| Back to Build/check report for BioC 3.17: simplified long |
|
This page was generated on 2023-03-01 07:38:36 -0000 (Wed, 01 Mar 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4266 |
| 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 179/2171 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.5.0 (landing page) Pierrick Roger
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: biodbChebi |
| Version: 1.5.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings biodbChebi_1.5.0.tar.gz |
| StartedAt: 2023-02-27 21:52:34 -0000 (Mon, 27 Feb 2023) |
| EndedAt: 2023-02-27 21:54:17 -0000 (Mon, 27 Feb 2023) |
| EllapsedTime: 102.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings biodbChebi_1.5.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.5.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
ChebiConn 2.952 0.244 5.666
* 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 ...
‘biodbChebi.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-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 Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2023-02-27 21:53:32.868][biodb::testContext]
biodb.INFO [2023-02-27 21:53:32.871][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-27 21:53:32.872][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-02-27 21:53:32.874][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-27 21:53:32.875][biodb::testContext]
biodb.INFO [2023-02-27 21:53:32.896][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-27 21:53:32.898][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-27 21:53:32.908][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:53:32.909][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-27 21:53:32.911][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-27 21:53:32.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:32.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:32.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:32.917][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-27 21:53:32.944][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-27 21:53:32.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:32.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:32.948][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.DEBUG[2023-02-27 21:53:32.950][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-27 21:53:32.951][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-27 21:53:32.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:32.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:32.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:32.956][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-27 21:53:32.958][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-27 21:53:32.959][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-27 21:53:32.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:32.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:32.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:32.965][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-27 21:53:32.966][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-27 21:53:32.968][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-27 21:53:32.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:32.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:32.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:32.973][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-27 21:53:32.974][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-27 21:53:32.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:32.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:32.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:32.979][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-27 21:53:32.981][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-27 21:53:32.982][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-27 21:53:32.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:32.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:32.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:32.988][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-27 21:53:32.989][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-27 21:53:32.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:32.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:32.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:32.994][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-27 21:53:32.996][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-27 21:53:32.997][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-27 21:53:32.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.002][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-27 21:53:33.004][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-27 21:53:33.005][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-27 21:53:33.007][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-27 21:53:33.008][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-27 21:53:33.010][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-27 21:53:33.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.015][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-27 21:53:33.017][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-27 21:53:33.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.022][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-27 21:53:33.023][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-27 21:53:33.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.027][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.DEBUG[2023-02-27 21:53:33.028][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-27 21:53:33.030][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-27 21:53:33.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.035][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-27 21:53:33.037][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-27 21:53:33.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.042][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-27 21:53:33.043][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-27 21:53:33.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.049][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-27 21:53:33.050][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-27 21:53:33.055][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-27 21:53:33.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.058][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.DEBUG[2023-02-27 21:53:33.060][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-27 21:53:33.061][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-27 21:53:33.063][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-27 21:53:33.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.072][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-27 21:53:33.132][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.154][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-27 21:53:33.155][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.157][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:53:33.158][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.159][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.160][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.162][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.163][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-27 21:53:33.164][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:53:33.166][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.167][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-27 21:53:33.168][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:53:33.169][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.171][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.172][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:53:33.172][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:53:33.172][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:53:33.172][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-27 21:53:33.172][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-27 21:53:33.173][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:53:33.175][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:53:33.176][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:53:33.177][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:53:33.178][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:53:33.180][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:53:33.181][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.182][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.183][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:53:33.185][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:53:33.186][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.187][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.189][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-27 21:53:33.191][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.192][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-27 21:53:33.194][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.195][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:53:33.196][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.198][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.199][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.200][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.201][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-27 21:53:33.203][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:53:33.204][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.205][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-27 21:53:33.207][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:53:33.208][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.209][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.210][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:53:33.210][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:53:33.210][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:53:33.210][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-27 21:53:33.210][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-27 21:53:33.212][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:53:33.213][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:53:33.214][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:53:33.215][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:53:33.217][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:53:33.218][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:53:33.219][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.220][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.222][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:53:33.223][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:53:33.224][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.225][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.227][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-27 21:53:33.229][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.231][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-02-27 21:53:33.232][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.233][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:53:33.234][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.236][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.237][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.238][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.240][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-27 21:53:33.241][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:53:33.242][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.244][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-27 21:53:33.245][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:53:33.246][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.247][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.249][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.250][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:53:33.251][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:53:33.252][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:53:33.254][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:53:33.255][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:53:33.256][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:53:33.257][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.259][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.260][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:53:33.261][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:53:33.262][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.264][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.265][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-27 21:53:33.268][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.269][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-27 21:53:33.270][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.272][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:53:33.273][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.274][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.275][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.277][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.278][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-27 21:53:33.279][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:53:33.281][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.282][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-27 21:53:33.283][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:53:33.285][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.286][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.287][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.288][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:53:33.290][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:53:33.291][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:53:33.292][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:53:33.293][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:53:33.295][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:53:33.296][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.297][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.298][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:53:33.300][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:53:33.301][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.302][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:53:33.307][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:53:33.309][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.369][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[2023-02-27 21:53:33.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.375][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[2023-02-27 21:53:33.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.411][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-27 21:53:33.418][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-27 21:53:33.420][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-27 21:53:33.421][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-27 21:53:33.423][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-27 21:53:33.425][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-27 21:53:33.427][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-27 21:53:33.429][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-27 21:53:33.431][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-27 21:53:33.432][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-27 21:53:33.434][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-27 21:53:33.436][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-27 21:53:33.438][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-27 21:53:33.447][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-27 21:53:33.449][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-27 21:53:33.451][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-27 21:53:33.453][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-27 21:53:33.455][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-27 21:53:33.457][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-27 21:53:33.459][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-27 21:53:33.461][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-27 21:53:33.463][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-27 21:53:33.465][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-27 21:53:33.467][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-27 21:53:33.469][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-27 21:53:33.471][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-27 21:53:33.472][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-27 21:53:33.474][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-27 21:53:33.476][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-27 21:53:33.478][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-27 21:53:33.480][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-27 21:53:33.482][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-27 21:53:33.484][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-27 21:53:33.486][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-27 21:53:33.488][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-27 21:53:33.490][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-27 21:53:33.492][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-27 21:53:33.494][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-27 21:53:33.496][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-27 21:53:33.498][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-27 21:53:33.499][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-27 21:53:33.501][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-27 21:53:33.503][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-27 21:53:33.505][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-27 21:53:33.507][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-27 21:53:33.509][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-27 21:53:33.511][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-27 21:53:33.513][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-27 21:53:33.515][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-27 21:53:33.517][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-27 21:53:33.519][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-27 21:53:33.521][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-27 21:53:33.523][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-27 21:53:33.525][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-27 21:53:33.527][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-27 21:53:33.529][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-27 21:53:33.531][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-27 21:53:33.532][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-27 21:53:33.534][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-27 21:53:33.536][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-27 21:53:33.538][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-27 21:53:33.540][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-27 21:53:33.542][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-27 21:53:33.544][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-27 21:53:33.546][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-27 21:53:33.548][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-27 21:53:33.550][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-27 21:53:33.552][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-27 21:53:33.554][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-27 21:53:33.555][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-27 21:53:33.557][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-27 21:53:33.559][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-27 21:53:33.561][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-27 21:53:33.563][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-27 21:53:33.565][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-27 21:53:33.567][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-27 21:53:33.569][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-27 21:53:33.571][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-27 21:53:33.573][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-27 21:53:33.575][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-27 21:53:33.577][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-27 21:53:33.579][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-27 21:53:33.580][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-27 21:53:33.588][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-27 21:53:33.590][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-27 21:53:33.595][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:53:33.596][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.598][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.691][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[2023-02-27 21:53:33.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.712][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[2023-02-27 21:53:33.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.730][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[2023-02-27 21:53:33.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.738][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[2023-02-27 21:53:33.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:53:33.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:33.757][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-02-27 21:53:33.777][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-02-27 21:53:33.780][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.781][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.783][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.784][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:53:33.785][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.786][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.788][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.789][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-02-27 21:53:33.790][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-27 21:53:33.792][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:53:33.793][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.794][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-02-27 21:53:33.796][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-02-27 21:53:33.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-02-27 21:53:33.799][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-27 21:53:33.800][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:53:33.800][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:53:33.800][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:53:33.801][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-27 21:53:33.803][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:53:33.804][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:53:33.805][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:53:33.806][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:53:33.808][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:53:33.809][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:53:33.810][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-02-27 21:53:33.810][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-02-27 21:53:33.811][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:53:33.813][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:53:33.814][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-27 21:53:33.815][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-02-27 21:53:33.815][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-02-27 21:53:33.823][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-27 21:53:33.825][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-27 21:53:33.827][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-02-27 21:53:33.829][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-27 21:53:33.831][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-27 21:53:33.834][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-27 21:53:33.864][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-02-27 21:53:33.865][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-02-27 21:53:33.871][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-02-27 21:53:33.876][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-02-27 21:53:33.882][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-27 21:53:33.883][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-27 21:53:33.885][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-02-27 21:53:33.886][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-02-27 21:53:33.907][biodb::testThat]
biodb.INFO [2023-02-27 21:53:33.908][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-02-27 21:53:33.909][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:33.911][biodb::testThat]
biodb.TRACE[2023-02-27 21:53:33.916][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2023-02-27 21:53:33.922][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:33.927][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:33.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:33.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:33.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:33.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:33.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:33.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:33.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:33.974][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:33.975][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:33.977][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:33.978][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:33.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:33.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:33.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.005][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:34.006][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:34.007][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.009][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.045][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:34.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:34.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.054][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:34.056][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:34.057][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.058][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.060][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:34.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:34.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.069][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:34.070][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:34.071][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.073][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:34.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:34.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.083][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.085][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.086][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.087][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.089][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.098][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.099][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.100][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.102][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.103][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.125][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:34.126][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.128][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.129][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.131][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:34.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.140][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.141][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.142][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.144][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.154][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:34.156][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:34.157][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.158][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:34.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:34.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.169][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:34.171][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.172][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.173][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.175][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:34.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.184][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:34.185][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:34.187][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.188][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.190][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:34.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:34.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:34.303][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2023-02-27 21:53:34.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:34.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:34.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:34.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:34.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.372][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-27 21:53:34.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-27 21:53:34.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.377][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-27 21:53:34.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-27 21:53:34.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.382][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-27 21:53:34.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-27 21:53:34.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.395][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-27 21:53:34.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-27 21:53:34.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.530][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.532][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.533][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.534][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.567][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.568][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.570][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.571][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:34.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.587][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:34.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:34.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.592][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:34.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:34.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.598][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:34.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:34.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.603][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:34.604][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:34.606][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.607][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.608][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:34.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:34.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:34.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:34.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.629][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:34.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:34.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:34.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:34.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.639][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:34.641][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:34.642][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.643][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.645][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:34.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:34.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.710][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.712][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.713][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.714][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:34.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.746][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.747][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.748][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.749][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:34.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.765][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:34.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:34.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.771][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:34.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:34.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.776][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:34.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:34.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.781][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:34.783][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:34.784][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.785][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.787][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:34.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.801][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.807][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.812][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.818][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.819][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.820][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.822][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.823][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:34.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.837][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.843][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.848][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.854][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.855][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.856][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.858][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.859][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:34.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.874][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:34.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:34.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.879][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:34.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:34.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.885][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:34.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:34.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.890][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:34.891][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:34.893][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.894][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.895][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:34.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:34.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.915][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.926][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.928][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.929][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.930][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:34.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:34.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:34.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:34.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:34.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:34.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:34.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.963][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:34.964][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:34.966][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.967][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:34.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:34.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:34.990][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:34.992][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:34.993][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:34.994][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.002][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:35.003][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:35.005][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.006][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.014][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:35.015][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:35.017][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.018][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.025][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:35.027][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:35.028][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.030][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.037][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:35.039][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:35.040][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.041][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.049][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:35.051][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:35.052][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.053][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.061][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:35.062][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:35.064][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.065][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.073][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:35.074][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:35.075][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.077][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.084][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-02-27 21:53:35.086][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:35.087][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.089][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.096][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:35.098][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:35.099][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.100][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.108][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:35.109][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:35.111][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.112][ef$get] fields variable is a list.
