Package: goProfiles

Version: 1.48.0

Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:goProfiles.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings goProfiles_1.48.0.tar.gz

StartedAt: 2020-04-15 00:30:35 -0400 (Wed, 15 Apr 2020)

EndedAt: 2020-04-15 00:33:22 -0400 (Wed, 15 Apr 2020)

EllapsedTime: 167.7 seconds

RetCode: 0

Status:  OK

CheckDir: goProfiles.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:goProfiles.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings goProfiles_1.48.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/goProfiles.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-pc-linux-gnu (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 ‘1.48.0’
* 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 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     23.276  0.032  23.344
equivalentGOProfiles 17.056  0.020  17.200
fisherGOProfiles      6.640  0.044   6.690
plotProfiles          6.124  0.008   6.143
mergeProfilesLists    5.940  0.008   5.956
printProfiles         5.528  0.004   5.546
* 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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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL goProfiles
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* installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’
* installing *source* package ‘goProfiles’ ...
** using staged installation
** 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 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 (goProfiles)

name	user	system	elapsed
CD4ids	0.004	0.000	0.003
GOTermsList	0.000	0.000	0.001
basicProfile	4.132	0.124	4.264
compSummary	0	0	0
compareGOProfiles	4.376	0.020	4.398
compareGeneLists	23.276	0.032	23.344
compareProfilesLists	0.000	0.000	0.001
contractedProfile	2.472	0.000	2.494
conversionFunctions	0.040	0.004	0.043
drosophila	0.004	0.000	0.003
equivClust	0	0	0
equivClust2pdf	0.028	0.004	0.030
equivSummary	0	0	0
equivalentGOProfiles	17.056	0.020	17.200
expandedLevel	0.900	0.004	0.972
expandedProfile	1.196	0.000	1.198
fisherGOProfiles	6.640	0.044	6.690
fitGOProfile	0	0	0
hugoIds	0.024	0.000	0.026
iterEquivClust	0.000	0.000	0.001
mergeProfilesLists	5.940	0.008	5.956
ngenes	2.528	0.012	2.549
omimIds	0.008	0.000	0.009
plotProfiles	6.124	0.008	6.143
printProfiles	5.528	0.004	5.546
prostateIds	0.004	0.000	0.004