BioC 3.2: CHECK report for npGSEA on moscato1

Package: npGSEA

Version: 1.5.1

Command: rm -rf npGSEA.buildbin-libdir npGSEA.Rcheck && mkdir npGSEA.buildbin-libdir npGSEA.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=npGSEA.buildbin-libdir npGSEA_1.5.1.tar.gz >npGSEA.Rcheck\00install.out 2>&1 && cp npGSEA.Rcheck\00install.out npGSEA-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=npGSEA.buildbin-libdir --install="check:npGSEA-install.out" --force-multiarch --no-vignettes --timings npGSEA_1.5.1.tar.gz

StartedAt: 2015-08-20 08:07:55 -0700 (Thu, 20 Aug 2015)

EndedAt: 2015-08-20 08:10:28 -0700 (Thu, 20 Aug 2015)

EllapsedTime: 153.1 seconds

RetCode: 0

Status:  OK

CheckDir: npGSEA.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf npGSEA.buildbin-libdir npGSEA.Rcheck && mkdir npGSEA.buildbin-libdir npGSEA.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=npGSEA.buildbin-libdir npGSEA_1.5.1.tar.gz >npGSEA.Rcheck\00install.out 2>&1 && cp npGSEA.Rcheck\00install.out npGSEA-install.out  && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=npGSEA.buildbin-libdir --install="check:npGSEA-install.out" --force-multiarch --no-vignettes --timings npGSEA_1.5.1.tar.gz
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* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/npGSEA.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'npGSEA/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'npGSEA' version '1.5.1'
* 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 whether package 'npGSEA' 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [5s] OK
** running examples for arch 'x64' ... [6s] 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

install for i386

* installing *source* package 'npGSEA' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'npGSEA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'npGSEA' as npGSEA_1.5.1.zip
* DONE (npGSEA)

name	user	system	elapsed
DF-methods	0.03	0.00	0.03
alphaValue-methods	0.02	0.00	0.01
betaHats-methods	0.01	0.00	0.02
betaStat-methods	0	0	0
betaValue-methods	0	0	0
chiSqStat-methods	0.01	0.00	0.02
geneSetName-methods	0.02	0.00	0.02
getIncidence	0	0	0
npGSEA	0.02	0.00	0.01
npGSEAPlot-methods	0	0	0
npGSEAResultBeta-class	0	0	0
npGSEAResultBetaCollection-class	0.01	0.00	0.02
npGSEAResultChiSq-class	0	0	0
npGSEAResultChiSqCollection-class	0	0	0
npGSEAResultNorm-class	0	0	0
npGSEAResultNormCollection-class	0	0	0
pLeft-methods	0.02	0.00	0.01
pRight-methods	0	0	0
pTwoSided-methods	0.01	0.00	0.02
pValues-methods	0	0	0
show-methods	0.02	0.00	0.01
sigmaSq-methods	0	0	0
stat-methods	0.01	0.00	0.02
xSet-methods	0.02	0.00	0.02
zStat-methods	0	0	0

name	user	system	elapsed
DF-methods	0.06	0.00	0.07
alphaValue-methods	0.03	0.00	0.03
betaHats-methods	0.02	0.00	0.01
betaStat-methods	0.01	0.01	0.04
betaValue-methods	0.02	0.00	0.01
chiSqStat-methods	0.04	0.00	0.03
geneSetName-methods	0.02	0.00	0.02
getIncidence	0	0	0
npGSEA	0	0	0
npGSEAPlot-methods	0.02	0.00	0.02
npGSEAResultBeta-class	0	0	0
npGSEAResultBetaCollection-class	0.01	0.00	0.02
npGSEAResultChiSq-class	0	0	0
npGSEAResultChiSqCollection-class	0	0	0
npGSEAResultNorm-class	0	0	0
npGSEAResultNormCollection-class	0	0	0
pLeft-methods	0.02	0.00	0.01
pRight-methods	0.02	0.00	0.02
pTwoSided-methods	0.01	0.00	0.01
pValues-methods	0.02	0.00	0.02
show-methods	0	0	0
sigmaSq-methods	0	0	0
stat-methods	0.00	0.02	0.02
xSet-methods	0.02	0.00	0.01
zStat-methods	0.01	0.00	0.02