:08.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:08.591][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:08.593][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:08.595][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.597][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:08.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:08.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.626][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:08.628][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:08.630][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.632][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.635][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:08.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:08.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.649][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:08.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:08.654][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.656][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.658][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:08.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:08.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.667][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:08.670][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:08.672][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.674][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:08.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:08.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.690][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:08.693][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:08.695][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.696][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.699][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:08.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:08.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.712][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:08.714][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:08.716][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.718][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.721][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:08.723][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:08.725][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.726][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.729][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:08.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:08.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.743][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:08.745][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:08.747][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.749][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:08.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:08.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.764][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:08.767][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:08.769][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.770][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:08.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:08.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.786][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:08.789][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:08.791][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.792][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.795][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:08.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:08.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.808][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:08.810][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:08.812][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.814][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.816][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:08.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:08.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:08.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:08.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:08.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:08.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:08.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:08.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:08.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:08.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:08.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:08.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:08.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:08.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:08.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:08.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:08.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:08.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:08.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:08.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:08.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:08.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:08.920][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2022-10-18 22:25:08.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:08.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:08.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:08.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:08.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:08.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:08.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:08.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:08.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:08.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:08.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:08.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:08.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:08.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:08.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:08.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:08.966][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2022-10-18 22:25:08.968][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:08.971][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2022-10-18 22:25:08.973][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:08.975][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:08.977][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:08.979][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:08.981][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:08.983][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:08.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:08.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:08.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:09.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:09.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:09.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:09.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:09.011][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2022-10-18 22:25:09.016][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:09.018][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:09.020][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2022-10-18 22:25:09.396][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2022-10-18 22:25:09.792][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:09.801][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2022-10-18 22:25:09.816][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2022-10-18 22:25:09.831][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2022-10-18 22:25:09.837][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:09.864][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:09.867][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:09.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:09.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:09.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:09.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:09.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:09.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:09.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:09.890][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:09.891][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:09.893][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.894][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:09.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:09.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.905][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:09.907][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:09.908][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.910][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:09.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:09.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.928][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:09.929][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:09.931][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.933][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.935][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:09.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:09.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.945][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:09.947][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:09.948][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.949][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:09.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:09.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.962][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:09.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:09.965][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.966][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:09.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:09.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.978][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:09.979][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:09.980][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.981][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.983][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:09.984][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:09.986][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.987][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.989][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:09.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:09.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:09.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:09.998][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:09.999][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:10.001][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.003][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:10.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:10.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.016][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:10.017][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:10.019][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.020][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:10.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:10.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.030][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:10.032][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:10.033][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.034][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.036][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:10.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:10.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.045][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:10.046][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:10.048][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.049][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.050][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:10.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:10.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:10.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:10.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:10.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:10.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:10.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:10.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:10.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:10.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:10.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:10.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:10.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:10.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:10.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:10.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:10.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:10.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:10.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:10.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:10.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:10.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:10.122][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2022-10-18 22:25:10.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:10.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:10.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:10.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:10.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:10.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:10.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:10.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:10.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:10.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:10.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:10.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:10.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:10.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:10.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:10.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:10.154][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2022-10-18 22:25:10.155][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:10.157][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2022-10-18 22:25:10.159][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:10.161][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:10.162][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:10.164][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:10.165][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:10.166][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:10.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:10.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:10.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:10.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:10.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:10.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:10.192][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[2022-10-18 22:25:10.195][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2022-10-18 22:25:10.200][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:10.202][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:10.205][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2022-10-18 22:25:10.598][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2022-10-18 22:25:11.235][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:11.250][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2022-10-18 22:25:11.273][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2022-10-18 22:25:11.292][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2022-10-18 22:25:11.298][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:11.316][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:11.318][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:11.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:11.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:11.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:11.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:11.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:11.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:11.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:11.336][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:11.337][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:11.339][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.340][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:11.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:11.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.350][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:11.351][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:11.352][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.354][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.355][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:11.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:11.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.364][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:11.365][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:11.366][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.367][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.369][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:11.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:11.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.380][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:11.382][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:11.383][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.384][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:11.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:11.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:11.398][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:11.399][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.401][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:11.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:11.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.415][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:11.418][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:11.419][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.421][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.424][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:11.426][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:11.428][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.430][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.433][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:11.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:11.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.448][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:11.450][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:11.453][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.455][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:11.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:11.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.473][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:11.475][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:11.477][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.479][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.482][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:11.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:11.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.497][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:11.500][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:11.502][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.504][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.507][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:11.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:11.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.521][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:11.524][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:11.526][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.528][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.531][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:11.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:11.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:11.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:11.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:11.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:11.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:11.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:11.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:11.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:11.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:11.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:11.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:11.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:11.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:11.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:11.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:11.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:11.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:11.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:11.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:11.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:11.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:11.632][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2022-10-18 22:25:11.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:11.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:11.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:11.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:11.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:11.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:11.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:11.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:11.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:11.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:11.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:11.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:11.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:11.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:11.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:11.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:11.680][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2022-10-18 22:25:11.681][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:11.683][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2022-10-18 22:25:11.685][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:11.687][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:11.688][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:11.690][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:11.691][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:11.693][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:11.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:11.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:11.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:11.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:11.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:11.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:11.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:11.713][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2022-10-18 22:25:11.718][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:11.720][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:11.722][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2022-10-18 22:25:12.112][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2022-10-18 22:25:12.522][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:12.532][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2022-10-18 22:25:12.547][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2022-10-18 22:25:12.562][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2022-10-18 22:25:12.568][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:12.584][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:12.586][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:12.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:12.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:12.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:12.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:12.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:12.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:12.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:12.611][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:12.613][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:12.615][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.617][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:12.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:12.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.632][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:12.634][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:12.636][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.638][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.640][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:12.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:12.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.653][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:12.655][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:12.657][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.659][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.661][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:12.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:12.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.674][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:12.676][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:12.678][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.680][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:12.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:12.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.695][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:12.698][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:12.700][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.702][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:12.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:12.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.717][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:12.718][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:12.719][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.720][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.727][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:12.728][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.729][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.731][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.732][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:12.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.741][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:12.742][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:12.743][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.745][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:12.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:12.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.758][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:12.760][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:12.762][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.764][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:12.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:12.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.780][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:12.783][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:12.784][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.786][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.789][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:12.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:12.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.798][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:12.799][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:12.800][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.801][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.803][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:12.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:12.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:12.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:12.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:12.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:12.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:12.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:12.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:12.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:12.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:12.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:12.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:12.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:12.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:12.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:12.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:12.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:12.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:12.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:12.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:12.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:12.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:12.866][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2022-10-18 22:25:12.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:12.931][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[2022-10-18 22:25:12.935][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:12.937][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-10-18 22:25:12.939][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:12.941][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2022-10-18 22:25:12.