biodb.INFO [2023-02-27 21:53:35.120][biodb::testThat]
biodb.INFO [2023-02-27 21:53:35.122][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-02-27 21:53:35.123][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:35.124][biodb::testThat]
biodb.DEBUG[2023-02-27 21:53:35.143][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2023-02-27 21:53:35.153][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:35.158][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2023-02-27 21:53:35.160][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:35.162][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2023-02-27 21:53:35.163][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:35.220][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:35.221][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:35.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:35.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:35.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:35.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:35.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:35.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:35.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:35.240][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:35.241][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:35.242][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.244][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:35.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:35.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.285][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:35.287][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:35.288][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.289][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.291][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:35.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:35.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.299][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:35.301][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:35.302][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.303][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.305][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:35.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:35.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.314][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:35.315][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:35.316][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.318][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:35.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:35.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.328][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:35.329][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:35.331][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.332][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:35.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:35.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.342][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:35.344][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:35.345][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.346][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.348][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:35.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:35.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.357][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:35.358][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:35.359][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.361][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.362][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:35.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:35.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.371][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:35.372][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:35.374][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.375][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:35.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:35.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.385][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:35.387][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:35.388][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.389][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:35.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:35.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.400][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:35.401][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:35.403][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.404][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.406][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:35.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:35.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.414][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:35.416][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:35.417][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.418][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.420][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:35.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:35.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:35.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:35.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:35.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:35.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:35.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:35.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:35.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:35.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:35.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:35.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:35.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:35.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:35.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:35.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:35.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:35.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:35.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:35.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:35.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:35.485][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2023-02-27 21:53:35.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-02-27 21:53:35.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-02-27 21:53:35.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-02-27 21:53:35.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-02-27 21:53:35.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-02-27 21:53:35.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-02-27 21:53:35.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-27 21:53:35.510][biodb::testThat]
biodb.INFO [2023-02-27 21:53:35.511][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-02-27 21:53:35.512][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:35.514][biodb::testThat]
biodb.TRACE[2023-02-27 21:53:35.517][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:35.519][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:35.520][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.521][ef$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:35.523][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2023-02-27 21:53:35.568][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:35.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:35.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.574][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:35.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:35.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.579][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:35.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:35.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:35.586][function(conn, opt)] With value "squalene".
biodb.DEBUG[2023-02-27 21:53:35.602][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-02-27 21:53:35.630][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:35.652][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-02-27 21:53:35.654][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:35.656][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-02-27 21:53:35.688][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:35.694][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:35.695][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-02-27 21:53:35.697][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:35.700][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-02-27 21:53:35.702][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2023-02-27 21:53:35.721][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:35.722][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:35.724][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.725][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.726][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:35.728][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:35.729][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.730][ef$get] fields variable is a list.
biodb.INFO [2023-02-27 21:53:35.733][biodb::testThat]
biodb.INFO [2023-02-27 21:53:35.734][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-02-27 21:53:35.735][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:35.737][biodb::testThat]
biodb.TRACE[2023-02-27 21:53:35.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:35.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:35.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:35.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:35.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:35.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:35.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:35.883][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:35.887][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:35.889][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-02-27 21:53:35.890][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:35.892][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2023-02-27 21:53:35.913][biodb::testThat]
biodb.INFO [2023-02-27 21:53:35.915][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-02-27 21:53:35.916][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:35.917][biodb::testThat]
biodb.TRACE[2023-02-27 21:53:35.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:35.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:35.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:35.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:35.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:35.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:35.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:35.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:35.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:35.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:35.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:35.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:35.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.982][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-27 21:53:35.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-27 21:53:35.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.987][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-27 21:53:35.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-27 21:53:35.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.992][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-27 21:53:35.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-27 21:53:35.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:35.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:35.997][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-27 21:53:35.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-27 21:53:36.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:36.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:36.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:36.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:36.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:36.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:36.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:36.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:36.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:36.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:36.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:36.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:36.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:36.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:36.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:36.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:36.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:36.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:36.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:36.068][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-27 21:53:36.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-27 21:53:36.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:36.074][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-27 21:53:36.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-27 21:53:36.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:36.079][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-27 21:53:36.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-27 21:53:36.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:36.084][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-27 21:53:36.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-27 21:53:36.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:36.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-27 21:53:36.093][biodb::testThat]
biodb.INFO [2023-02-27 21:53:36.094][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-02-27 21:53:36.095][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:36.097][biodb::testThat]
biodb.INFO [2023-02-27 21:53:36.103][biodb::testThat]
biodb.INFO [2023-02-27 21:53:36.104][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-02-27 21:53:36.106][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:36.107][biodb::testThat]
biodb.INFO [2023-02-27 21:53:36.113][biodb::testThat]
biodb.INFO [2023-02-27 21:53:36.115][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-02-27 21:53:36.116][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:36.117][biodb::testThat]
biodb.DEBUG[2023-02-27 21:53:36.122][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2023-02-27 21:53:38.201][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2023-02-27 21:53:41.073][biodb::testThat]
biodb.INFO [2023-02-27 21:53:41.074][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-02-27 21:53:41.076][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:41.077][biodb::testThat]
biodb.DEBUG[2023-02-27 21:53:42.156][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2023-02-27 21:53:46.222][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:46.225][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:46.228][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.229][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.231][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:46.233][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:46.236][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.238][ef$get] fields variable is a list.
biodb.INFO [2023-02-27 21:53:46.241][biodb::testThat]
biodb.INFO [2023-02-27 21:53:46.243][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2023-02-27 21:53:46.245][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:46.247][biodb::testThat]
biodb.TRACE[2023-02-27 21:53:46.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:46.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:46.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.295][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:46.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:46.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:46.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:46.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:46.429][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:46.434][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:46.436][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-02-27 21:53:46.438][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:46.440][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-02-27 21:53:46.588][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:46.593][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:46.595][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-02-27 21:53:46.597][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:46.599][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2023-02-27 21:53:46.622][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-27 21:53:46.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-27 21:53:46.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:46.730][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:46.736][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:46.738][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-02-27 21:53:46.740][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:46.742][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-02-27 21:53:46.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:46.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:46.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:46.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:46.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:46.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:46.760][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[2023-02-27 21:53:46.761][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2023-02-27 21:53:46.826][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:46.828][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2023-02-27 21:53:46.832][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:46.834][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2023-02-27 21:53:46.836][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:46.858][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:46.860][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:46.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:46.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:46.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:46.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:46.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:46.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:46.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:46.880][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:46.882][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:46.883][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.885][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:46.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:46.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.896][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:46.898][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:46.899][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.900][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.902][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:46.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:46.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.912][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:46.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:46.915][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.916][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.918][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:46.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:46.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.928][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:46.929][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:46.930][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.932][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:46.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:46.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.951][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:46.953][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:46.954][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.955][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:46.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:46.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.967][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:46.968][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:46.969][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.971][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.973][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:46.974][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.975][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.977][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.978][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:46.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:46.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.988][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:46.989][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:46.991][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.992][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:46.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:46.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:46.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:46.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.003][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:47.005][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:47.006][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.008][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:47.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:47.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.019][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:47.021][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:47.022][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.023][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.025][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:47.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:47.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.034][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:47.036][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:47.037][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.038][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:47.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:47.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:47.109][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2023-02-27 21:53:47.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:47.141][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:47.147][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:47.149][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-02-27 21:53:47.151][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:47.153][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-02-27 21:53:47.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:47.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:47.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:47.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:47.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:47.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:47.197][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[2023-02-27 21:53:47.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:47.217][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:47.221][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:47.223][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-02-27 21:53:47.224][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:47.227][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-02-27 21:53:47.283][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:47.287][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:47.289][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-02-27 21:53:47.291][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:47.293][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-02-27 21:53:47.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:47.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:47.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:47.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:47.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:47.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:47.330][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.TRACE[2023-02-27 21:53:47.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:47.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:47.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:47.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:47.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:47.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:47.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:47.362][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[2023-02-27 21:53:47.364][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2023-02-27 21:53:47.365][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:47.368][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2023-02-27 21:53:47.369][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:47.372][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2023-02-27 21:53:47.373][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:47.395][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:47.397][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:47.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:47.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:47.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:47.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:47.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:47.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:47.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:47.425][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.426][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.428][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.429][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.440][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:47.442][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:47.443][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.444][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.446][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:47.447][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:47.449][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.450][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.452][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:47.454][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:47.455][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.456][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.458][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:47.459][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:47.461][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.462][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.464][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:47.465][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:47.467][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.468][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.470][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:47.471][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.472][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.474][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.475][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:47.477][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:47.478][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.480][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.481][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:47.483][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:47.484][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.485][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:47.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:47.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.497][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:47.498][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:47.499][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.501][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.503][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:47.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:47.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.512][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:47.513][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:47.515][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.516][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:47.577][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2023-02-27 21:53:47.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:47.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:47.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:47.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:47.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:47.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:47.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:47.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:47.638][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2023-02-27 21:53:47.639][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:47.642][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2023-02-27 21:53:47.646][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:47.648][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2023-02-27 21:53:47.650][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:47.690][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:47.692][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:47.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:47.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:47.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:47.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:47.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:47.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:47.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:47.713][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.715][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.716][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.718][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.729][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:47.731][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:47.732][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.734][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.736][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:47.737][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:47.739][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.740][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.742][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:47.744][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:47.745][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.747][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.748][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:47.750][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:47.751][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.753][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.755][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:47.756][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:47.758][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.759][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.761][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:47.763][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.764][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.765][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.767][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:47.769][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:47.770][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.772][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.773][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:47.775][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:47.776][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.778][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.780][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:47.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:47.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.790][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:47.792][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:47.793][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.795][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:47.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:47.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.807][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:47.808][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:47.810][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.811][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:47.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:47.875][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2023-02-27 21:53:47.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:47.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:47.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:47.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:47.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:47.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:47.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:47.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:47.927][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[2023-02-27 21:53:47.929][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2023-02-27 21:53:47.930][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:47.932][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2023-02-27 21:53:47.934][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:47.937][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2023-02-27 21:53:47.938][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:47.961][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:47.962][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:47.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:47.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:47.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:47.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:47.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:47.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:47.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:47.983][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.986][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.987][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:47.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:47.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:47.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:47.998][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:47.999][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:48.001][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.002][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.004][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:48.005][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:48.006][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.008][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.009][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:48.011][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:48.012][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.014][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.015][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.017][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.018][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.019][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.021][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.022][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.024][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.025][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.027][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:48.028][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.029][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.031][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.032][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.034][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.035][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.036][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.038][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:48.040][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:48.041][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.042][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:48.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:48.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.054][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:48.056][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:48.057][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.058][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.060][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:48.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:48.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.070][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:48.071][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:48.072][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.074][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:48.134][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2023-02-27 21:53:48.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:48.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:48.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:48.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:48.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:48.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:48.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:48.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:48.187][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2023-02-27 21:53:48.188][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:48.190][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2023-02-27 21:53:48.192][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:48.195][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2023-02-27 21:53:48.196][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:48.218][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:48.220][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:48.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:48.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:48.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:48.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:48.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:48.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:48.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:48.240][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.241][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.242][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.244][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.255][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:48.256][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:48.257][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.259][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.261][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:48.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:48.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.270][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:48.271][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:48.273][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.274][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.276][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:48.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:48.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.285][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:48.287][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:48.288][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.289][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:48.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:48.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.300][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.302][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.303][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.304][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.315][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.317][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.318][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.319][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.321][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.330][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:48.332][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.333][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.334][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.336][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:48.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.345][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.347][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.348][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.350][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.360][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:48.362][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:48.363][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.365][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:48.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:48.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.384][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:48.385][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:48.387][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.388][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.390][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:48.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:48.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.399][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:48.401][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:48.402][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.403][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.405][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:48.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:48.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:48.475][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2023-02-27 21:53:48.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:48.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:48.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:48.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:48.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:48.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:48.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:48.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:48.509][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2023-02-27 21:53:48.510][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:48.512][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2023-02-27 21:53:48.514][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:48.517][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2023-02-27 21:53:48.518][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:48.540][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:48.542][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:48.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:48.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:48.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:48.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:48.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:48.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:48.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:48.561][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.563][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.564][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.565][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.576][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:48.578][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:48.579][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.580][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.582][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:48.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:48.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.591][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:48.593][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:48.594][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.595][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.597][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:48.