Package: goProfiles

Version: 1.44.0

Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:goProfiles.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings goProfiles_1.44.0.tar.gz

StartedAt: 2019-04-16 00:21:37 -0400 (Tue, 16 Apr 2019)

EndedAt: 2019-04-16 00:24:41 -0400 (Tue, 16 Apr 2019)

EllapsedTime: 183.2 seconds

RetCode: 0

Status:  OK

CheckDir: goProfiles.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:goProfiles.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings goProfiles_1.44.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.8-bioc/meat/goProfiles.Rcheck’
* using R version 3.5.3 (2019-03-11)
* 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 ‘1.44.0’
* 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     29.460  0.068  29.787
equivalentGOProfiles 20.824  0.072  21.072
fisherGOProfiles      7.852  0.016   7.990
printProfiles         7.084  0.008   7.118
mergeProfilesLists    6.868  0.024   6.959
plotProfiles          6.736  0.008   6.770
compareGOProfiles     5.452  0.012   5.624
basicProfile          4.584  0.128   5.172
* 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-3.8-bioc/R/bin/R CMD INSTALL goProfiles
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* installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/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	0.004	0.000	0.004
GOTermsList	0.000	0.000	0.001
basicProfile	4.584	0.128	5.172
compSummary	0	0	0
compareGOProfiles	5.452	0.012	5.624
compareGeneLists	29.460	0.068	29.787
compareProfilesLists	0	0	0
contractedProfile	2.796	0.000	2.823
conversionFunctions	0.044	0.000	0.047
drosophila	0.004	0.000	0.003
equivClust	0.000	0.000	0.001
equivClust2pdf	0.028	0.000	0.029
equivSummary	0	0	0
equivalentGOProfiles	20.824	0.072	21.072
expandedLevel	0.964	0.000	0.973
expandedProfile	1.244	0.004	1.249
fisherGOProfiles	7.852	0.016	7.990
fitGOProfile	0	0	0
hugoIds	0.024	0.000	0.022
iterEquivClust	0	0	0
mergeProfilesLists	6.868	0.024	6.959
ngenes	2.876	0.004	2.886
omimIds	0.008	0.000	0.009
plotProfiles	6.736	0.008	6.770
printProfiles	7.084	0.008	7.118
prostateIds	0.008	0.000	0.007