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:12.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:12.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:12.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:12.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:12.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:12.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:12.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:12.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:12.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:12.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.205][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.TRACE[2022-10-18 22:25:13.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.425][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:13.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:13.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:13.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:13.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:13.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:13.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:13.557][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[2022-10-18 22:25:13.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:13.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:13.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:13.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:13.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:13.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:13.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:13.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:13.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:13.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:13.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:13.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:13.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:13.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:13.701][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[2022-10-18 22:25:13.705][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:13.707][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:13.709][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2022-10-18 22:25:14.398][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2022-10-18 22:25:14.880][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:14.889][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2022-10-18 22:25:14.903][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2022-10-18 22:25:14.911][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:14.915][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:14.916][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:14.918][private$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[2022-10-18 22:25:15.680][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[2022-10-18 22:25:16.085][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:16.095][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2022-10-18 22:25:16.113][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2022-10-18 22:25:16.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:16.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:16.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:16.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:16.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:16.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:16.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:16.138][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2022-10-18 22:25:16.140][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:16.142][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2022-10-18 22:25:16.143][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:16.145][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:16.147][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:16.148][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:16.149][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:16.150][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:16.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:16.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:16.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:16.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:16.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:16.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:16.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:16.174][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2022-10-18 22:25:16.177][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:16.179][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:16.180][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2022-10-18 22:25:16.558][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2022-10-18 22:25:16.947][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:16.956][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2022-10-18 22:25:16.971][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2022-10-18 22:25:16.985][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2022-10-18 22:25:16.991][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:17.007][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:17.009][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:17.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:17.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:17.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:17.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:17.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:17.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:17.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:17.026][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:17.028][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:17.029][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.030][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:17.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:17.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.040][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:17.041][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:17.043][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.044][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.045][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:17.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:17.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.054][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:17.055][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:17.056][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.057][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.059][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:17.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:17.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.068][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:17.070][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:17.071][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.072][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:17.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:17.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.082][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:17.083][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:17.084][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.085][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:17.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:17.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.095][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:17.097][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:17.098][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.099][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.100][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:17.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:17.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.109][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:17.110][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:17.111][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.113][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.114][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:17.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:17.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.123][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.124][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.125][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.126][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.136][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:17.138][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:17.139][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.140][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:17.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:17.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.150][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:17.152][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:17.153][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.154][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.155][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:17.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:17.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.164][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:17.165][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:17.166][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.168][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.169][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:17.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:17.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:17.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:17.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:17.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:17.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:17.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:17.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:17.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:17.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:17.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:17.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:17.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:17.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:17.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:17.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:17.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:17.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:17.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:17.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:17.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:17.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:17.246][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2022-10-18 22:25:17.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:17.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:17.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:17.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:17.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:17.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:17.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:17.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:17.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:17.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:17.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:17.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:17.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:17.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:17.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:17.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:17.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:17.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:17.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:17.340][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2022-10-18 22:25:17.342][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:17.345][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2022-10-18 22:25:17.347][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:17.349][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:17.352][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:17.354][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:17.355][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:17.358][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:17.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:17.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:17.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:17.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:17.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:17.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:17.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:17.379][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2022-10-18 22:25:17.382][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:17.384][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:17.385][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2022-10-18 22:25:17.769][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2022-10-18 22:25:18.182][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:18.192][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2022-10-18 22:25:18.208][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2022-10-18 22:25:18.225][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2022-10-18 22:25:18.231][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:18.248][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:18.250][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:18.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:18.270][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:18.272][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:18.273][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.275][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:18.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:18.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.287][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:18.288][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:18.290][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.291][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.292][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:18.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:18.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.302][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:18.304][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:18.305][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.306][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:18.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:18.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.317][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:18.318][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:18.320][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.321][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:18.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:18.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.332][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:18.333][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:18.334][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.335][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:18.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:18.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.347][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:18.348][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:18.349][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.350][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.352][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:18.353][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:18.354][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.356][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.357][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:18.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:18.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.368][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.369][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.370][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.381][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:18.382][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:18.384][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.385][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.387][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:18.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:18.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.395][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:18.397][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:18.398][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.399][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.401][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:18.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:18.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.410][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:18.411][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:18.412][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.413][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.415][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:18.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:18.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:18.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:18.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:18.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:18.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:18.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:18.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:18.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:18.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:18.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:18.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:18.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:18.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:18.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:18.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:18.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:18.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:18.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:18.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:18.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:18.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.484][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2022-10-18 22:25:18.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.562][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[2022-10-18 22:25:18.566][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:18.569][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-10-18 22:25:18.571][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:18.573][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2022-10-18 22:25:18.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:18.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:18.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:18.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.731][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[2022-10-18 22:25:18.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.774][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[2022-10-18 22:25:18.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:18.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:18.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:18.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:18.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:18.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.966][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[2022-10-18 22:25:18.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:18.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:18.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:18.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:18.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:18.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:18.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:18.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:18.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:18.996][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.TRACE[2022-10-18 22:25:18.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:18.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.088][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.TRACE[2022-10-18 22:25:19.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.257][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[2022-10-18 22:25:19.261][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:19.263][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-10-18 22:25:19.264][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:19.266][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2022-10-18 22:25:19.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.337][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.TRACE[2022-10-18 22:25:19.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.456][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.TRACE[2022-10-18 22:25:19.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.516][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.TRACE[2022-10-18 22:25:19.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.603][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[2022-10-18 22:25:19.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.788][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[2022-10-18 22:25:19.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:19.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:19.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.890][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-10-18 22:25:19.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-10-18 22:25:19.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-10-18 22:25:19.915][biodb::testThat]
biodb.INFO [2022-10-18 22:25:19.917][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2022-10-18 22:25:19.919][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:19.920][biodb::testThat]
biodb.TRACE[2022-10-18 22:25:19.926][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 22:25:19.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 22:25:19.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:19.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:19.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:19.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:19.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:19.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:19.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:19.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:19.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:19.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:19.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:19.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:19.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:19.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:19.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:19.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:19.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:19.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:20.035][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[2022-10-18 22:25:20.038][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:20.040][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2022-10-18 22:25:20.042][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:20.044][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2022-10-18 22:25:20.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:20.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:20.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:20.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:20.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:20.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:20.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:20.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:20.094][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[2022-10-18 22:25:20.098][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:20.099][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2022-10-18 22:25:20.101][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:20.103][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2022-10-18 22:25:20.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:20.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:20.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:20.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:20.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:20.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:20.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:20.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:20.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:20.145][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:20.150][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:20.151][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2022-10-18 22:25:20.153][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:20.155][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2022-10-18 22:25:20.158][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2022-10-18 22:25:20.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:20.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:20.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:20.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:20.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:20.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:20.183][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.TRACE[2022-10-18 22:25:20.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.196][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:20.197][private$selectFields]
biodb.TRACE[2022-10-18 22:25:20.198][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:20.199][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:20.201][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:20.202][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.203][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.205][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.206][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.208][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.210][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.211][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.212][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:20.213][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:20.214][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.216][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.217][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.218][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.219][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:20.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.244][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2022-10-18 22:25:20.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:20.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:20.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:20.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:20.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:20.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:20.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:20.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.271][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:20.272][private$selectFields]