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:48.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.615][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:48.616][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:48.617][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.619][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:48.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:48.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.630][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.631][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.632][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.634][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.644][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.646][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.647][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.649][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.650][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.660][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:48.661][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.662][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.664][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.665][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:48.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.675][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.676][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.677][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.679][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.690][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:48.691][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:48.693][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.694][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.698][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:48.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:48.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.707][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:48.709][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:48.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.712][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.713][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:48.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:48.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.723][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:48.724][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:48.725][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.727][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.728][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:48.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:48.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:48.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:48.797][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2023-02-27 21:53:48.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:48.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:48.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:48.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:48.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:48.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:48.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:48.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:48.831][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2023-02-27 21:53:48.832][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:48.842][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2023-02-27 21:53:48.844][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:48.847][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2023-02-27 21:53:48.848][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:48.870][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:48.871][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:48.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:48.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:48.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:48.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:48.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:48.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:48.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:48.891][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.893][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.894][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.896][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:48.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:48.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.906][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:48.908][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:48.909][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.911][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:48.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:48.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.922][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:48.923][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:48.924][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.926][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:48.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:48.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.937][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:48.938][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:48.940][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.941][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:48.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:48.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.952][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.953][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.955][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.956][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:48.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.967][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.968][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:48.970][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.971][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.973][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:48.974][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.976][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.977][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.979][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:48.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:48.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.988][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.989][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.991][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.992][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:48.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:48.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:48.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.003][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:49.004][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:49.006][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.007][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:49.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:49.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.018][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:49.020][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:49.021][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.022][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.024][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:49.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:49.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.033][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:49.035][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:49.036][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.037][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.039][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:49.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:49.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:49.116][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2023-02-27 21:53:49.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:49.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:49.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:49.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:49.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:49.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:49.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:49.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:49.151][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2023-02-27 21:53:49.152][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:49.154][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2023-02-27 21:53:49.156][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:49.159][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2023-02-27 21:53:49.160][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:49.182][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:49.184][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:49.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:49.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:49.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:49.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:49.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:49.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:49.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:49.203][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.205][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.206][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.208][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.219][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:49.220][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:49.221][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.223][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.225][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:49.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:49.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.234][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:49.235][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:49.237][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.238][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.240][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:49.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:49.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.249][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:49.250][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:49.252][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.253][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:49.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:49.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.264][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.265][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.267][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.268][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.279][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:49.281][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:49.282][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.283][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.285][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:49.290][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.292][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.294][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.296][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:49.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.324][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.326][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.327][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.329][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.340][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:49.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:49.343][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.345][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:49.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:49.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.356][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:49.358][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:49.359][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.361][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.363][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:49.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:49.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.372][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:49.374][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:49.375][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.377][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.379][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:49.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:49.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:49.451][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2023-02-27 21:53:49.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:49.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:49.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:49.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:49.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:49.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:49.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:49.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:49.487][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2023-02-27 21:53:49.488][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:49.491][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2023-02-27 21:53:49.492][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:49.495][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2023-02-27 21:53:49.497][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:49.520][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:49.522][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:49.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:49.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:49.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:49.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:49.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:49.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:49.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:49.543][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.545][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.546][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.547][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.566][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:49.567][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:49.569][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.570][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.572][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:49.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:49.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.581][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:49.582][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:49.584][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.585][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.587][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:49.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:49.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.596][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:49.597][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:49.599][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.600][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.602][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:49.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:49.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.611][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.612][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.613][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.615][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.626][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:49.627][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:49.629][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.630][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.632][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:49.633][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.635][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.636][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.638][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:49.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.647][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.648][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.650][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.651][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.662][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:49.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:49.665][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.666][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:49.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:49.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.677][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:49.679][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:49.680][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.682][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.683][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:49.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:49.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.693][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:49.694][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:49.695][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.697][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.699][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:49.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:49.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:49.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:49.768][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2023-02-27 21:53:49.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:49.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:49.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:49.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:49.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:49.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:49.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:49.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:49.837][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2023-02-27 21:53:49.838][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:49.841][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2023-02-27 21:53:49.842][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:49.845][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2023-02-27 21:53:49.847][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:49.869][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:49.870][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:49.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:49.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:49.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:49.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:49.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:49.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:49.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:49.890][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.892][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.893][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.894][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:49.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:49.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.905][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:49.907][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:49.908][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.909][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.911][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:49.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:49.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.920][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:49.922][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:49.923][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.924][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.926][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:49.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:49.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.935][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:49.937][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:49.938][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.939][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.941][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:49.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:49.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.950][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.952][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.953][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.954][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:49.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.965][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:49.967][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:49.968][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.969][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.971][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:49.973][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.974][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.975][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.977][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:49.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:49.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.986][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.988][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.989][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.991][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:49.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:49.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:49.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.001][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:50.003][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:50.004][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.006][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:50.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:50.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.017][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:50.018][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:50.020][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.021][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.023][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:50.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:50.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.032][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:50.033][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:50.034][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.036][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.038][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:50.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:50.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:50.115][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2023-02-27 21:53:50.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:50.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:50.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:50.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:50.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:50.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:50.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:50.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:50.149][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2023-02-27 21:53:50.151][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:50.153][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2023-02-27 21:53:50.155][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:50.157][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2023-02-27 21:53:50.159][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:50.181][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:50.182][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:50.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:50.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:50.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:50.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:50.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:50.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:50.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:50.202][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.203][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.205][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.206][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.217][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:50.218][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:50.220][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.221][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.223][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:50.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:50.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.232][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:50.234][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:50.235][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.236][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.238][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:50.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:50.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.247][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:50.249][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:50.250][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.251][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:50.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:50.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.262][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:50.264][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:50.265][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.266][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:50.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:50.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.277][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:50.279][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:50.280][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.281][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.283][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:50.285][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.294][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.295][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.297][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:50.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.307][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.308][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.310][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.311][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.322][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:50.324][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:50.325][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.326][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.329][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:50.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:50.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.338][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:50.339][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:50.341][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.342][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.344][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:50.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:50.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.353][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:50.355][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:50.356][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.358][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:50.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:50.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:50.430][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2023-02-27 21:53:50.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:50.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:50.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:50.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:50.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:50.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:50.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:50.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:50.464][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2023-02-27 21:53:50.466][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:50.468][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2023-02-27 21:53:50.470][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:50.472][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2023-02-27 21:53:50.474][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:50.495][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:50.497][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:50.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:50.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:50.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:50.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:50.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:50.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:50.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:50.517][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.518][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.520][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.521][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.540][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:50.542][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:50.543][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.545][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.546][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:50.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:50.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.556][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:50.557][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:50.559][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.560][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.562][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:50.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:50.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.571][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:50.573][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:50.574][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.575][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.577][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:50.579][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:50.580][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.581][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.583][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:50.584][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:50.586][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.587][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.589][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:50.591][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.592][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.593][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.595][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:50.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.604][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.606][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.607][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.609][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.620][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:50.621][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:50.623][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.624][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.626][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:50.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:50.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.635][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:50.637][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:50.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.640][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.641][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:50.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:50.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.650][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:50.652][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:50.653][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.655][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:50.717][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2023-02-27 21:53:50.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:50.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:50.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:50.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:50.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:50.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:50.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:50.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:50.751][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2023-02-27 21:53:50.753][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:50.755][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2023-02-27 21:53:50.757][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:50.759][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2023-02-27 21:53:50.761][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:50.791][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:50.792][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:50.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:50.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:50.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:50.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:50.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:50.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:50.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:50.812][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.814][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.815][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.816][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.827][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:50.829][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:50.830][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.831][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.833][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:50.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:50.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.842][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:50.844][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:50.845][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.846][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.848][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:50.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:50.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.857][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:50.859][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:50.860][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.861][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.863][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:50.865][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:50.866][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.867][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.869][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:50.870][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:50.872][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.873][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.875][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:50.876][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.878][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.879][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.881][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:50.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:50.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.890][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.891][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.893][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.894][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:50.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.905][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:50.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:50.908][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.909][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.911][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:50.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:50.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.920][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:50.922][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:50.923][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.924][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.926][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:50.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:50.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.935][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:50.937][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:50.938][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.939][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:50.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:50.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:50.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:50.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:50.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:51.009][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2023-02-27 21:53:51.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:51.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:51.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:51.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:51.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:51.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:51.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:51.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:51.043][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2023-02-27 21:53:51.044][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:51.047][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2023-02-27 21:53:51.048][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:51.051][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2023-02-27 21:53:51.053][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:51.074][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:51.076][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:51.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:51.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:51.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:51.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:51.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:51.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:51.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:51.096][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.098][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.099][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.100][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.111][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:51.113][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:51.114][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.116][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.117][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:51.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:51.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.127][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:51.128][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:51.130][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.131][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.133][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:51.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:51.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.142][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:51.144][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:51.145][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.146][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:51.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:51.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.157][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.159][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.160][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.161][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.172][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:51.174][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:51.175][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.176][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.178][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:51.180][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.181][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.182][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.184][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:51.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.193][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.195][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.196][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.197][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.208][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:51.210][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:51.211][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.212][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.214][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:51.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:51.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.223][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:51.225][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:51.226][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.228][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.229][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:51.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:51.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.247][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:51.248][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:51.250][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.251][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:51.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:51.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:51.323][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2023-02-27 21:53:51.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:51.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:51.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:51.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:51.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:51.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:51.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:51.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:51.357][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2023-02-27 21:53:51.358][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:51.360][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2023-02-27 21:53:51.362][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:51.365][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2023-02-27 21:53:51.366][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:51.388][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:51.390][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:51.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:51.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:51.