BioC 3.4: CHECK report for ReactomePA on moscato1

Package: ReactomePA

Version: 1.17.4

Command: rm -rf ReactomePA.buildbin-libdir ReactomePA.Rcheck && mkdir ReactomePA.buildbin-libdir ReactomePA.Rcheck && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ReactomePA.buildbin-libdir ReactomePA_1.17.4.tar.gz >ReactomePA.Rcheck\00install.out 2>&1 && cp ReactomePA.Rcheck\00install.out ReactomePA-install.out && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD check --library=ReactomePA.buildbin-libdir --install="check:ReactomePA-install.out" --force-multiarch --no-vignettes --timings ReactomePA_1.17.4.tar.gz

StartedAt: 2016-09-20 15:01:11 -0700 (Tue, 20 Sep 2016)

EndedAt: 2016-09-20 15:04:08 -0700 (Tue, 20 Sep 2016)

EllapsedTime: 176.3 seconds

RetCode: 0

Status:  OK

CheckDir: ReactomePA.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf ReactomePA.buildbin-libdir ReactomePA.Rcheck && mkdir ReactomePA.buildbin-libdir ReactomePA.Rcheck && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ReactomePA.buildbin-libdir ReactomePA_1.17.4.tar.gz >ReactomePA.Rcheck\00install.out 2>&1 && cp ReactomePA.Rcheck\00install.out ReactomePA-install.out  && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD check --library=ReactomePA.buildbin-libdir --install="check:ReactomePA-install.out" --force-multiarch --no-vignettes --timings ReactomePA_1.17.4.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.4-bioc/meat/ReactomePA.Rcheck'
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ReactomePA/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ReactomePA' version '1.17.4'
* 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 'ReactomePA' 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' ... OK
Examples with CPU or elapsed time > 5s
              user system elapsed
enrichPathway 12.7   0.17   25.81
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
               user system elapsed
enrichPathway 14.06   0.42   14.48
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 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 'ReactomePA' ...
** R
** 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

install for x64

* installing *source* package 'ReactomePA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ReactomePA' as ReactomePA_1.17.4.zip
* DONE (ReactomePA)

name	user	system	elapsed
enrichPathway	12.70	0.17	25.81

name	user	system	elapsed
enrichPathway	14.06	0.42	14.48