biodb.TRACE[2022-10-18 22:25:20.273][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:20.275][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:20.276][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:20.277][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.278][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.280][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.281][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.282][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.283][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.285][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.286][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.287][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:20.289][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:20.291][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.293][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.295][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.296][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.298][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:20.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:20.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.320][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-10-18 22:25:20.322][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2022-10-18 22:25:20.323][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-10-18 22:25:20.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:20.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:20.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:20.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:20.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:20.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:20.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:20.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:20.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:20.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:20.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:20.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:20.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:20.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:20.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:20.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:20.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:20.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:20.533][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:20.539][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:20.541][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:20.544][private$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[2022-10-18 22:25:21.149][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[2022-10-18 22:25:21.577][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:21.602][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2022-10-18 22:25:21.626][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2022-10-18 22:25:21.638][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[2022-10-18 22:25:21.644][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:21.646][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:21.649][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2022-10-18 22:25:22.035][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2022-10-18 22:25:22.436][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:22.450][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2022-10-18 22:25:22.472][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2022-10-18 22:25:22.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:22.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:22.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:22.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:22.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:22.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:22.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:22.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:22.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:22.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:22.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:22.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:22.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:22.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:22.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:22.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:22.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:22.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:22.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:22.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:22.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:22.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:22.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:22.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:22.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:22.643][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-10-18 22:25:22.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:22.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:22.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:22.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:22.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:22.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:22.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:22.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.715][private$selectFields]
biodb.TRACE[2022-10-18 22:25:22.716][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:22.718][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:22.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.723][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.725][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.727][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.728][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.730][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.732][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.733][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.737][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.742][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.744][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.746][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:22.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.769][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2022-10-18 22:25:22.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:22.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:22.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:22.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:22.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:22.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:22.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:22.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.860][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.862][private$selectFields]
biodb.TRACE[2022-10-18 22:25:22.864][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:22.866][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:22.867][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.869][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.873][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.875][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.880][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.882][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.884][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.898][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.900][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.902][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.904][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.906][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.908][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:22.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.931][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-10-18 22:25:22.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:22.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:22.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:22.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:22.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:22.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:22.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:22.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.969][private$selectFields]
biodb.TRACE[2022-10-18 22:25:22.971][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:22.972][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:22.974][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.976][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.978][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.979][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.981][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.985][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.987][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.988][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:22.990][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.992][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:22.993][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.995][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:22.997][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:22.998][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.000][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:23.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.023][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2022-10-18 22:25:23.025][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-10-18 22:25:23.026][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-10-18 22:25:23.041][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-10-18 22:25:23.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-10-18 22:25:23.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-10-18 22:25:23.051][biodb::testThat]
biodb.INFO [2022-10-18 22:25:23.052][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2022-10-18 22:25:23.054][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:23.056][biodb::testThat]
biodb.TRACE[2022-10-18 22:25:23.062][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 22:25:23.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 22:25:23.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:23.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:23.207][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:23.213][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:23.215][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2022-10-18 22:25:23.218][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:23.221][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2022-10-18 22:25:23.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:23.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:23.269][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:23.274][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:23.276][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2022-10-18 22:25:23.279][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:23.281][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2022-10-18 22:25:23.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:23.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:23.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:23.329][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:23.334][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:23.336][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2022-10-18 22:25:23.339][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:23.342][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2022-10-18 22:25:23.346][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2022-10-18 22:25:23.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:23.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.385][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.386][private$selectFields]
biodb.TRACE[2022-10-18 22:25:23.388][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:23.398][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:23.399][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.401][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.403][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.404][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.406][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.408][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.409][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.411][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.413][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.414][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.416][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.417][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.419][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.421][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.422][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.424][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:23.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.445][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2022-10-18 22:25:23.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:23.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.471][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.472][private$selectFields]
biodb.TRACE[2022-10-18 22:25:23.473][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:23.474][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:23.476][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.477][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.478][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.479][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.480][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.482][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.483][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.484][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.485][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.486][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.488][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.489][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.490][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.491][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.492][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.493][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:23.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.510][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-10-18 22:25:23.511][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2022-10-18 22:25:23.512][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-10-18 22:25:23.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:23.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.567][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[2022-10-18 22:25:23.617][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[2022-10-18 22:25:23.621][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:23.623][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2022-10-18 22:25:23.624][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:23.626][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2022-10-18 22:25:23.630][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[2022-10-18 22:25:23.633][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:23.635][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2022-10-18 22:25:23.637][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:23.643][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2022-10-18 22:25:23.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:23.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:23.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:23.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:23.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.722][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[2022-10-18 22:25:23.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:23.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:23.740][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-10-18 22:25:23.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:23.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.780][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.782][private$selectFields]
biodb.TRACE[2022-10-18 22:25:23.784][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:23.786][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:23.788][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.790][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.792][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.793][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.795][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.797][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.801][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.803][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.806][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.810][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.812][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.814][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.816][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:23.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.839][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2022-10-18 22:25:23.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:23.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.880][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.882][private$selectFields]
biodb.TRACE[2022-10-18 22:25:23.884][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:23.885][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:23.887][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.891][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.893][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.895][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.897][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.899][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.900][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.902][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.904][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.906][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.911][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.913][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.914][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.916][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:23.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.932][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-10-18 22:25:23.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:23.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:23.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:23.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:23.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:23.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:23.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:23.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.959][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.960][private$selectFields]
biodb.TRACE[2022-10-18 22:25:23.961][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:23.962][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:23.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.965][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.966][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.967][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.969][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.970][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.971][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.973][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.974][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.975][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.976][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:23.977][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.980][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.981][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.982][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:23.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:23.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:23.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:23.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.000][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2022-10-18 22:25:24.001][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-10-18 22:25:24.002][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-10-18 22:25:24.012][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-10-18 22:25:24.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-10-18 22:25:24.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-10-18 22:25:24.019][biodb::testThat]
biodb.INFO [2022-10-18 22:25:24.020][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2022-10-18 22:25:24.021][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:24.022][biodb::testThat]
biodb.TRACE[2022-10-18 22:25:24.027][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 22:25:24.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 22:25:24.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:24.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:24.133][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[2022-10-18 22:25:24.137][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:24.139][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2022-10-18 22:25:24.141][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:24.143][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2022-10-18 22:25:24.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:24.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:24.177][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[2022-10-18 22:25:24.180][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:24.182][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2022-10-18 22:25:24.184][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:24.186][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2022-10-18 22:25:24.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:24.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:24.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:24.221][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:24.225][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:24.226][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2022-10-18 22:25:24.228][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:24.230][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2022-10-18 22:25:24.233][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2022-10-18 22:25:24.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.248][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.TRACE[2022-10-18 22:25:24.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.259][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.260][private$selectFields]
biodb.TRACE[2022-10-18 22:25:24.261][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:24.263][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:24.264][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.268][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.269][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.272][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.274][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.275][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.276][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.277][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.279][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.280][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.281][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.282][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:24.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.304][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2022-10-18 22:25:24.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:24.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.331][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.332][private$selectFields]
biodb.TRACE[2022-10-18 22:25:24.334][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:24.336][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:24.338][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.339][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.344][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.346][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.347][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.349][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.351][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.352][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.353][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.355][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.356][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.358][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.360][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.361][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.362][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:24.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.379][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-10-18 22:25:24.380][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2022-10-18 22:25:24.381][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-10-18 22:25:24.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:24.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:24.514][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:24.518][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:24.519][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2022-10-18 22:25:24.521][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:24.523][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2022-10-18 22:25:24.527][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:24.531][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:24.532][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2022-10-18 22:25:24.534][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:24.537][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2022-10-18 22:25:24.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:24.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:24.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:24.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:24.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:24.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:24.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:24.643][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-10-18 22:25:24.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:24.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.675][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.676][private$selectFields]
biodb.TRACE[2022-10-18 22:25:24.677][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:24.679][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:24.680][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.683][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.684][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.685][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.687][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.688][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.690][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.691][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.693][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.694][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.697][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.699][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.701][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.702][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.703][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:24.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.727][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2022-10-18 22:25:24.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:24.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.770][private$selectFields]
biodb.TRACE[2022-10-18 22:25:24.772][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:24.774][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:24.776][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.782][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.784][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.786][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.787][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.788][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.792][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.796][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.797][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.798][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:24.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.816][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-10-18 22:25:24.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:24.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.843][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.844][private$selectFields]
biodb.TRACE[2022-10-18 22:25:24.845][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-10-18 22:25:24.847][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-10-18 22:25:24.848][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.849][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.851][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.852][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.853][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.854][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.856][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.857][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.858][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.860][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.861][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-10-18 22:25:24.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.864][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.866][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.867][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-10-18 22:25:24.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:24.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:24.883][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2022-10-18 22:25:24.885][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-10-18 22:25:24.886][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-10-18 22:25:24.920][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-10-18 22:25:24.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-10-18 22:25:24.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:24.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-10-18 22:25:24.931][biodb::testThat]
biodb.INFO [2022-10-18 22:25:24.933][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2022-10-18 22:25:24.934][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:24.936][biodb::testThat]
biodb.DEBUG[2022-10-18 22:25:24.940][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2022-10-18 22:25:24.942][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:24.945][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2022-10-18 22:25:24.948][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:24.950][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:24.952][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:24.954][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:24.956][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:24.958][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:24.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:24.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:24.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:24.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:24.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:24.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:24.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:24.986][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2022-10-18 22:25:24.991][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:24.993][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:24.995][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2022-10-18 22:25:25.386][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2022-10-18 22:25:25.796][scheduler$sendRequest] Saving content of request to cache.
