Package: goProfiles

Version: 1.45.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:goProfiles.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings goProfiles_1.45.0.tar.gz

StartedAt: 2019-04-09 01:17:00 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 01:20:09 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 188.3 seconds

RetCode: 0

Status:  OK

CheckDir: goProfiles.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:goProfiles.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings goProfiles_1.45.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/goProfiles.Rcheck’
* using R Under development (unstable) (2018-11-27 r75683)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘goProfiles/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘goProfiles’ version ‘1.45.0’
* 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 ‘goProfiles’ 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 data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
compareGeneLists     28.913  0.251  29.311
equivalentGOProfiles 22.588  0.287  22.959
fisherGOProfiles      7.361  0.101   7.566
printProfiles         6.619  0.082   6.719
mergeProfilesLists    6.512  0.075   6.665
plotProfiles          6.063  0.078   6.183
compareGOProfiles     5.337  0.082   5.475
* 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

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL goProfiles
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘goProfiles’ ...
** R
** data
** 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
* DONE (goProfiles)

name	user	system	elapsed
CD4ids	0.003	0.001	0.004
GOTermsList	0.001	0.000	0.000
basicProfile	4.020	0.192	4.249
compSummary	0.001	0.000	0.001
compareGOProfiles	5.337	0.082	5.475
compareGeneLists	28.913	0.251	29.311
compareProfilesLists	0	0	0
contractedProfile	2.838	0.022	2.866
conversionFunctions	0.047	0.004	0.051
drosophila	0.003	0.002	0.005
equivClust	0.000	0.000	0.001
equivClust2pdf	0.031	0.003	0.034
equivSummary	0.001	0.000	0.000
equivalentGOProfiles	22.588	0.287	22.959
expandedLevel	1.161	0.034	1.199
expandedProfile	1.153	0.014	1.184
fisherGOProfiles	7.361	0.101	7.566
fitGOProfile	0.000	0.000	0.001
hugoIds	0.016	0.002	0.017
iterEquivClust	0	0	0
mergeProfilesLists	6.512	0.075	6.665
ngenes	2.489	0.020	2.524
omimIds	0.009	0.001	0.010
plotProfiles	6.063	0.078	6.183
printProfiles	6.619	0.082	6.719
prostateIds	0.007	0.001	0.009