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:51.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:51.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:51.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:51.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:51.409][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.411][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.412][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.413][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.424][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:51.426][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:51.427][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.429][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.430][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:51.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:51.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.439][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:51.441][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:51.442][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.444][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.445][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:51.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:51.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.454][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:51.456][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:51.457][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.459][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:51.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:51.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.478][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.479][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.481][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.482][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.493][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:51.498][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:51.500][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.502][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.504][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:51.506][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.508][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.509][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.511][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:51.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.523][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.525][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.526][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.528][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.540][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:51.542][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:51.543][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.545][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.547][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:51.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:51.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.557][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:51.559][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:51.560][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.562][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.563][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:51.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:51.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.573][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:51.575][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:51.577][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.578][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.580][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:51.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:51.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:51.655][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2023-02-27 21:53:51.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:51.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:51.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:51.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:51.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:51.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:51.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:51.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:51.693][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2023-02-27 21:53:51.695][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:51.697][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2023-02-27 21:53:51.699][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:51.702][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2023-02-27 21:53:51.704][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:51.740][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:51.742][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:51.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:51.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:51.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:51.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:51.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:51.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:51.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:51.763][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.765][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.766][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.767][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.778][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:51.780][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:51.781][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.782][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.784][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:51.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:51.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.793][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:51.795][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:51.796][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.797][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.799][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:51.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:51.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.808][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:51.810][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:51.811][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.812][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.814][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:51.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:51.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.823][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.825][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.826][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.827][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:51.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:51.840][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:51.841][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.842][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.844][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:51.846][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.847][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.848][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.850][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:51.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.859][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.861][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.862][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.863][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:51.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.874][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:51.875][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:51.877][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.878][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:51.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:51.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.889][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:51.891][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:51.892][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.893][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.895][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:51.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:51.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.904][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:51.905][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:51.907][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.908][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.910][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:51.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:51.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:51.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:51.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:51.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:51.987][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2023-02-27 21:53:51.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:51.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:51.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:51.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:52.021][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2023-02-27 21:53:52.022][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:52.025][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2023-02-27 21:53:52.026][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:52.029][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2023-02-27 21:53:52.031][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:52.052][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:52.054][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:52.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:52.074][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.075][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.077][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.078][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.089][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:52.090][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:52.092][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.093][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.095][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:52.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:52.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.104][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:52.105][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:52.107][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.108][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.110][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:52.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:52.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.119][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:52.120][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:52.122][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.123][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:52.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:52.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.134][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:52.135][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:52.137][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.138][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:52.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:52.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.149][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:52.150][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:52.152][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.153][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.155][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:52.156][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.158][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.159][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.161][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:52.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.170][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:52.171][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:52.173][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.174][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:52.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:52.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.185][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:52.186][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:52.188][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.189][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:52.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:52.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.208][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:52.210][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:52.211][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.213][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:52.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:52.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.223][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:52.225][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:52.226][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.228][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.229][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:52.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:52.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.298][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2023-02-27 21:53:52.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.330][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[2023-02-27 21:53:52.332][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2023-02-27 21:53:52.333][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:52.335][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2023-02-27 21:53:52.337][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:52.340][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2023-02-27 21:53:52.341][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:52.363][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:52.365][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:52.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:52.384][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.385][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.387][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.388][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.399][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:52.400][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:52.402][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.403][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.405][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:52.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:52.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.414][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:52.415][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:52.417][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.418][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.420][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:52.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:52.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.437][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:52.439][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:52.440][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.442][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.443][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:52.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:52.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.453][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:52.454][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:52.455][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.457][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:52.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:52.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.468][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:52.469][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:52.470][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.472][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.473][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:52.475][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.476][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.478][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.479][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:52.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.489][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:52.490][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:52.491][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.493][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:52.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:52.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.504][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:52.505][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:52.506][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.508][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.510][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:52.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:52.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.519][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:52.520][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:52.522][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.523][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.525][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:52.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:52.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.534][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:52.535][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:52.536][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.538][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.539][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:52.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:52.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:52.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:52.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:52.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.608][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2023-02-27 21:53:52.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.681][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:52.685][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:52.687][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-02-27 21:53:52.689][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:52.691][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-02-27 21:53:52.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.729][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[2023-02-27 21:53:52.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:52.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:52.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:52.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:52.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:52.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:52.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:52.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:52.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:52.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:52.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:52.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:52.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:52.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:52.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:52.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:52.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.000][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.TRACE[2023-02-27 21:53:53.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:53.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:53.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:53.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:53.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:53.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.205][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[2023-02-27 21:53:53.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:53.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:53.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.301][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.TRACE[2023-02-27 21:53:53.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.333][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[2023-02-27 21:53:53.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.482][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:53.486][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:53.488][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2023-02-27 21:53:53.489][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:53.492][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2023-02-27 21:53:53.496][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:53.500][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:53.502][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2023-02-27 21:53:53.503][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:53.506][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2023-02-27 21:53:53.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:53.524][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2023-02-27 21:53:53.525][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:53.527][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2023-02-27 21:53:53.529][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:53.532][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2023-02-27 21:53:53.533][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:53.555][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:53.556][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:53.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:53.584][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.586][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.587][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.588][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.599][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:53.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:53.602][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.603][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.605][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:53.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:53.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.614][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:53.616][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:53.617][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.618][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.620][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:53.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:53.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.629][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:53.631][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:53.632][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.633][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:53.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:53.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.644][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:53.646][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:53.647][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.648][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:53.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:53.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.659][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:53.661][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:53.662][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.663][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.665][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:53.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:53.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.674][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:53.676][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.677][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.678][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.680][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:53.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:53.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.689][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.691][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.692][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.693][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.705][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:53.707][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:53.708][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.709][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:53.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:53.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.720][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:53.722][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:53.723][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.725][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.726][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:53.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:53.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.735][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:53.737][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:53.738][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.739][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.741][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:53.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:53.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:53.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:53.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:53.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:53.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:53.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:53.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.818][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2023-02-27 21:53:53.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.849][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:53.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:53.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:53.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.881][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:53.884][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2023-02-27 21:53:53.885][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:53.888][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2023-02-27 21:53:53.889][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:53.892][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2023-02-27 21:53:53.894][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:53.915][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:53.917][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:53.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:53.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:53.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:53.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:53.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:53.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:53.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:53.937][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.938][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.940][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.941][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:53.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:53.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.952][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:53.953][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:53.955][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.956][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.958][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:53.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:53.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.967][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:53.968][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:53.969][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.971][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.972][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:53.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:53.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.982][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:53.983][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:53.984][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.986][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:53.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:53.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:53.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:53.996][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:53.998][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:53.999][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.001][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:54.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:54.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.011][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:54.013][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:54.014][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.015][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.017][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:54.019][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:54.020][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.029][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.031][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:54.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:54.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.041][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.042][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.044][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.045][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.056][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:54.057][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:54.059][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.060][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.062][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:54.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:54.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.071][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:54.072][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:54.074][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.075][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.077][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:54.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:54.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.086][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:54.087][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:54.089][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.090][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.092][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:54.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:54.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:54.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:54.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:54.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:54.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:54.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:54.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:54.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:54.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:54.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:54.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:54.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:54.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:54.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:54.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:54.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:54.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:54.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:54.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:54.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:54.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.161][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2023-02-27 21:53:54.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.231][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:54.235][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:54.237][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-02-27 21:53:54.238][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:54.240][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-02-27 21:53:54.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.318][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.TRACE[2023-02-27 21:53:54.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.360][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[2023-02-27 21:53:54.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.511][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.TRACE[2023-02-27 21:53:54.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.544][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[2023-02-27 21:53:54.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.644][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.TRACE[2023-02-27 21:53:54.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.849][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:54.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:54.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:54.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:54.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:54.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:54.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:54.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:54.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:54.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:54.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:54.989][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:54.994][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:54.996][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-02-27 21:53:54.997][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:54.999][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-02-27 21:53:55.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.067][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.153][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.TRACE[2023-02-27 21:53:55.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.270][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.TRACE[2023-02-27 21:53:55.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.399][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.TRACE[2023-02-27 21:53:55.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.633][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[2023-02-27 21:53:55.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:55.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.684][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-02-27 21:53:55.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-02-27 21:53:55.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-27 21:53:55.705][biodb::testThat]
biodb.INFO [2023-02-27 21:53:55.707][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2023-02-27 21:53:55.708][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:55.709][biodb::testThat]
biodb.TRACE[2023-02-27 21:53:55.714][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-27 21:53:55.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-27 21:53:55.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.766][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[2023-02-27 21:53:55.817][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:55.822][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:55.824][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-02-27 21:53:55.825][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:55.827][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-02-27 21:53:55.830][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.863][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:55.868][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:55.869][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-02-27 21:53:55.871][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:55.873][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-02-27 21:53:55.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.899][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[2023-02-27 21:53:55.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:55.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:55.919][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:55.923][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:55.925][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-02-27 21:53:55.927][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:55.928][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-02-27 21:53:55.932][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-02-27 21:53:55.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:55.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:55.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:55.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:55.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:55.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:55.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:55.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.961][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:55.962][private$selectFields]
biodb.TRACE[2023-02-27 21:53:55.964][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:55.965][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:55.966][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:55.968][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.969][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.971][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.972][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.976][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.977][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.979][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:55.980][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:55.982][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.983][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.984][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.986][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.987][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:55.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:55.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:55.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:55.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.018][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-02-27 21:53:56.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:56.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:56.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:56.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:56.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:56.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:56.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:56.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:56.049][private$selectFields]
biodb.TRACE[2023-02-27 21:53:56.050][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:56.051][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:56.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:56.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.056][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.057][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.058][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.060][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.061][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.062][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.064][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:56.067][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:56.068][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.069][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.071][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.072][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.074][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:56.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.092][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-02-27 21:53:56.094][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-02-27 21:53:56.095][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-02-27 21:53:56.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:56.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:56.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:56.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:56.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:56.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:56.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:56.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:56.286][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:56.290][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:56.292][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-02-27 21:53:56.294][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:56.678][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-02-27 21:53:56.682][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:56.686][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:56.688][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-02-27 21:53:56.690][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:56.692][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-02-27 21:53:56.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:56.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:56.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:56.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:56.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:56.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:56.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:56.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:56.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:56.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:56.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:56.747][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:56.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:56.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:56.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:56.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:56.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:56.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:56.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:56.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:56.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:56.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:56.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:56.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:56.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:56.834][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-02-27 21:53:56.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:56.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:56.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:56.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:56.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:56.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:56.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:56.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:56.894][private$selectFields]
