Package: mogsa

Version: 1.14.0

Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:mogsa.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings mogsa_1.14.0.tar.gz

StartedAt: 2018-10-16 02:06:53 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 02:08:53 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 119.7 seconds

RetCode: 0

Status:  OK

CheckDir: mogsa.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:mogsa.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings mogsa_1.14.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.7-bioc/meat/mogsa.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘mogsa/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘mogsa’ version ‘1.14.0’
* 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 ‘mogsa’ 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
              user system elapsed
prepGraphite 5.984  0.508   6.499
* 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-3.7-bioc/R/bin/R CMD INSTALL mogsa
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* installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’
* installing *source* package ‘mogsa’ ...
** 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 (mogsa)

name	user	system	elapsed
GIS	0.568	0.008	0.576
annotate.gs	0.432	0.012	0.444
bootMbpca	0.000	0.000	0.001
box.gs.feature	0.188	0.000	0.187
combine-methods	0.180	0.004	0.184
decompose.gs.group	0.120	0.004	0.124
decompose.gs.ind	0.116	0.000	0.113
distMoa	0.224	0.008	0.234
getmgsa	0.100	0.000	0.102
matpower	0.004	0.000	0.001
mbpca	2.680	0.028	2.711
mgsa-class	0.172	0.028	0.201
moGap	0.984	0.004	0.991
moa-class	0.076	0.004	0.077
moa	0.108	0.000	0.107
moa.sup-class	0.092	0.000	0.092
moaCoef	0.264	0.004	0.269
moaScore	0.272	0.000	0.274
mogsa-package	0.200	0.000	0.197
mogsa	0.196	0.000	0.197
pairwise.rv	0.012	0.000	0.011
plotGS	0.104	0.000	0.105
prepGraphite	5.984	0.508	6.499
prepMsigDB	0.004	0.000	0.016
prepSupMoa	2.680	0.108	2.791
softK	0	0	0
sup.moa	0.264	0.000	0.268
wsvd	0.000	0.000	0.001