biodb.INFO [2022-10-18 22:25:25.805][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2022-10-18 22:25:25.813][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2022-10-18 22:25:25.836][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2022-10-18 22:25:25.856][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2022-10-18 22:25:25.862][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:25.877][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:25.879][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:25.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:25.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:25.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:25.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:25.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:25.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:25.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:25.901][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:25.903][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:25.904][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.905][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:25.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:25.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.916][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:25.917][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:25.918][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.920][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.922][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:25.924][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:25.926][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.928][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.930][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:25.931][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:25.933][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.934][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.936][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:25.938][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:25.940][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.941][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.944][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:25.946][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:25.948][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.949][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.952][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:25.954][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:25.955][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.956][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.958][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:25.959][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:25.961][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.962][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.963][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:25.965][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:25.966][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.967][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.969][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:25.970][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:25.971][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.973][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.974][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:25.976][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:25.977][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.978][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:25.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:25.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:25.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:25.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:25.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:25.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:25.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:26.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:26.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:26.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:26.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:26.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:26.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:26.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:26.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:26.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:26.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:26.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:26.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:26.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:26.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:26.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:26.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:26.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:26.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:26.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:26.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:26.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:26.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:26.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:26.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:26.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:26.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:26.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:26.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:26.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:26.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:26.045][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2022-10-18 22:25:26.046][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2022-10-18 22:25:26.056][biodb::testThat]
biodb.INFO [2022-10-18 22:25:26.058][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2022-10-18 22:25:26.059][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:26.060][biodb::testThat]
biodb.DEBUG[2022-10-18 22:25:26.082][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2022-10-18 22:25:26.084][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2022-10-18 22:25:26.085][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2022-10-18 22:25:26.087][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2022-10-18 22:25:26.089][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-10-18 22:25:26.090][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:26.091][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:26.093][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:26.094][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:26.095][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:26.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:26.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:26.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:26.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:26.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:26.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:26.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:26.114][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2022-10-18 22:25:26.117][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:26.119][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:26.120][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2022-10-18 22:25:26.498][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2022-10-18 22:25:26.905][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:26.915][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2022-10-18 22:25:26.930][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2022-10-18 22:25:26.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:26.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:26.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:26.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:26.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:26.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:26.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:26.963][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2022-10-18 22:25:26.968][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:26.970][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:26.972][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2022-10-18 22:25:27.365][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2022-10-18 22:25:27.767][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:27.776][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2022-10-18 22:25:27.791][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2022-10-18 22:25:27.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:27.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:27.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:27.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:27.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:27.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:27.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:27.812][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2022-10-18 22:25:27.815][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:27.816][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:27.818][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2022-10-18 22:25:28.187][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2022-10-18 22:25:28.579][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:28.588][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2022-10-18 22:25:28.785][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2022-10-18 22:25:28.802][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2022-10-18 22:25:28.810][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:28.827][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2022-10-18 22:25:28.829][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:28.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:28.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:28.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:28.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:28.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:28.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:28.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:28.848][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:28.849][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:28.850][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.852][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:28.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:28.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.863][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:28.864][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:28.865][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.867][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.868][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:28.870][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:28.871][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.872][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.874][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:28.875][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:28.877][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.878][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.879][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:28.880][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:28.882][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.883][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.885][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:28.886][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:28.887][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.888][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.890][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:28.891][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:28.892][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.893][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.895][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:28.896][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:28.898][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.899][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.900][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:28.902][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:28.903][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.904][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.906][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:28.907][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:28.908][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.910][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.911][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:28.912][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:28.914][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.915][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:28.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:28.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:28.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:28.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:28.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:28.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:28.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:28.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:28.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:28.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:28.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:28.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:28.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:28.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:28.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:28.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:28.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:28.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:28.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:28.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:28.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:28.971][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:28.973][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:28.974][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.975][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:28.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:28.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.985][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:28.987][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:28.988][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.989][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:28.991][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:28.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:28.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:28.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.000][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:29.001][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:29.002][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.003][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.005][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:29.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:29.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.014][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:29.015][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:29.016][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.018][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:29.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:29.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.028][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:29.029][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:29.030][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.031][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:29.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:29.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.042][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:29.043][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:29.044][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.045][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.047][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:29.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:29.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.056][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:29.057][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:29.058][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.060][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.061][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:29.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:29.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.070][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:29.071][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:29.073][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.074][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:29.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:29.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.084][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:29.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:29.087][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.088][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:29.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:29.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.099][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:29.100][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:29.101][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.102][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.104][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:29.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:29.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.113][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:29.114][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:29.115][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.117][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.118][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:29.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:29.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:29.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:29.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:29.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:29.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:29.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:29.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:29.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:29.182][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.183][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.184][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.185][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.203][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:29.205][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:29.206][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.208][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.210][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:29.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:29.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.223][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:29.225][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:29.227][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.229][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.231][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:29.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:29.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.242][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:29.243][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:29.244][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.245][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:29.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:29.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.256][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:29.257][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:29.259][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.260][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:29.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:29.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.270][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:29.272][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:29.273][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.274][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.276][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:29.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:29.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.285][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:29.286][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:29.287][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.288][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.290][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:29.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:29.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.299][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:29.301][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:29.303][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.304][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:29.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:29.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.316][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:29.319][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:29.321][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.322][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:29.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:29.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.334][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:29.335][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:29.336][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.337][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.339][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:29.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:29.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.352][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:29.354][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:29.356][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.357][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.360][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:29.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:29.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:29.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:29.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:29.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:29.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:29.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:29.500][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2022-10-18 22:25:29.502][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2022-10-18 22:25:29.503][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2022-10-18 22:25:29.528][biodb::testThat]
biodb.INFO [2022-10-18 22:25:29.530][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2022-10-18 22:25:29.532][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:29.534][biodb::testThat]
biodb.INFO [2022-10-18 22:25:29.563][biodb::testThat]
biodb.INFO [2022-10-18 22:25:29.564][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2022-10-18 22:25:29.566][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:29.568][biodb::testThat]
biodb.INFO [2022-10-18 22:25:29.582][biodb::testThat]
biodb.INFO [2022-10-18 22:25:29.585][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2022-10-18 22:25:29.586][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:29.588][biodb::testThat]
biodb.DEBUG[2022-10-18 22:25:29.594][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[2022-10-18 22:25:29.599][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:29.601][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:29.603][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2022-10-18 22:25:30.054][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2022-10-18 22:25:30.593][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:30.603][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2022-10-18 22:25:30.622][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2022-10-18 22:25:30.661][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:30.663][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:30.664][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:30.666][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:30.667][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:30.669][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:30.670][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:30.671][ef$get] fields variable is a list.
biodb.INFO [2022-10-18 22:25:30.674][biodb::testThat]
biodb.INFO [2022-10-18 22:25:30.675][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2022-10-18 22:25:30.677][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:30.678][biodb::testThat]
biodb.ERROR[2022-10-18 22:25:30.698][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2022-10-18 22:25:30.716][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2022-10-18 22:25:30.727][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-10-18 22:25:30.729][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2022-10-18 22:25:30.730][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2022-10-18 22:25:30.732][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-10-18 22:25:30.733][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:30.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:30.736][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:30.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:30.738][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-10-18 22:25:30.753][biodb::testContext]
biodb.INFO [2022-10-18 22:25:30.755][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 22:25:30.756][biodb::testContext] Test context - Test conversions
biodb.INFO [2022-10-18 22:25:30.758][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 22:25:30.759][biodb::testContext]
biodb.INFO [2022-10-18 22:25:30.767][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.4.2.