biodb.TRACE[2023-02-27 21:53:56.895][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:56.897][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:56.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:56.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.910][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.912][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.916][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.918][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.919][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:56.921][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:56.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.923][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.925][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.926][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.927][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:56.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.946][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-02-27 21:53:56.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:56.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:56.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:56.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:56.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:56.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:56.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:56.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:56.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:56.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:56.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.019][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.020][private$selectFields]
biodb.TRACE[2023-02-27 21:53:57.022][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:57.023][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:57.024][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.028][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.029][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.031][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.032][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.033][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.035][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.036][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.051][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.052][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.053][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.055][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.056][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.057][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:57.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.075][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-02-27 21:53:57.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:57.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.103][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.104][private$selectFields]
biodb.TRACE[2023-02-27 21:53:57.105][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:57.115][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:57.116][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.118][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.119][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.121][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.122][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.124][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.125][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.127][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.128][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.129][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.131][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.132][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.134][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.135][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.136][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.138][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:57.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.156][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-02-27 21:53:57.158][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-02-27 21:53:57.159][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-02-27 21:53:57.170][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-02-27 21:53:57.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-02-27 21:53:57.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-27 21:53:57.177][biodb::testThat]
biodb.INFO [2023-02-27 21:53:57.179][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2023-02-27 21:53:57.180][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:57.181][biodb::testThat]
biodb.TRACE[2023-02-27 21:53:57.186][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-27 21:53:57.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-27 21:53:57.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:57.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:57.289][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:57.293][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:57.295][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-02-27 21:53:57.296][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:57.298][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-02-27 21:53:57.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:57.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:57.342][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:57.347][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:57.349][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-02-27 21:53:57.351][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:57.352][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-02-27 21:53:57.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:57.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:57.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:57.389][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:57.393][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:57.395][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-02-27 21:53:57.397][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:57.399][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-02-27 21:53:57.402][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-02-27 21:53:57.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:57.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.431][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.433][private$selectFields]
biodb.TRACE[2023-02-27 21:53:57.434][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:57.435][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:57.437][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.438][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.440][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.441][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.442][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.444][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.445][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.447][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.448][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.449][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.451][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.452][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.454][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.455][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.456][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.458][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:57.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.477][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-02-27 21:53:57.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.492][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.TRACE[2023-02-27 21:53:57.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.505][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.507][private$selectFields]
biodb.TRACE[2023-02-27 21:53:57.508][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:57.509][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:57.511][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.512][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.514][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.515][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.516][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.518][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.519][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.520][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.522][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.523][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.525][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.526][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.528][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.529][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.530][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.532][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:57.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.550][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-02-27 21:53:57.552][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-02-27 21:53:57.553][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-02-27 21:53:57.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:57.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:57.672][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:57.677][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:57.679][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-02-27 21:53:57.680][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:57.682][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-02-27 21:53:57.686][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:57.691][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:57.693][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-02-27 21:53:57.694][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:57.696][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-02-27 21:53:57.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:57.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:57.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.747][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.TRACE[2023-02-27 21:53:57.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:57.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:57.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:57.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:57.809][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-02-27 21:53:57.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:57.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.840][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.842][private$selectFields]
biodb.TRACE[2023-02-27 21:53:57.843][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:57.845][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:57.846][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.849][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.851][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.852][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.853][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.855][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.856][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.858][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.859][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.861][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.864][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.865][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.867][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.868][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:57.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.888][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-02-27 21:53:57.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:57.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.918][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.919][private$selectFields]
biodb.TRACE[2023-02-27 21:53:57.920][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:57.922][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:57.923][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.925][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.926][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.928][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.929][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.932][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.933][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.935][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.938][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.939][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.941][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.942][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.944][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.945][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:57.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.964][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-02-27 21:53:57.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:57.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:57.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:57.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:57.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:57.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:57.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:57.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:57.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:57.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:57.994][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:57.995][private$selectFields]
biodb.TRACE[2023-02-27 21:53:57.996][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:57.998][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:57.999][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.001][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.002][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.004][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.005][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.006][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.009][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.011][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.012][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.013][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.015][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.018][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.019][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.020][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:58.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.048][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-02-27 21:53:58.050][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-02-27 21:53:58.051][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-02-27 21:53:58.063][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-02-27 21:53:58.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-02-27 21:53:58.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-27 21:53:58.070][biodb::testThat]
biodb.INFO [2023-02-27 21:53:58.071][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2023-02-27 21:53:58.073][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:58.074][biodb::testThat]
biodb.TRACE[2023-02-27 21:53:58.078][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-27 21:53:58.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-27 21:53:58.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:58.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:58.185][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[2023-02-27 21:53:58.189][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:58.191][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-02-27 21:53:58.193][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:58.195][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-02-27 21:53:58.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:58.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:58.231][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:58.235][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:58.237][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-02-27 21:53:58.239][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:58.241][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-02-27 21:53:58.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:58.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:58.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:58.286][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:58.291][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:58.293][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-02-27 21:53:58.294][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:58.296][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-02-27 21:53:58.299][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-02-27 21:53:58.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:58.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.328][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.330][private$selectFields]
biodb.TRACE[2023-02-27 21:53:58.331][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:58.333][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:58.334][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.337][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.338][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.340][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.341][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.342][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.344][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.345][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.347][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.348][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.349][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.351][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.352][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.353][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.355][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:58.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.374][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-02-27 21:53:58.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:58.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.402][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.403][private$selectFields]
biodb.TRACE[2023-02-27 21:53:58.405][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:58.406][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:58.407][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.409][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.410][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.412][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.413][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.414][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.416][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.417][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.418][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.420][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.421][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.423][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.424][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.425][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.427][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.428][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:58.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.447][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-02-27 21:53:58.448][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-02-27 21:53:58.450][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-02-27 21:53:58.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:58.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:53:58.612][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:58.617][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:58.618][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-02-27 21:53:58.620][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:58.622][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-02-27 21:53:58.627][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:53:58.631][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:53:58.633][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-02-27 21:53:58.635][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:58.637][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-02-27 21:53:58.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:58.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:58.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:58.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:58.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:58.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:58.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:58.746][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-02-27 21:53:58.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:58.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.787][private$selectFields]
biodb.TRACE[2023-02-27 21:53:58.788][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:58.789][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:58.791][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.792][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.795][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.796][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.798][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.801][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.802][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.805][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.808][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.809][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.811][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.812][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:58.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.832][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-02-27 21:53:58.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:58.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.861][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.862][private$selectFields]
biodb.TRACE[2023-02-27 21:53:58.864][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:58.865][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:58.867][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.870][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.871][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.872][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.874][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.875][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.877][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.878][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.879][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.881][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.882][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.884][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.885][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.887][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.888][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:58.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.907][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-02-27 21:53:58.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:58.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:58.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:58.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:58.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:58.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:58.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:58.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.937][private$selectFields]
biodb.TRACE[2023-02-27 21:53:58.939][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-02-27 21:53:58.940][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-02-27 21:53:58.941][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.943][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.944][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.946][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.947][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.950][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.951][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.953][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.954][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.956][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-02-27 21:53:58.957][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.958][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.960][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.961][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.963][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-02-27 21:53:58.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:58.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:58.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:58.981][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-02-27 21:53:58.991][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-02-27 21:53:58.992][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-02-27 21:53:59.022][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-02-27 21:53:59.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-02-27 21:53:59.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-27 21:53:59.029][biodb::testThat]
biodb.INFO [2023-02-27 21:53:59.031][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-02-27 21:53:59.032][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:59.033][biodb::testThat]
biodb.DEBUG[2023-02-27 21:53:59.036][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-02-27 21:53:59.037][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:53:59.039][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-02-27 21:53:59.041][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:53:59.044][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2023-02-27 21:53:59.045][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:59.066][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:53:59.067][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:59.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:59.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:59.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:59.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:59.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:59.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:59.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:59.087][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.088][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.090][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.091][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.102][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:59.104][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:59.105][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.106][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.108][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:59.110][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:59.111][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.112][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.114][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:59.116][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:59.117][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.118][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.122][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.123][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.124][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.126][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.127][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.129][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.130][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.132][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:59.133][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:59.135][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.136][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.138][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.139][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.141][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.142][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.144][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:59.145][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:59.146][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.148][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.150][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:59.151][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:59.153][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.154][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.156][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:59.157][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:59.158][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.160][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:59.231][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2023-02-27 21:53:59.232][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-02-27 21:53:59.241][biodb::testThat]
biodb.INFO [2023-02-27 21:53:59.242][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-02-27 21:53:59.243][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:53:59.245][biodb::testThat]
biodb.DEBUG[2023-02-27 21:53:59.258][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2023-02-27 21:53:59.260][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2023-02-27 21:53:59.261][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2023-02-27 21:53:59.263][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2023-02-27 21:53:59.265][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2023-02-27 21:53:59.269][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2023-02-27 21:53:59.271][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:53:59.292][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2023-02-27 21:53:59.293][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2023-02-27 21:53:59.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:59.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:59.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:59.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:59.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:59.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:59.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:59.313][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.314][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.316][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.317][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.328][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:59.329][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:59.331][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.332][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.334][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:59.335][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:59.337][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.338][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.340][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:59.342][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:59.343][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.344][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.346][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.347][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.349][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.350][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.352][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.353][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.355][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.356][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.358][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:59.359][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:59.361][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.362][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.364][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.365][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.367][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.368][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.369][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:59.371][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:59.372][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.374][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.376][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:59.377][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:59.378][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.380][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.381][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:59.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:59.384][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.386][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:59.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:59.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:59.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:59.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:59.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:59.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:59.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:59.457][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.459][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.460][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.461][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.472][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:59.474][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:59.475][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.477][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.478][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:59.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:59.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.488][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:59.489][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:59.491][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.492][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.494][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:59.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:59.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.503][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:59.505][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:59.506][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.507][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.509][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:59.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:59.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.518][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.520][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.521][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.523][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.534][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.535][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.536][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.538][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.540][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.549][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:59.550][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:59.552][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.553][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:59.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:59.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.564][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.566][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.567][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.568][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.579][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:59.581][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:59.582][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.583][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.585][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:59.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:59.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.594][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:59.596][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:59.597][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.599][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.600][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:59.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:59.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.609][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:59.611][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:59.612][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.614][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.615][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:59.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:59.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:53:59.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:53:59.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:53:59.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:53:59.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:53:59.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:53:59.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:53:59.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:53:59.695][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.697][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.698][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.699][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.711][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:59.712][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:59.714][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.715][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.717][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:53:59.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:53:59.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.726][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:59.728][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:59.729][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.730][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.732][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:53:59.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:53:59.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.742][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:59.743][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:59.744][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.746][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:53:59.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:53:59.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.757][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.758][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.760][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.761][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:53:59.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.773][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.774][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.776][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.777][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.779][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:53:59.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.788][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:59.790][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:59.791][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.792][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.794][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:53:59.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:53:59.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.803][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.804][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.806][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.807][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:53:59.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.818][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:59.819][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:59.821][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.822][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.824][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:53:59.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:53:59.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.833][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:59.834][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:59.836][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.837][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.839][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:53:59.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:53:59.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.848][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:59.849][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:59.851][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.852][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.854][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:53:59.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:53:59.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:53:59.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:53:59.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:53:59.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:53:59.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:53:59.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:00.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:00.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:00.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:00.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:00.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:00.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:00.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:00.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:00.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:00.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:00.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:00.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:00.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:00.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:00.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:00.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:00.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:00.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:00.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:00.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:00.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:00.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:00.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:00.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:00.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:00.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:00.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:00.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:00.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:54:00.154][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2023-02-27 21:54:00.155][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-02-27 21:54:00.157][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2023-02-27 21:54:00.172][biodb::testThat]
biodb.INFO [2023-02-27 21:54:00.174][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-02-27 21:54:00.175][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:54:00.176][biodb::testThat]
biodb.INFO [2023-02-27 21:54:00.205][biodb::testThat]
biodb.INFO [2023-02-27 21:54:00.207][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-02-27 21:54:00.208][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:54:00.209][biodb::testThat]
biodb.INFO [2023-02-27 21:54:00.218][biodb::testThat]
biodb.INFO [2023-02-27 21:54:00.220][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-02-27 21:54:00.221][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:54:00.222][biodb::testThat]
biodb.DEBUG[2023-02-27 21:54:00.226][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:00.230][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:00.232][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2023-02-27 21:54:00.234][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:00.237][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2023-02-27 21:54:00.256][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:54:00.258][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:54:00.259][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.260][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:00.261][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:54:00.263][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:54:00.264][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:00.265][ef$get] fields variable is a list.
