Package: mogsa

Version: 1.17.5

Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:mogsa.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings mogsa_1.17.5.tar.gz

StartedAt: 2019-04-09 02:07:51 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 02:12:02 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 250.8 seconds

RetCode: 0

Status:  OK

CheckDir: mogsa.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:mogsa.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings mogsa_1.17.5.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/mogsa.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* 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 ‘1.17.5’
* 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
prepSupMoa   50.685  0.100  51.467
prepGraphite 47.875  0.605  49.304
* 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-3.9-bioc/R/bin/R CMD INSTALL mogsa
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘mogsa’ ...
** 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 (mogsa)

name	user	system	elapsed
GIS	0.593	0.008	0.610
annotate.gs	0.514	0.004	0.544
bootMbpca	0	0	0
bootMoa	0	0	0
box.gs.feature	0.247	0.008	0.255
combine-methods	0.254	0.004	0.260
decompose.gs.group	0.165	0.000	0.167
decompose.gs.ind	0.143	0.004	0.149
distMoa	0.751	0.000	0.762
getmgsa	0.126	0.000	0.129
matpower	0.001	0.000	0.001
mbpca	3.632	0.013	3.685
mgsa-class	0.607	0.006	0.614
moGap	3.326	0.012	3.407
moa-class	0.116	0.004	0.136
moa	0.733	0.020	0.784
moa.sup-class	0.137	0.007	0.145
moaCoef	0.418	0.000	0.422
moaScore	0.418	0.003	0.429
mogsa-package	0.666	0.004	0.703
mogsa	0.390	0.000	0.395
pairwise.rv	0.009	0.004	0.013
plotGS	0.149	0.004	0.154
prepGraphite	47.875	0.605	49.304
prepMsigDB	0.003	0.002	0.019
prepSupMoa	50.685	0.100	51.467
softK	0	0	0
sup.moa	0.388	0.008	0.397
wsvd	0.002	0.000	0.001