biodb.DEBUG[2022-10-18 22:25:30.770][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.15-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-10-18 22:25:30.776][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:25:30.778][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-10-18 22:25:30.779][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-10-18 22:25:30.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.783][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[2022-10-18 22:25:30.785][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-10-18 22:25:30.786][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-10-18 22:25:30.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.792][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-10-18 22:25:30.793][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-10-18 22:25:30.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.799][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-10-18 22:25:30.800][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-10-18 22:25:30.802][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-10-18 22:25:30.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.808][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-10-18 22:25:30.809][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-10-18 22:25:30.811][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-10-18 22:25:30.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.816][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-10-18 22:25:30.818][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-10-18 22:25:30.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.823][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-10-18 22:25:30.825][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-10-18 22:25:30.826][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-10-18 22:25:30.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.830][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[2022-10-18 22:25:30.832][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-10-18 22:25:30.834][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-10-18 22:25:30.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.839][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-10-18 22:25:30.840][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-10-18 22:25:30.842][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-10-18 22:25:30.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.846][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[2022-10-18 22:25:30.848][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-10-18 22:25:30.849][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-10-18 22:25:30.851][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-10-18 22:25:30.852][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-10-18 22:25:30.854][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-10-18 22:25:30.855][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-10-18 22:25:30.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.861][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-10-18 22:25:30.862][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-10-18 22:25:30.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.868][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-10-18 22:25:30.869][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-10-18 22:25:30.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.875][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-10-18 22:25:30.876][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-10-18 22:25:30.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.882][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-10-18 22:25:30.883][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-10-18 22:25:30.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.889][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-10-18 22:25:30.890][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-10-18 22:25:30.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.894][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[2022-10-18 22:25:30.896][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-10-18 22:25:30.897][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-10-18 22:25:30.902][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-10-18 22:25:30.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.908][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-10-18 22:25:30.910][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-10-18 22:25:30.912][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-10-18 22:25:30.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:30.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:30.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:30.920][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-10-18 22:25:30.923][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:30.925][self$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[2022-10-18 22:25:30.927][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:30.929][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:30.931][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:30.933][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:30.935][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:30.937][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:30.939][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 22:25:30.941][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:30.943][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:30.945][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-10-18 22:25:30.947][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:30.949][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:30.951][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:30.953][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:25:30.953][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:25:30.953][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:25:30.953][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 22:25:30.953][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 22:25:30.955][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:30.957][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:30.959][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:30.961][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:30.963][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:30.965][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:30.967][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:30.969][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:30.971][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:30.973][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:30.975][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:30.977][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:30.979][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-10-18 22:25:30.982][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:30.984][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 22:25:30.986][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:30.988][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:30.990][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:30.992][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:30.994][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:30.996][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:30.998][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 22:25:31.000][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:31.002][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.004][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-10-18 22:25:31.006][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:31.008][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.010][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.012][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:25:31.012][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:25:31.012][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:25:31.012][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 22:25:31.012][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 22:25:31.014][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:31.016][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:31.018][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:31.020][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:31.022][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:31.024][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:31.026][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:31.028][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.029][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:31.031][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:31.033][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:31.034][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.036][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-10-18 22:25:31.039][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.041][self$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[2022-10-18 22:25:31.042][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.043][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:31.045][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.046][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:31.048][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:31.049][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:31.051][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 22:25:31.052][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:31.054][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:31.055][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-10-18 22:25:31.056][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:31.058][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.060][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.062][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.063][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:31.065][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:31.067][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:31.068][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:31.070][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:31.072][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:31.074][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:31.076][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.077][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:31.078][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:31.080][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:31.082][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.083][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-10-18 22:25:31.086][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.087][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 22:25:31.089][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.090][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:31.092][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.094][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:31.095][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:31.097][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:31.098][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 22:25:31.100][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:31.101][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:31.103][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-10-18 22:25:31.104][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:31.106][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.107][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.109][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.111][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:31.112][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:31.113][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:31.115][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:31.116][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:31.118][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:31.119][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:31.121][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.122][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:31.124][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:31.125][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:31.127][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:31.129][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:25:31.130][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.183][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[2022-10-18 22:25:31.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.194][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[2022-10-18 22:25:31.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.205][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[2022-10-18 22:25:31.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.210][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[2022-10-18 22:25:31.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.221][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[2022-10-18 22:25:31.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.238][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-10-18 22:25:31.240][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-10-18 22:25:31.242][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-10-18 22:25:31.243][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-10-18 22:25:31.245][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 22:25:31.246][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-10-18 22:25:31.248][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-10-18 22:25:31.249][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-10-18 22:25:31.251][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-10-18 22:25:31.253][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-10-18 22:25:31.254][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 22:25:31.256][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-10-18 22:25:31.257][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-10-18 22:25:31.259][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-10-18 22:25:31.260][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-10-18 22:25:31.262][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-10-18 22:25:31.264][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-10-18 22:25:31.266][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-10-18 22:25:31.267][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 22:25:31.269][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-10-18 22:25:31.270][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-10-18 22:25:31.272][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-10-18 22:25:31.273][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-10-18 22:25:31.275][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-10-18 22:25:31.277][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-10-18 22:25:31.278][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-10-18 22:25:31.280][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-10-18 22:25:31.281][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-10-18 22:25:31.283][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-10-18 22:25:31.285][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-10-18 22:25:31.286][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-10-18 22:25:31.288][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-10-18 22:25:31.289][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-10-18 22:25:31.291][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-10-18 22:25:31.292][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-10-18 22:25:31.294][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-10-18 22:25:31.296][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-10-18 22:25:31.297][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-10-18 22:25:31.299][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-10-18 22:25:31.301][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-10-18 22:25:31.302][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-10-18 22:25:31.304][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-10-18 22:25:31.305][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-10-18 22:25:31.307][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-10-18 22:25:31.309][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-10-18 22:25:31.310][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-10-18 22:25:31.312][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-10-18 22:25:31.313][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-10-18 22:25:31.315][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-10-18 22:25:31.316][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-10-18 22:25:31.318][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-10-18 22:25:31.320][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-10-18 22:25:31.321][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-10-18 22:25:31.323][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-10-18 22:25:31.324][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-10-18 22:25:31.326][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-10-18 22:25:31.327][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-10-18 22:25:31.329][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-10-18 22:25:31.331][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-10-18 22:25:31.332][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-10-18 22:25:31.334][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-10-18 22:25:31.335][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-10-18 22:25:31.337][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-10-18 22:25:31.339][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-10-18 22:25:31.340][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-10-18 22:25:31.342][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-10-18 22:25:31.343][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 22:25:31.345][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 22:25:31.347][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-10-18 22:25:31.348][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-10-18 22:25:31.350][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-10-18 22:25:31.351][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-10-18 22:25:31.353][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-10-18 22:25:31.354][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-10-18 22:25:31.356][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-10-18 22:25:31.357][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-10-18 22:25:31.359][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-10-18 22:25:31.361][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-10-18 22:25:31.362][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-10-18 22:25:31.364][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-10-18 22:25:31.365][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-10-18 22:25:31.367][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-10-18 22:25:31.370][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-10-18 22:25:31.372][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-10-18 22:25:31.376][initialize] This is biodb version 1.4.2.
biodb.DEBUG[2022-10-18 22:25:31.377][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:25:31.378][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.381][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.393][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[2022-10-18 22:25:31.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.401][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[2022-10-18 22:25:31.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.454][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[2022-10-18 22:25:31.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.465][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[2022-10-18 22:25:31.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:31.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:31.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:31.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:31.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:31.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:31.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:31.547][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.15-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2022-10-18 22:25:31.550][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2022-10-18 22:25:31.553][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:31.555][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-10-18 22:25:31.557][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.559][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:31.561][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.563][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:31.565][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.567][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2022-10-18 22:25:31.569][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-10-18 22:25:31.570][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:31.571][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.572][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2022-10-18 22:25:31.574][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2022-10-18 22:25:31.575][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2022-10-18 22:25:31.576][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:31.578][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:25:31.578][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:25:31.578][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:25:31.579][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-10-18 22:25:31.580][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:31.581][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:31.582][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:31.584][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:31.585][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:31.586][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:31.588][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:31.588][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2022-10-18 22:25:31.590][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:31.591][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:31.593][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:31.595][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2022-10-18 22:25:31.595][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2022-10-18 22:25:31.597][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 22:25:31.599][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 22:25:31.601][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2022-10-18 22:25:31.602][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 22:25:31.604][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 22:25:31.606][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 22:25:31.609][super$initialize] Initialize connector chebi.