biodb.INFO [2023-02-27 21:54:00.267][biodb::testThat]
biodb.INFO [2023-02-27 21:54:00.268][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2023-02-27 21:54:00.269][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:54:00.271][biodb::testThat]
biodb.ERROR[2023-02-27 21:54:00.288][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2023-02-27 21:54:00.306][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2023-02-27 21:54:00.319][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-27 21:54:00.320][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-02-27 21:54:00.322][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-02-27 21:54:00.323][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-27 21:54:00.324][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:00.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:00.327][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.329][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-27 21:54:00.344][biodb::testContext]
biodb.INFO [2023-02-27 21:54:00.345][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-27 21:54:00.347][biodb::testContext] Test context - Test conversions
biodb.INFO [2023-02-27 21:54:00.348][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-27 21:54:00.349][biodb::testContext]
biodb.INFO [2023-02-27 21:54:00.356][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-27 21:54:00.358][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-27 21:54:00.362][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:54:00.364][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-27 21:54:00.365][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-27 21:54:00.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.369][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[2023-02-27 21:54:00.370][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-27 21:54:00.372][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-27 21:54:00.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.377][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-27 21:54:00.378][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-27 21:54:00.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.382][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[2023-02-27 21:54:00.384][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-27 21:54:00.385][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-27 21:54:00.387][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-27 21:54:00.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.392][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-27 21:54:00.394][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-27 21:54:00.395][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-27 21:54:00.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.399][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[2023-02-27 21:54:00.401][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-27 21:54:00.402][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-27 21:54:00.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.408][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-27 21:54:00.409][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-27 21:54:00.411][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-27 21:54:00.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.415][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[2023-02-27 21:54:00.416][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-27 21:54:00.418][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-27 21:54:00.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.423][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-27 21:54:00.425][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-27 21:54:00.427][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-27 21:54:00.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.431][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[2023-02-27 21:54:00.432][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-27 21:54:00.434][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-27 21:54:00.435][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-27 21:54:00.437][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-27 21:54:00.438][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-27 21:54:00.440][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-27 21:54:00.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.445][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-27 21:54:00.447][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-27 21:54:00.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.452][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-27 21:54:00.454][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-27 21:54:00.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.459][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-27 21:54:00.461][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-27 21:54:00.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.465][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[2023-02-27 21:54:00.466][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-27 21:54:00.468][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-27 21:54:00.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.474][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-27 21:54:00.475][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-27 21:54:00.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.481][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-27 21:54:00.482][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-27 21:54:00.487][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-27 21:54:00.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.492][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-27 21:54:00.494][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-27 21:54:00.495][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-27 21:54:00.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.501][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-27 21:54:00.504][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.505][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-27 21:54:00.507][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.508][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:00.510][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.511][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.513][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.522][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.524][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-27 21:54:00.525][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:00.527][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.528][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-27 21:54:00.529][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:00.531][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.532][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.534][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:54:00.534][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:54:00.534][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:54:00.534][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-27 21:54:00.534][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-27 21:54:00.535][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:00.536][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:00.538][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:00.539][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:00.540][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:00.541][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:00.543][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.544][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.546][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:00.547][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:00.548][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.550][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.551][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-27 21:54:00.554][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.555][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-27 21:54:00.556][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.558][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:00.559][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.561][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.562][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.563][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.565][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-27 21:54:00.566][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:00.567][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.569][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-27 21:54:00.570][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:00.572][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.573][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.574][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:54:00.574][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:54:00.574][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:54:00.574][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-27 21:54:00.574][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-27 21:54:00.576][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:00.577][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:00.578][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:00.580][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:00.581][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:00.582][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:00.584][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.585][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.586][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:00.588][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:00.589][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.590][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.592][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-27 21:54:00.594][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.596][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-02-27 21:54:00.597][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.599][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:00.600][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.601][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.603][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.604][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.605][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-27 21:54:00.607][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:00.608][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.610][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-27 21:54:00.611][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:00.612][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.614][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.615][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.617][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:00.618][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:00.619][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:00.621][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:00.622][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:00.623][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:00.624][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.626][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.627][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:00.628][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:00.630][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.631][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.633][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-27 21:54:00.635][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.637][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-27 21:54:00.638][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.639][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:00.641][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.642][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.644][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.645][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.646][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-27 21:54:00.648][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:00.649][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.651][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-27 21:54:00.652][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:00.653][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.655][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:00.656][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.658][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:00.659][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:00.660][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:00.662][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:00.663][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:00.664][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:00.666][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:00.667][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.668][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:00.669][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:00.671][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:00.672][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:00.674][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:54:00.675][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.683][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[2023-02-27 21:54:00.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.696][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[2023-02-27 21:54:00.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.715][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[2023-02-27 21:54:00.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.740][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.DEBUG[2023-02-27 21:54:00.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.753][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[2023-02-27 21:54:00.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.759][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.DEBUG[2023-02-27 21:54:00.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.786][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-27 21:54:00.788][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-27 21:54:00.790][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-27 21:54:00.792][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-27 21:54:00.794][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-27 21:54:00.796][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-27 21:54:00.798][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-27 21:54:00.800][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-27 21:54:00.802][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-27 21:54:00.804][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-27 21:54:00.806][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-27 21:54:00.808][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-27 21:54:00.810][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-27 21:54:00.812][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-27 21:54:00.814][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-27 21:54:00.816][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-27 21:54:00.818][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-27 21:54:00.820][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-27 21:54:00.822][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-27 21:54:00.824][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-27 21:54:00.826][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-27 21:54:00.828][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-27 21:54:00.830][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-27 21:54:00.832][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-27 21:54:00.834][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-27 21:54:00.836][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-27 21:54:00.838][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-27 21:54:00.840][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-27 21:54:00.842][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-27 21:54:00.844][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-27 21:54:00.846][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-27 21:54:00.848][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-27 21:54:00.851][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-27 21:54:00.853][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-27 21:54:00.855][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-27 21:54:00.857][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-27 21:54:00.859][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-27 21:54:00.861][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-27 21:54:00.863][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-27 21:54:00.865][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-27 21:54:00.867][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-27 21:54:00.869][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-27 21:54:00.871][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-27 21:54:00.873][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-27 21:54:00.875][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-27 21:54:00.877][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-27 21:54:00.879][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-27 21:54:00.881][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-27 21:54:00.883][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-27 21:54:00.885][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-27 21:54:00.887][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-27 21:54:00.889][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-27 21:54:00.891][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-27 21:54:00.893][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-27 21:54:00.896][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-27 21:54:00.898][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-27 21:54:00.900][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-27 21:54:00.902][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-27 21:54:00.904][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-27 21:54:00.906][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-27 21:54:00.908][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-27 21:54:00.910][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-27 21:54:00.912][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-27 21:54:00.914][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-27 21:54:00.916][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-27 21:54:00.918][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-27 21:54:00.920][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-27 21:54:00.922][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-27 21:54:00.924][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-27 21:54:00.926][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-27 21:54:00.928][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-27 21:54:00.930][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-27 21:54:00.932][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-27 21:54:00.942][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-27 21:54:00.944][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-27 21:54:00.946][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-27 21:54:00.948][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-27 21:54:00.950][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-27 21:54:00.952][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-27 21:54:00.954][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-27 21:54:00.956][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-27 21:54:00.958][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-27 21:54:00.960][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-27 21:54:00.962][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-27 21:54:00.964][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-27 21:54:00.965][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:54:00.967][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.969][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:00.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:00.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.979][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[2023-02-27 21:54:00.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:00.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:00.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:00.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:00.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:00.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:00.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:00.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:00.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:00.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.023][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[2023-02-27 21:54:01.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.058][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.DEBUG[2023-02-27 21:54:01.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.084][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[2023-02-27 21:54:01.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.093][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[2023-02-27 21:54:01.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.122][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-02-27 21:54:01.123][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-02-27 21:54:01.126][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.128][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.129][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.130][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:01.132][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.133][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.135][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.136][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-02-27 21:54:01.137][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-27 21:54:01.139][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:01.140][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.142][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-02-27 21:54:01.143][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-02-27 21:54:01.144][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-02-27 21:54:01.146][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.147][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:54:01.147][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:54:01.147][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:54:01.149][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-27 21:54:01.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:01.151][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:01.153][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:01.154][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:01.155][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:01.157][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.158][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-02-27 21:54:01.158][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-02-27 21:54:01.160][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:01.161][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:01.162][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.164][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-02-27 21:54:01.164][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-02-27 21:54:01.166][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-27 21:54:01.168][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-27 21:54:01.170][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-02-27 21:54:01.172][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-27 21:54:01.174][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-27 21:54:01.177][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-27 21:54:01.181][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-02-27 21:54:01.183][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-02-27 21:54:01.184][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-02-27 21:54:01.186][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-02-27 21:54:01.188][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-27 21:54:01.189][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-27 21:54:01.191][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-02-27 21:54:01.193][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-02-27 21:54:01.194][biodb::testThat]
biodb.INFO [2023-02-27 21:54:01.196][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2023-02-27 21:54:01.197][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:54:01.199][biodb::testThat]
biodb.DEBUG[2023-02-27 21:54:01.204][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-02-27 21:54:01.208][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:01.210][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-02-27 21:54:01.212][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:01.214][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-02-27 21:54:01.218][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:01.223][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:01.225][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-02-27 21:54:01.226][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:01.229][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-02-27 21:54:01.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.248][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:01.252][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:01.254][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-02-27 21:54:01.255][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:01.258][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-02-27 21:54:01.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.315][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:01.319][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:01.321][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-02-27 21:54:01.323][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:01.324][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-02-27 21:54:01.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.343][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:01.347][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:01.349][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-02-27 21:54:01.351][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:01.353][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-02-27 21:54:01.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.397][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:01.401][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:01.403][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-02-27 21:54:01.404][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:01.406][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-02-27 21:54:01.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.425][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:01.429][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:01.431][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-02-27 21:54:01.432][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:01.434][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-02-27 21:54:01.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.453][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:01.457][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:01.459][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2023-02-27 21:54:01.460][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:01.468][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2023-02-27 21:54:01.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-27 21:54:01.488][biodb::testThat]
biodb.INFO [2023-02-27 21:54:01.489][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2023-02-27 21:54:01.491][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:54:01.492][biodb::testThat]
