Multiple platform build/check report for BioC 3.14 - CHECK results for geneClassifiers on machv2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 20.04.4 LTS)	x86_64	4.1.3 (2022-03-10) -- "One Push-Up"	4324
tokay2	Windows Server 2012 R2 Standard	x64	4.1.3 (2022-03-10) -- "One Push-Up"	4077
machv2	macOS 10.14.6 Mojave	x86_64	4.1.3 (2022-03-10) -- "One Push-Up"	4137
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*

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:geneClassifiers.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings geneClassifiers_1.18.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/geneClassifiers.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘geneClassifiers/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘geneClassifiers’ version ‘1.18.0’
* 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 ‘geneClassifiers’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL geneClassifiers
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’
* installing *source* package ‘geneClassifiers’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (geneClassifiers)

Tests output


R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(geneClassifiers)
> 
> test_check("geneClassifiers")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 191 ]
> 
> proc.time()
   user  system elapsed 
  5.141   0.180   5.300

Example timings

name	user	system	elapsed
bracket-methods	0.034	0.008	0.041
dim-methods	0.015	0.004	0.019
getBatchCorrection-methods	0.387	0.019	0.406
getCitations-methods	0.002	0.001	0.002
getClassifications-methods	0.035	0.002	0.037
getClassifier-methods	0.003	0.001	0.004
getDecisionBoundaries-methods	0.003	0.000	0.004
getDescription-methods	0.003	0.001	0.002
getEventChain-methods	0.003	0.001	0.003
getIntercept-methods	0.003	0.001	0.003
getMeans-methods	0.003	0.003	0.006
getName-methods	0.003	0.000	0.003
getNormalizationMethod-methods	0.049	0.005	0.055
getProbeNames-methods	0.002	0.001	0.003
getScores-methods	0.023	0.003	0.026
getSds-methods	0.002	0.002	0.003
getTargetValue-methods	0.013	0.002	0.015
getTrainingData-methods	0.061	0.002	0.062
getWeightingType-methods	0.028	0.000	0.029
getWeights-methods	0.004	0.003	0.006
runClassifier-methods	0.038	0.003	0.042
setNormalizationMethod-methods	0.035	0.004	0.039
showClassifierList-methods	0.026	0.002	0.028

CHECK results for geneClassifiers on machv2

Summary

Command output

Installation output

Tests output

Example timings