biodb.DEBUG[2022-10-18 22:25:31.611][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2022-10-18 22:25:31.613][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2022-10-18 22:25:31.616][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2022-10-18 22:25:31.618][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 22:25:31.619][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 22:25:31.620][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2022-10-18 22:25:31.622][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2022-10-18 22:25:31.624][biodb::testThat]
biodb.INFO [2022-10-18 22:25:31.625][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2022-10-18 22:25:31.626][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:31.627][biodb::testThat]
biodb.DEBUG[2022-10-18 22:25:31.632][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2022-10-18 22:25:31.639][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:31.641][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:31.643][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2022-10-18 22:25:32.015][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2022-10-18 22:25:32.479][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:32.488][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2022-10-18 22:25:32.504][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2022-10-18 22:25:32.513][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[2022-10-18 22:25:32.529][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:32.531][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:32.533][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2022-10-18 22:25:32.914][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2022-10-18 22:25:33.312][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:33.321][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2022-10-18 22:25:33.339][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2022-10-18 22:25:33.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:33.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:33.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:33.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:33.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:33.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:33.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:33.365][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:33.368][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:33.370][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:33.372][private$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[2022-10-18 22:25:33.764][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[2022-10-18 22:25:34.156][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:34.166][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2022-10-18 22:25:34.183][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2022-10-18 22:25:34.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:34.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:34.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:34.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:34.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:34.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:34.220][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[2022-10-18 22:25:34.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:34.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:34.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:34.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:34.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:34.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:34.249][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[2022-10-18 22:25:34.253][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[2022-10-18 22:25:34.257][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:34.258][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2022-10-18 22:25:34.260][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:34.262][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2022-10-18 22:25:34.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:34.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:34.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:34.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:34.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:34.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:34.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:34.279][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[2022-10-18 22:25:34.283][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:34.285][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2022-10-18 22:25:34.286][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:34.289][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2022-10-18 22:25:34.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:34.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:34.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:34.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:34.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:34.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:34.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:34.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:34.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:34.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:34.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:34.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:34.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:34.318][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[2022-10-18 22:25:34.322][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[2022-10-18 22:25:34.326][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:34.328][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2022-10-18 22:25:34.329][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:34.332][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2022-10-18 22:25:34.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:34.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:34.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:34.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:34.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:34.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:34.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:34.350][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[2022-10-18 22:25:34.353][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:34.355][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2022-10-18 22:25:34.356][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:34.359][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2022-10-18 22:25:34.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:34.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:34.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:34.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:34.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:34.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:34.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:34.375][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[2022-10-18 22:25:34.379][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:34.381][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:34.383][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2022-10-18 22:25:34.764][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2022-10-18 22:25:35.174][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:35.189][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2022-10-18 22:25:35.209][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2022-10-18 22:25:35.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:35.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:35.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:35.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:35.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:35.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:35.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-10-18 22:25:35.243][biodb::testThat]
biodb.INFO [2022-10-18 22:25:35.245][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2022-10-18 22:25:35.247][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:35.248][biodb::testThat]
biodb.DEBUG[2022-10-18 22:25:35.255][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:35.261][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:35.263][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:35.267][private$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[2022-10-18 22:25:35.655][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[2022-10-18 22:25:36.063][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:36.073][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2022-10-18 22:25:36.088][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2022-10-18 22:25:36.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:36.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:36.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:36.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:36.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:36.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:36.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:36.123][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[2022-10-18 22:25:36.129][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:36.131][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:36.133][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2022-10-18 22:25:36.511][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2022-10-18 22:25:36.896][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:36.905][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2022-10-18 22:25:36.920][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2022-10-18 22:25:36.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:36.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:36.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:36.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:36.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:36.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:36.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-10-18 22:25:36.943][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-10-18 22:25:36.944][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2022-10-18 22:25:36.946][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2022-10-18 22:25:36.947][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-10-18 22:25:36.948][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:36.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:36.950][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:36.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:36.953][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:36.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-10-18 22:25:36.960][biodb::testContext]
biodb.INFO [2022-10-18 22:25:36.962][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 22:25:36.963][biodb::testContext] Test context - Test web services
biodb.INFO [2022-10-18 22:25:36.964][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 22:25:36.965][biodb::testContext]
biodb.INFO [2022-10-18 22:25:36.971][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.4.2.
biodb.DEBUG[2022-10-18 22:25:36.974][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.15-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-10-18 22:25:36.979][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:25:36.980][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-10-18 22:25:36.981][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-10-18 22:25:36.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:36.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:36.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:36.986][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-10-18 22:25:36.987][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-10-18 22:25:36.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:36.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:36.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:36.991][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-10-18 22:25:36.993][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-10-18 22:25:36.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:36.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:36.996][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[2022-10-18 22:25:36.997][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-10-18 22:25:36.999][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-10-18 22:25:37.000][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-10-18 22:25:37.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.005][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-10-18 22:25:37.006][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-10-18 22:25:37.007][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-10-18 22:25:37.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.012][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-10-18 22:25:37.013][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-10-18 22:25:37.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.017][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-10-18 22:25:37.019][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-10-18 22:25:37.020][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-10-18 22:25:37.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.023][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[2022-10-18 22:25:37.024][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-10-18 22:25:37.025][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-10-18 22:25:37.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.030][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-10-18 22:25:37.031][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-10-18 22:25:37.032][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-10-18 22:25:37.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.037][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-10-18 22:25:37.038][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-10-18 22:25:37.039][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-10-18 22:25:37.041][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-10-18 22:25:37.042][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-10-18 22:25:37.043][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-10-18 22:25:37.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.048][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-10-18 22:25:37.050][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-10-18 22:25:37.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.054][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[2022-10-18 22:25:37.055][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-10-18 22:25:37.056][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-10-18 22:25:37.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.061][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-10-18 22:25:37.062][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-10-18 22:25:37.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.065][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.DEBUG[2022-10-18 22:25:37.067][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-10-18 22:25:37.068][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-10-18 22:25:37.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.072][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-10-18 22:25:37.074][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-10-18 22:25:37.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.078][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-10-18 22:25:37.079][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-10-18 22:25:37.083][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-10-18 22:25:37.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.087][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-10-18 22:25:37.089][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-10-18 22:25:37.090][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-10-18 22:25:37.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.095][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-10-18 22:25:37.098][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.099][self$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[2022-10-18 22:25:37.101][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.103][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:37.104][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.106][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.107][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.108][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.109][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 22:25:37.110][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:37.112][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.113][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-10-18 22:25:37.114][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:37.115][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.116][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.118][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:25:37.118][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:25:37.118][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:25:37.118][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 22:25:37.118][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 22:25:37.119][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:37.120][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:37.121][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:37.123][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:37.124][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:37.125][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:37.126][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.128][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.129][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:37.130][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:37.131][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.132][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.134][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-10-18 22:25:37.136][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.137][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 22:25:37.138][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.140][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:37.141][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.142][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.143][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.144][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.146][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 22:25:37.147][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:37.148][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.149][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-10-18 22:25:37.151][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:37.152][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.153][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.155][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:25:37.155][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:25:37.155][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:25:37.155][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 22:25:37.155][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 22:25:37.156][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:37.158][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:37.159][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:37.160][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:37.162][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:37.163][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:37.164][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.165][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.167][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:37.168][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:37.169][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.170][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.172][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-10-18 22:25:37.174][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.175][self$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[2022-10-18 22:25:37.176][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.177][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:37.178][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.180][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.181][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.182][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.183][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 22:25:37.184][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:37.186][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.187][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-10-18 22:25:37.188][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:37.190][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.191][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.192][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.194][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:37.195][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:37.196][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:37.197][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:37.198][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:37.199][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:37.201][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.202][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.203][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:37.204][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:37.205][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.207][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.208][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-10-18 22:25:37.210][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.211][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 22:25:37.212][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.219][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:37.222][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.224][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.225][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.227][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.228][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 22:25:37.229][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:37.230][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.232][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-10-18 22:25:37.233][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:37.234][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.235][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.236][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.237][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:37.239][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:37.240][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:37.241][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:37.242][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:37.243][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:37.244][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.245][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.247][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:37.248][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:37.249][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.250][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:37.252][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:25:37.253][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.287][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[2022-10-18 22:25:37.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.298][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[2022-10-18 22:25:37.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.303][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[2022-10-18 22:25:37.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.309][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[2022-10-18 22:25:37.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.314][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[2022-10-18 22:25:37.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.320][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[2022-10-18 22:25:37.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.325][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[2022-10-18 22:25:37.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.330][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[2022-10-18 22:25:37.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.348][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-10-18 22:25:37.350][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-10-18 22:25:37.352][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-10-18 22:25:37.354][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-10-18 22:25:37.356][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 22:25:37.358][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-10-18 22:25:37.360][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-10-18 22:25:37.361][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-10-18 22:25:37.363][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-10-18 22:25:37.364][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-10-18 22:25:37.366][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 22:25:37.368][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-10-18 22:25:37.369][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-10-18 22:25:37.371][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-10-18 22:25:37.372][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-10-18 22:25:37.374][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-10-18 22:25:37.376][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-10-18 22:25:37.377][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-10-18 22:25:37.379][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 22:25:37.381][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-10-18 22:25:37.382][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-10-18 22:25:37.384][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-10-18 22:25:37.386][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-10-18 22:25:37.387][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-10-18 22:25:37.389][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-10-18 22:25:37.391][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-10-18 22:25:37.392][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-10-18 22:25:37.394][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-10-18 22:25:37.395][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-10-18 22:25:37.397][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-10-18 22:25:37.398][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-10-18 22:25:37.400][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-10-18 22:25:37.402][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-10-18 22:25:37.403][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-10-18 22:25:37.405][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-10-18 22:25:37.406][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-10-18 22:25:37.408][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-10-18 22:25:37.410][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-10-18 22:25:37.411][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-10-18 22:25:37.413][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-10-18 22:25:37.415][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-10-18 22:25:37.416][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-10-18 22:25:37.418][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-10-18 22:25:37.419][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-10-18 22:25:37.421][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-10-18 22:25:37.423][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-10-18 22:25:37.424][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-10-18 22:25:37.426][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-10-18 22:25:37.428][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-10-18 22:25:37.430][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-10-18 22:25:37.432][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-10-18 22:25:37.434][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-10-18 22:25:37.436][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-10-18 22:25:37.438][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-10-18 22:25:37.440][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-10-18 22:25:37.442][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-10-18 22:25:37.444][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-10-18 22:25:37.446][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-10-18 22:25:37.448][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-10-18 22:25:37.450][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-10-18 22:25:37.452][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-10-18 22:25:37.454][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-10-18 22:25:37.456][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-10-18 22:25:37.458][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-10-18 22:25:37.460][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-10-18 22:25:37.462][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-10-18 22:25:37.464][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 22:25:37.466][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 22:25:37.468][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-10-18 22:25:37.470][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-10-18 22:25:37.472][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-10-18 22:25:37.474][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-10-18 22:25:37.476][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-10-18 22:25:37.478][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-10-18 22:25:37.480][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-10-18 22:25:37.482][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-10-18 22:25:37.484][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-10-18 22:25:37.485][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-10-18 22:25:37.487][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-10-18 22:25:37.489][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-10-18 22:25:37.490][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-10-18 22:25:37.492][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-10-18 22:25:37.494][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-10-18 22:25:37.495][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-10-18 22:25:37.498][initialize] This is biodb version 1.4.2.