biodb.DEBUG[2023-02-27 21:54:01.497][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:01.501][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:01.503][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2023-02-27 21:54:01.505][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:01.508][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2023-02-27 21:54:01.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.529][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:01.533][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:01.535][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2023-02-27 21:54:01.537][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:01.540][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2023-02-27 21:54:01.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:01.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-27 21:54:01.559][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-27 21:54:01.561][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-02-27 21:54:01.563][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-02-27 21:54:01.564][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-27 21:54:01.565][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:01.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:01.568][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.570][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-27 21:54:01.576][biodb::testContext]
biodb.INFO [2023-02-27 21:54:01.578][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-27 21:54:01.579][biodb::testContext] Test context - Test web services
biodb.INFO [2023-02-27 21:54:01.581][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-27 21:54:01.582][biodb::testContext]
biodb.INFO [2023-02-27 21:54:01.588][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-27 21:54:01.591][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-27 21:54:01.595][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:54:01.597][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-27 21:54:01.598][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-27 21:54:01.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.603][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-27 21:54:01.605][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-27 21:54:01.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.610][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-27 21:54:01.611][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-27 21:54:01.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.617][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-27 21:54:01.618][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-27 21:54:01.620][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-27 21:54:01.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.625][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-27 21:54:01.626][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-27 21:54:01.628][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-27 21:54:01.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.633][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-27 21:54:01.634][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-27 21:54:01.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.640][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-27 21:54:01.641][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-27 21:54:01.642][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-27 21:54:01.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.646][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[2023-02-27 21:54:01.648][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-27 21:54:01.649][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-27 21:54:01.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.655][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-27 21:54:01.656][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-27 21:54:01.657][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-27 21:54:01.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.661][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.DEBUG[2023-02-27 21:54:01.663][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-27 21:54:01.664][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-27 21:54:01.666][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-27 21:54:01.667][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-27 21:54:01.668][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-27 21:54:01.670][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-27 21:54:01.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.675][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-27 21:54:01.677][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-27 21:54:01.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.682][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-27 21:54:01.684][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-27 21:54:01.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.689][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-27 21:54:01.691][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-27 21:54:01.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.696][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-27 21:54:01.697][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-27 21:54:01.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.703][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-27 21:54:01.704][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-27 21:54:01.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.708][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[2023-02-27 21:54:01.710][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-27 21:54:01.711][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-27 21:54:01.716][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-27 21:54:01.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.721][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-27 21:54:01.723][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-27 21:54:01.724][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-27 21:54:01.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.729][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-27 21:54:01.732][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.733][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-27 21:54:01.735][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.736][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:01.738][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.739][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.740][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.742][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.743][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-27 21:54:01.745][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:01.746][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.747][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-27 21:54:01.749][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:01.750][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.752][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.753][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:54:01.753][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:54:01.753][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:54:01.753][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-27 21:54:01.753][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-27 21:54:01.754][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:01.756][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:01.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:01.758][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:01.760][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:01.761][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:01.762][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.764][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.765][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:01.766][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:01.768][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.769][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.771][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-27 21:54:01.773][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.775][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-27 21:54:01.776][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.778][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:01.779][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.780][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.782][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.783][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.785][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-27 21:54:01.786][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:01.787][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.789][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-27 21:54:01.790][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:01.792][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.793][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.794][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:54:01.794][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:54:01.794][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:54:01.794][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-27 21:54:01.794][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-27 21:54:01.796][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:01.797][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:01.806][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:01.808][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:01.809][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:01.810][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:01.812][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.813][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.815][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:01.816][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:01.817][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.819][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.820][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-27 21:54:01.823][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.824][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-02-27 21:54:01.826][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.827][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:01.829][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.830][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.831][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.833][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.834][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-27 21:54:01.836][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:01.837][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.839][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-27 21:54:01.840][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:01.841][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.843][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.844][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.846][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:01.847][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:01.848][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:01.850][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:01.851][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:01.852][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:01.854][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.855][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.856][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:01.858][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:01.859][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.860][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.862][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-27 21:54:01.864][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.866][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-27 21:54:01.867][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.869][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:01.870][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.872][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.873][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.874][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.876][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-27 21:54:01.877][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:01.879][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.880][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-27 21:54:01.881][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:01.883][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.884][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:01.886][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.887][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:01.888][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:01.890][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:01.891][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:01.892][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:01.894][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:01.895][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:01.896][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.898][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:01.899][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:01.900][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:01.902][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:01.904][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:54:01.905][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.906][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[2023-02-27 21:54:01.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.969][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.DEBUG[2023-02-27 21:54:01.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:01.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:01.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:01.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:01.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:01.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.015][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-27 21:54:02.017][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-27 21:54:02.019][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-27 21:54:02.021][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-27 21:54:02.023][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-27 21:54:02.025][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-27 21:54:02.027][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-27 21:54:02.029][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-27 21:54:02.031][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-27 21:54:02.033][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-27 21:54:02.035][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-27 21:54:02.037][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-27 21:54:02.039][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-27 21:54:02.041][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-27 21:54:02.043][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-27 21:54:02.045][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-27 21:54:02.047][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-27 21:54:02.049][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-27 21:54:02.050][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-27 21:54:02.052][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-27 21:54:02.054][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-27 21:54:02.056][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-27 21:54:02.058][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-27 21:54:02.060][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-27 21:54:02.062][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-27 21:54:02.064][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-27 21:54:02.066][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-27 21:54:02.068][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-27 21:54:02.070][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-27 21:54:02.072][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-27 21:54:02.074][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-27 21:54:02.076][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-27 21:54:02.078][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-27 21:54:02.080][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-27 21:54:02.082][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-27 21:54:02.084][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-27 21:54:02.086][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-27 21:54:02.088][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-27 21:54:02.090][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-27 21:54:02.092][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-27 21:54:02.094][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-27 21:54:02.096][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-27 21:54:02.098][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-27 21:54:02.100][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-27 21:54:02.102][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-27 21:54:02.104][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-27 21:54:02.106][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-27 21:54:02.108][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-27 21:54:02.110][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-27 21:54:02.112][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-27 21:54:02.114][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-27 21:54:02.116][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-27 21:54:02.118][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-27 21:54:02.120][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-27 21:54:02.122][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-27 21:54:02.123][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-27 21:54:02.125][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-27 21:54:02.127][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-27 21:54:02.129][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-27 21:54:02.131][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-27 21:54:02.133][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-27 21:54:02.135][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-27 21:54:02.137][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-27 21:54:02.139][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-27 21:54:02.141][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-27 21:54:02.143][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-27 21:54:02.145][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-27 21:54:02.147][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-27 21:54:02.149][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-27 21:54:02.151][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-27 21:54:02.153][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-27 21:54:02.155][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-27 21:54:02.157][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-27 21:54:02.159][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-27 21:54:02.161][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-27 21:54:02.163][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-27 21:54:02.165][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-27 21:54:02.167][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-27 21:54:02.169][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-27 21:54:02.171][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-27 21:54:02.173][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-27 21:54:02.175][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-27 21:54:02.177][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-27 21:54:02.179][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-27 21:54:02.181][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-27 21:54:02.182][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:54:02.184][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.186][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.205][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[2023-02-27 21:54:02.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.265][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[2023-02-27 21:54:02.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.292][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[2023-02-27 21:54:02.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.301][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[2023-02-27 21:54:02.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.336][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[2023-02-27 21:54:02.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.347][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-02-27 21:54:02.349][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-02-27 21:54:02.351][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.353][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.354][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.356][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:02.357][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.359][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.360][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.361][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-02-27 21:54:02.363][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-27 21:54:02.364][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:02.366][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.367][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-02-27 21:54:02.369][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-02-27 21:54:02.370][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-02-27 21:54:02.372][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.373][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:54:02.373][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:54:02.373][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:54:02.375][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-27 21:54:02.376][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:02.378][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:02.379][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:02.380][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:02.382][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:02.383][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.384][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-02-27 21:54:02.384][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-02-27 21:54:02.386][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:02.387][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:02.389][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.390][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-02-27 21:54:02.390][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-02-27 21:54:02.392][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-27 21:54:02.394][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-27 21:54:02.397][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-02-27 21:54:02.399][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-27 21:54:02.401][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-27 21:54:02.403][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-27 21:54:02.408][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-02-27 21:54:02.410][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-02-27 21:54:02.411][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-02-27 21:54:02.414][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-02-27 21:54:02.416][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-27 21:54:02.417][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-27 21:54:02.419][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-02-27 21:54:02.421][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-02-27 21:54:02.422][biodb::testThat]
biodb.INFO [2023-02-27 21:54:02.424][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2023-02-27 21:54:02.425][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:54:02.427][biodb::testThat]
biodb.DEBUG[2023-02-27 21:54:02.431][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-02-27 21:54:02.436][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:02.438][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-02-27 21:54:02.439][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:02.441][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-02-27 21:54:02.446][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:02.450][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:02.452][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2023-02-27 21:54:02.453][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:02.456][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2023-02-27 21:54:02.461][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-27 21:54:02.463][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-02-27 21:54:02.464][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-02-27 21:54:02.465][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-27 21:54:02.467][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:02.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:02.469][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.472][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-27 21:54:02.478][biodb::testContext]
biodb.INFO [2023-02-27 21:54:02.479][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-27 21:54:02.480][biodb::testContext] Test context - Non regression tests
biodb.INFO [2023-02-27 21:54:02.482][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-27 21:54:02.483][biodb::testContext]
