BioC 3.2: CHECK report for mogsa on zin1

Package: mogsa

Version: 1.2.1

Command: /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings mogsa_1.2.1.tar.gz

StartedAt: 2016-04-23 03:04:53 -0700 (Sat, 23 Apr 2016)

EndedAt: 2016-04-23 03:07:07 -0700 (Sat, 23 Apr 2016)

EllapsedTime: 133.6 seconds

RetCode: 0

Status:  OK

CheckDir: mogsa.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings mogsa_1.2.1.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.2-bioc/meat/mogsa.Rcheck’
* using R version 3.2.4 Revised (2016-03-16 r70336)
* 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 ‘1.2.1’
* 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 ... [10s/10s] 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 loading without being on the library search path ... 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 ... [19s/22s] OK
* 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

* installing *source* package ‘mogsa’ ...
** R
** data
** inst
** preparing 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	0.755	0.004	0.779
annotate.gs	0.369	0.004	0.376
bootMbpca	0.000	0.000	0.001
box.gs.feature	0.248	0.000	0.247
combine-methods	0.454	0.008	0.461
decompose.gs.group	0.387	0.000	0.387
decompose.gs.ind	0.158	0.000	0.157
distMoa	0.545	0.000	0.544
getmgsa	0.367	0.000	0.366
matpower	0.001	0.000	0.001
mbpca	3.838	0.000	3.836
mgsa-class	0.504	0.000	0.504
moGap	1.742	0.000	2.418
moa-class	0.100	0.000	0.136
moa	0.152	0.000	0.320
moa.sup-class	0.127	0.000	0.187
moaCoef	0.389	0.004	0.662
moaScore	0.391	0.000	0.427
mogsa-package	0.728	0.004	1.167
mogsa	0.483	0.012	0.685
pairwise.rv	0.019	0.000	0.031
plotGS	0.146	0.000	0.290
prepGraphite	0.105	0.008	0.222
prepMsigDB	0.004	0.000	0.003
prepSupMoa	1.235	0.004	2.148
softK	0.001	0.000	0.000
sup.moa	0.392	0.004	0.589
wsvd	0.002	0.000	0.006