biodb.DEBUG[2022-10-18 22:25:37.499][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:25:37.500][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.503][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.504][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.DEBUG[2022-10-18 22:25:37.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.519][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.DEBUG[2022-10-18 22:25:37.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.535][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[2022-10-18 22:25:37.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.581][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.DEBUG[2022-10-18 22:25:37.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.636][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[2022-10-18 22:25:37.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:37.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:37.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:37.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:37.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:37.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:37.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:37.646][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.15-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2022-10-18 22:25:37.648][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2022-10-18 22:25:37.650][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.652][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.653][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.654][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:37.655][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.656][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.658][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.659][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2022-10-18 22:25:37.660][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-10-18 22:25:37.661][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:37.662][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.664][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2022-10-18 22:25:37.665][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2022-10-18 22:25:37.666][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2022-10-18 22:25:37.668][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:37.669][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:25:37.669][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:25:37.669][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:25:37.670][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-10-18 22:25:37.671][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:37.672][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:37.673][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:37.675][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:37.676][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:37.677][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:37.678][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:37.678][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2022-10-18 22:25:37.679][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:37.680][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:37.681][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:37.683][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2022-10-18 22:25:37.683][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2022-10-18 22:25:37.684][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 22:25:37.686][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 22:25:37.688][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2022-10-18 22:25:37.690][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 22:25:37.692][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 22:25:37.693][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 22:25:37.697][super$initialize] Initialize connector chebi.
biodb.DEBUG[2022-10-18 22:25:37.698][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2022-10-18 22:25:37.699][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2022-10-18 22:25:37.701][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2022-10-18 22:25:37.703][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 22:25:37.704][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 22:25:37.705][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2022-10-18 22:25:37.707][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2022-10-18 22:25:37.709][biodb::testThat]
biodb.INFO [2022-10-18 22:25:37.710][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2022-10-18 22:25:37.711][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:37.712][biodb::testThat]
biodb.DEBUG[2022-10-18 22:25:37.716][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2022-10-18 22:25:37.721][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:37.723][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2022-10-18 22:25:37.724][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:37.727][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2022-10-18 22:25:37.731][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-10-18 22:25:37.734][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:37.736][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:37.737][private$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[2022-10-18 22:25:38.116][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[2022-10-18 22:25:38.966][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:38.980][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2022-10-18 22:25:39.000][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2022-10-18 22:25:39.010][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-10-18 22:25:39.012][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2022-10-18 22:25:39.013][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2022-10-18 22:25:39.015][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-10-18 22:25:39.016][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.018][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.022][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.023][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.INFO [2022-10-18 22:25:39.028][biodb::testContext]
biodb.INFO [2022-10-18 22:25:39.030][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 22:25:39.032][biodb::testContext] Test context - Non regression tests
biodb.INFO [2022-10-18 22:25:39.034][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 22:25:39.036][biodb::testContext]
biodb.INFO [2022-10-18 22:25:39.045][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.4.2.
biodb.DEBUG[2022-10-18 22:25:39.049][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.15-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-10-18 22:25:39.057][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:25:39.059][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-10-18 22:25:39.060][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-10-18 22:25:39.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.065][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-10-18 22:25:39.066][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-10-18 22:25:39.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.070][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[2022-10-18 22:25:39.071][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-10-18 22:25:39.072][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-10-18 22:25:39.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.078][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-10-18 22:25:39.080][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-10-18 22:25:39.082][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-10-18 22:25:39.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.089][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-10-18 22:25:39.091][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-10-18 22:25:39.093][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-10-18 22:25:39.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.098][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-10-18 22:25:39.100][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-10-18 22:25:39.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.107][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-10-18 22:25:39.108][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-10-18 22:25:39.110][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-10-18 22:25:39.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.117][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-10-18 22:25:39.119][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-10-18 22:25:39.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.126][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-10-18 22:25:39.128][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-10-18 22:25:39.130][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-10-18 22:25:39.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.137][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-10-18 22:25:39.139][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-10-18 22:25:39.140][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-10-18 22:25:39.141][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-10-18 22:25:39.143][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-10-18 22:25:39.144][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-10-18 22:25:39.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.149][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-10-18 22:25:39.150][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-10-18 22:25:39.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.155][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-10-18 22:25:39.156][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-10-18 22:25:39.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.161][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-10-18 22:25:39.163][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-10-18 22:25:39.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.167][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-10-18 22:25:39.169][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-10-18 22:25:39.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.173][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-10-18 22:25:39.174][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-10-18 22:25:39.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.179][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-10-18 22:25:39.180][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-10-18 22:25:39.184][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-10-18 22:25:39.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.187][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[2022-10-18 22:25:39.189][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-10-18 22:25:39.190][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-10-18 22:25:39.191][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-10-18 22:25:39.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.196][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-10-18 22:25:39.198][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.199][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-10-18 22:25:39.201][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.202][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:39.203][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.204][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.206][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.207][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.208][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 22:25:39.209][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:39.217][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.219][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-10-18 22:25:39.221][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:39.222][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.223][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.225][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:25:39.225][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:25:39.225][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:25:39.225][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 22:25:39.225][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 22:25:39.226][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:39.227][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:39.228][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:39.229][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:39.231][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:39.232][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:39.233][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.234][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.235][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:39.236][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:39.237][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.239][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.240][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-10-18 22:25:39.242][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.243][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 22:25:39.245][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.246][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:39.247][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.248][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.249][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.251][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.252][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 22:25:39.253][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:39.254][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.256][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-10-18 22:25:39.257][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:39.258][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.259][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.260][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:25:39.260][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:25:39.260][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:25:39.260][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 22:25:39.260][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 22:25:39.262][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:39.263][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:39.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:39.265][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:39.266][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:39.267][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:39.268][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.270][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.271][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:39.272][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:39.273][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.274][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.276][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-10-18 22:25:39.278][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.279][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-10-18 22:25:39.280][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.281][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:39.283][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.284][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.285][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.286][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.287][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 22:25:39.288][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:39.290][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.292][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-10-18 22:25:39.293][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:39.295][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.296][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.297][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.298][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:39.299][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:39.301][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:39.302][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:39.303][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:39.304][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:39.305][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.306][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.308][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:39.309][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:39.310][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.311][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.313][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-10-18 22:25:39.315][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.316][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 22:25:39.317][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.318][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:39.319][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.321][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.322][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.323][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.324][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 22:25:39.325][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:39.327][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.328][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-10-18 22:25:39.329][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:39.330][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.331][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.333][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.334][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 22:25:39.335][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:39.336][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:39.337][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:39.339][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:39.340][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:39.341][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.342][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.343][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:39.345][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:39.346][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.347][self$setPropertyValue]