biodb.INFO [2023-02-27 21:54:02.489][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-27 21:54:02.491][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-27 21:54:02.496][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:54:02.497][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-27 21:54:02.499][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-27 21:54:02.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.504][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-27 21:54:02.505][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-27 21:54:02.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.510][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-27 21:54:02.512][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-27 21:54:02.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.517][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-27 21:54:02.518][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-27 21:54:02.520][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-27 21:54:02.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.525][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-27 21:54:02.526][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-27 21:54:02.528][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-27 21:54:02.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.533][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-27 21:54:02.534][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-27 21:54:02.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.540][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-27 21:54:02.541][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-27 21:54:02.542][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-27 21:54:02.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.548][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-27 21:54:02.549][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-27 21:54:02.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.554][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-27 21:54:02.556][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-27 21:54:02.557][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-27 21:54:02.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.562][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-27 21:54:02.564][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-27 21:54:02.565][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-27 21:54:02.566][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-27 21:54:02.568][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-27 21:54:02.569][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-27 21:54:02.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.574][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-27 21:54:02.576][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-27 21:54:02.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.581][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-27 21:54:02.583][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-27 21:54:02.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.588][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-27 21:54:02.589][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-27 21:54:02.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.594][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-27 21:54:02.596][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-27 21:54:02.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.601][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-27 21:54:02.602][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-27 21:54:02.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.606][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[2023-02-27 21:54:02.608][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-27 21:54:02.609][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-27 21:54:02.613][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-27 21:54:02.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.618][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-27 21:54:02.620][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-27 21:54:02.621][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-27 21:54:02.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.627][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-27 21:54:02.629][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.631][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-27 21:54:02.632][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.634][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:02.635][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.636][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.646][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.647][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.649][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-27 21:54:02.650][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:02.651][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.653][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-27 21:54:02.654][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:02.656][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.657][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.658][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:54:02.658][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:54:02.658][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:54:02.658][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-27 21:54:02.658][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-27 21:54:02.660][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:02.661][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:02.663][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:02.664][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:02.665][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:02.667][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:02.668][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.669][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.671][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:02.672][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:02.673][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.675][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.676][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-27 21:54:02.679][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.680][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-27 21:54:02.682][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.683][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:02.685][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.686][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.687][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.689][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.690][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-27 21:54:02.692][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:02.693][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.695][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-27 21:54:02.696][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:02.697][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.699][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.700][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:54:02.700][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:54:02.700][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:54:02.700][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-27 21:54:02.700][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-27 21:54:02.702][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:02.703][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:02.704][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:02.706][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:02.707][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:02.709][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:02.710][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.711][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.713][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:02.714][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:02.715][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.717][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.718][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-27 21:54:02.721][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.722][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-02-27 21:54:02.724][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.725][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:02.727][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.728][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.729][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.731][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.732][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-27 21:54:02.734][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:02.735][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.737][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-27 21:54:02.738][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:02.739][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.741][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.742][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.744][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:02.745][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:02.746][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:02.748][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:02.749][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:02.750][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:02.752][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.753][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.754][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:02.756][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:02.757][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.758][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.760][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-27 21:54:02.762][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.764][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-27 21:54:02.765][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.767][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:02.768][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.769][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.771][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.772][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.774][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-27 21:54:02.775][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:02.776][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.778][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-27 21:54:02.779][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:02.781][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.782][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:02.784][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.785][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-27 21:54:02.786][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:02.788][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:02.789][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:02.791][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:02.792][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:02.793][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:02.795][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.796][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:02.797][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:02.799][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:02.800][self$setPropertyValue]
biodb.DEBUG[2023-02-27 21:54:02.802][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:54:02.803][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.804][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.DEBUG[2023-02-27 21:54:02.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.823][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[2023-02-27 21:54:02.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.880][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[2023-02-27 21:54:02.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.906][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[2023-02-27 21:54:02.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:02.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:02.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:02.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:02.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:02.913][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-27 21:54:02.915][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-27 21:54:02.917][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-27 21:54:02.919][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-27 21:54:02.921][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-27 21:54:02.923][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-27 21:54:02.925][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-27 21:54:02.927][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-27 21:54:02.929][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-27 21:54:02.931][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-27 21:54:02.933][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-27 21:54:02.935][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-27 21:54:02.937][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-27 21:54:02.939][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-27 21:54:02.941][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-27 21:54:02.943][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-27 21:54:02.945][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-27 21:54:02.947][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-27 21:54:02.948][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-27 21:54:02.950][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-27 21:54:02.952][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-27 21:54:02.954][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-27 21:54:02.956][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-27 21:54:02.958][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-27 21:54:02.960][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-27 21:54:02.962][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-27 21:54:02.964][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-27 21:54:02.966][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-27 21:54:02.968][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-27 21:54:02.970][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-27 21:54:02.972][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-27 21:54:02.974][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-27 21:54:02.976][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-27 21:54:02.978][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-27 21:54:02.980][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-27 21:54:02.981][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-27 21:54:02.983][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-27 21:54:02.985][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-27 21:54:02.987][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-27 21:54:02.989][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-27 21:54:02.991][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-27 21:54:02.993][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-27 21:54:02.995][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-27 21:54:02.997][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-27 21:54:02.999][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-27 21:54:03.001][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-27 21:54:03.003][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-27 21:54:03.005][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-27 21:54:03.007][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-27 21:54:03.009][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-27 21:54:03.011][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-27 21:54:03.013][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-27 21:54:03.015][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-27 21:54:03.016][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-27 21:54:03.018][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-27 21:54:03.020][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-27 21:54:03.022][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-27 21:54:03.024][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-27 21:54:03.026][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-27 21:54:03.028][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-27 21:54:03.030][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-27 21:54:03.032][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-27 21:54:03.034][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-27 21:54:03.036][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-27 21:54:03.038][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-27 21:54:03.040][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-27 21:54:03.042][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-27 21:54:03.043][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-27 21:54:03.053][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-27 21:54:03.055][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-27 21:54:03.057][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-27 21:54:03.059][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-27 21:54:03.061][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-27 21:54:03.063][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-27 21:54:03.065][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-27 21:54:03.067][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-27 21:54:03.069][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-27 21:54:03.071][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-27 21:54:03.073][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-27 21:54:03.075][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-27 21:54:03.076][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-27 21:54:03.078][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-27 21:54:03.080][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-27 21:54:03.082][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-27 21:54:03.084][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-27 21:54:03.086][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-27 21:54:03.087][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.089][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.116][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[2023-02-27 21:54:03.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.125][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.DEBUG[2023-02-27 21:54:03.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.194][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[2023-02-27 21:54:03.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-27 21:54:03.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-27 21:54:03.240][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-02-27 21:54:03.242][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-02-27 21:54:03.244][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:03.246][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-27 21:54:03.247][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:03.249][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-27 21:54:03.250][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:03.251][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-27 21:54:03.253][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:03.254][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-02-27 21:54:03.256][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-27 21:54:03.257][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-27 21:54:03.259][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:03.260][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-02-27 21:54:03.262][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-02-27 21:54:03.263][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-02-27 21:54:03.265][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-27 21:54:03.266][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-27 21:54:03.266][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-27 21:54:03.266][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-27 21:54:03.268][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-27 21:54:03.269][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:03.270][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:03.272][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-27 21:54:03.273][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-27 21:54:03.274][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-27 21:54:03.276][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-27 21:54:03.277][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-02-27 21:54:03.277][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-02-27 21:54:03.279][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-27 21:54:03.280][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-27 21:54:03.281][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-27 21:54:03.283][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-02-27 21:54:03.283][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-02-27 21:54:03.285][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-27 21:54:03.287][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-27 21:54:03.289][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-02-27 21:54:03.291][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-27 21:54:03.294][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-27 21:54:03.296][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-27 21:54:03.301][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-02-27 21:54:03.302][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-02-27 21:54:03.304][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-02-27 21:54:03.306][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-02-27 21:54:03.308][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-27 21:54:03.309][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-27 21:54:03.311][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-02-27 21:54:03.313][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-02-27 21:54:03.315][biodb::testThat]
biodb.INFO [2023-02-27 21:54:03.316][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2023-02-27 21:54:03.317][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-27 21:54:03.319][biodb::testThat]
biodb.DEBUG[2023-02-27 21:54:03.323][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-02-27 21:54:03.328][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:03.330][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-02-27 21:54:03.332][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:03.334][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-02-27 21:54:03.346][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-02-27 21:54:03.351][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-02-27 21:54:03.353][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2023-02-27 21:54:03.355][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:03.358][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2023-02-27 21:54:03.364][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2023-02-27 21:54:03.366][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-02-27 21:54:03.368][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2023-02-27 21:54:03.370][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-27 21:54:03.374][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2023-02-27 21:54:03.375][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-02-27 21:54:03.400][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-02-27 21:54:03.402][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-02-27 21:54:03.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-27 21:54:03.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-27 21:54:03.425][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:03.426][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:03.428][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.429][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:03.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:03.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.442][ef$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:54:03.444][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:54:03.445][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.447][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-02-27 21:54:03.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-02-27 21:54:03.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.459][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:54:03.461][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:54:03.462][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.464][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.466][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-27 21:54:03.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-27 21:54:03.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.476][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-27 21:54:03.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-27 21:54:03.480][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.481][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.483][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-27 21:54:03.485][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-27 21:54:03.486][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.488][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.490][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:54:03.506][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:54:03.508][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.509][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.512][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:54:03.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-27 21:54:03.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.522][ef$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:54:03.524][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:54:03.525][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.526][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.528][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-02-27 21:54:03.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-02-27 21:54:03.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.538][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:54:03.540][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:54:03.541][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.543][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:54:03.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-27 21:54:03.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.554][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:54:03.556][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:54:03.557][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.559][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-27 21:54:03.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-27 21:54:03.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.571][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:54:03.573][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:54:03.574][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.575][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.577][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-02-27 21:54:03.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-02-27 21:54:03.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.587][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:54:03.589][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:54:03.590][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.591][ef$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.593][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-27 21:54:03.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-27 21:54:03.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:54:03.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:54:03.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:54:03.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:54:03.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:03.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:03.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-27 21:54:03.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-27 21:54:03.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:03.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:03.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:03.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:03.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:03.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:03.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:03.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:03.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:03.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:03.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-27 21:54:03.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-27 21:54:03.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-27 21:54:03.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-27 21:54:03.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-27 21:54:03.667][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2023-02-27 21:54:03.669][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-27 21:54:03.671][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-02-27 21:54:03.672][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-02-27 21:54:03.674][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-27 21:54:03.675][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-27 21:54:03.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-27 21:54:03.677][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-27 21:54:03.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-27 21:54:03.680][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-27 21:54:03.681][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 340 ]
>
> proc.time()
user system elapsed
22.466 0.780 33.301
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 2.952 | 0.244 | 5.666 | |
| ChebiEntry | 0.518 | 0.001 | 0.520 | |