biodb.DEBUG[2022-10-18 22:25:39.349][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:25:39.351][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.353][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[2022-10-18 22:25:39.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.358][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[2022-10-18 22:25:39.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.364][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[2022-10-18 22:25:39.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.369][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[2022-10-18 22:25:39.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.375][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[2022-10-18 22:25:39.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.393][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[2022-10-18 22:25:39.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.399][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[2022-10-18 22:25:39.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.404][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[2022-10-18 22:25:39.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.451][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-10-18 22:25:39.453][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-10-18 22:25:39.455][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-10-18 22:25:39.457][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-10-18 22:25:39.458][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 22:25:39.460][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-10-18 22:25:39.462][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-10-18 22:25:39.463][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-10-18 22:25:39.465][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-10-18 22:25:39.467][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-10-18 22:25:39.468][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 22:25:39.470][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-10-18 22:25:39.471][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-10-18 22:25:39.473][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-10-18 22:25:39.474][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-10-18 22:25:39.476][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-10-18 22:25:39.478][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-10-18 22:25:39.479][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-10-18 22:25:39.481][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 22:25:39.482][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-10-18 22:25:39.484][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-10-18 22:25:39.486][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-10-18 22:25:39.488][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-10-18 22:25:39.490][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-10-18 22:25:39.492][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-10-18 22:25:39.494][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-10-18 22:25:39.496][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-10-18 22:25:39.498][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-10-18 22:25:39.500][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-10-18 22:25:39.502][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-10-18 22:25:39.504][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-10-18 22:25:39.506][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-10-18 22:25:39.508][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-10-18 22:25:39.510][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-10-18 22:25:39.512][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-10-18 22:25:39.514][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-10-18 22:25:39.516][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-10-18 22:25:39.518][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-10-18 22:25:39.520][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-10-18 22:25:39.522][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-10-18 22:25:39.524][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-10-18 22:25:39.526][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-10-18 22:25:39.528][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-10-18 22:25:39.530][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-10-18 22:25:39.532][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-10-18 22:25:39.534][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-10-18 22:25:39.536][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-10-18 22:25:39.538][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-10-18 22:25:39.541][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-10-18 22:25:39.543][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-10-18 22:25:39.545][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-10-18 22:25:39.547][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-10-18 22:25:39.549][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-10-18 22:25:39.551][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-10-18 22:25:39.553][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-10-18 22:25:39.555][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-10-18 22:25:39.557][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-10-18 22:25:39.559][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-10-18 22:25:39.561][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-10-18 22:25:39.563][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-10-18 22:25:39.565][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-10-18 22:25:39.567][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-10-18 22:25:39.569][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-10-18 22:25:39.571][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-10-18 22:25:39.573][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-10-18 22:25:39.575][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-10-18 22:25:39.577][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 22:25:39.579][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 22:25:39.581][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-10-18 22:25:39.583][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-10-18 22:25:39.585][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-10-18 22:25:39.587][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-10-18 22:25:39.589][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-10-18 22:25:39.591][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-10-18 22:25:39.593][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-10-18 22:25:39.595][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-10-18 22:25:39.597][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-10-18 22:25:39.599][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-10-18 22:25:39.601][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-10-18 22:25:39.603][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-10-18 22:25:39.614][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-10-18 22:25:39.617][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-10-18 22:25:39.620][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-10-18 22:25:39.622][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-10-18 22:25:39.625][initialize] This is biodb version 1.4.2.
biodb.DEBUG[2022-10-18 22:25:39.627][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 22:25:39.629][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.631][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.691][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.DEBUG[2022-10-18 22:25:39.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.708][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.DEBUG[2022-10-18 22:25:39.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.715][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[2022-10-18 22:25:39.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.735][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.DEBUG[2022-10-18 22:25:39.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.771][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[2022-10-18 22:25:39.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 22:25:39.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.790][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.15-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2022-10-18 22:25:39.793][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2022-10-18 22:25:39.796][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.798][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.800][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.802][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 22:25:39.804][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.806][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.808][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.810][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2022-10-18 22:25:39.812][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-10-18 22:25:39.814][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 22:25:39.816][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.817][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2022-10-18 22:25:39.818][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2022-10-18 22:25:39.820][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2022-10-18 22:25:39.821][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-10-18 22:25:39.822][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 22:25:39.822][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 22:25:39.822][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 22:25:39.824][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-10-18 22:25:39.825][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:39.826][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:39.827][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 22:25:39.828][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 22:25:39.830][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 22:25:39.831][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 22:25:39.832][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:39.832][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2022-10-18 22:25:39.833][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 22:25:39.834][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 22:25:39.835][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-10-18 22:25:39.837][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2022-10-18 22:25:39.837][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2022-10-18 22:25:39.838][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 22:25:39.840][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 22:25:39.842][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2022-10-18 22:25:39.844][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 22:25:39.846][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 22:25:39.848][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 22:25:39.852][super$initialize] Initialize connector chebi.
biodb.DEBUG[2022-10-18 22:25:39.854][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2022-10-18 22:25:39.856][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2022-10-18 22:25:39.858][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2022-10-18 22:25:39.860][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 22:25:39.861][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 22:25:39.863][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2022-10-18 22:25:39.864][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2022-10-18 22:25:39.866][biodb::testThat]
biodb.INFO [2022-10-18 22:25:39.868][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2022-10-18 22:25:39.869][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 22:25:39.870][biodb::testThat]
biodb.DEBUG[2022-10-18 22:25:39.874][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2022-10-18 22:25:39.879][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:39.881][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2022-10-18 22:25:39.882][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:39.885][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2022-10-18 22:25:39.889][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[2022-10-18 22:25:39.892][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-10-18 22:25:39.894][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2022-10-18 22:25:39.895][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 22:25:39.897][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2022-10-18 22:25:39.901][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2022-10-18 22:25:39.902][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-10-18 22:25:39.904][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2022-10-18 22:25:39.906][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 22:25:39.907][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 22:25:39.909][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 22:25:39.910][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-10-18 22:25:39.911][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-10-18 22:25:39.912][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-10-18 22:25:39.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:39.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:39.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:39.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:39.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:39.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:39.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 22:25:39.931][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2022-10-18 22:25:39.934][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-10-18 22:25:39.935][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-10-18 22:25:39.936][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2022-10-18 22:25:41.327][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2022-10-18 22:25:41.960][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-10-18 22:25:41.969][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2022-10-18 22:25:41.984][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2022-10-18 22:25:42.000][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2022-10-18 22:25:42.009][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-10-18 22:25:42.035][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-10-18 22:25:42.037][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-10-18 22:25:42.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 22:25:42.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:42.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:42.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:42.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:42.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:42.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 22:25:42.055][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:42.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:42.058][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.059][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:42.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:42.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.069][ef$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:42.071][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:42.072][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.073][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.074][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-10-18 22:25:42.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-10-18 22:25:42.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.083][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:42.085][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:42.086][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.087][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.089][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 22:25:42.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 22:25:42.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.097][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 22:25:42.098][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 22:25:42.100][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.101][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.102][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 22:25:42.103][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 22:25:42.105][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.106][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.107][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:42.109][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:42.110][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.111][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.112][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:42.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 22:25:42.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.121][ef$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:42.122][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:42.123][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.124][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.126][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-10-18 22:25:42.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-10-18 22:25:42.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.136][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:42.137][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:42.139][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.140][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:42.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 22:25:42.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.150][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:42.152][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:42.153][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.154][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 22:25:42.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 22:25:42.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.165][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:42.166][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:42.168][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.169][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.171][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-10-18 22:25:42.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-10-18 22:25:42.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.180][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:42.182][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:42.183][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.184][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.186][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 22:25:42.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 22:25:42.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:42.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:42.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:42.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:42.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:42.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:42.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 22:25:42.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 22:25:42.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:42.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:42.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:42.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:42.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:42.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:42.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:42.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:42.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:42.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:42.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 22:25:42.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 22:25:42.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 22:25:42.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 22:25:42.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 22:25:42.246][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2022-10-18 22:25:42.248][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-10-18 22:25:42.250][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2022-10-18 22:25:42.251][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2022-10-18 22:25:42.252][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-10-18 22:25:42.253][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 22:25:42.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 22:25:42.255][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 22:25:42.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 22:25:42.257][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 22:25:42.259][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 365 ]
>
> proc.time()
user system elapsed
29.54 1.95 67.00
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 4.51 | 2.27 | 31.69 | |
| ChebiEntry | 0.97 | 0.06 | 10.00 | |