Package: cnvGSA

Version: 1.3.0

Command: rm -rf cnvGSA.buildbin-libdir && mkdir cnvGSA.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=cnvGSA.buildbin-libdir cnvGSA_1.3.0.tar.gz >cnvGSA-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=cnvGSA.buildbin-libdir --install="check:cnvGSA-install.out" --force-multiarch --no-vignettes --timings cnvGSA_1.3.0.tar.gz && mv cnvGSA.buildbin-libdir/* cnvGSA.Rcheck/ && rmdir cnvGSA.buildbin-libdir

StartedAt: 2013-03-25 01:50:21 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 01:52:51 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 149.5 seconds

RetCode: 0

Status:  OK

CheckDir: cnvGSA.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/cnvGSA.Rcheck'
* using R version 3.0.0 beta (2013-03-19 r62328)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'cnvGSA/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'cnvGSA' version '1.3.0'
* 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 whether package 'cnvGSA' can be installed ... OK
* checking installed package size ... OK
* checking package 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 for unstated 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 ... NOTE
f.add_binned_bhfdr: no visible binding for global variable 'GsSize'
* 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 examples ...
** running examples for arch 'i386' ... [53s] OK
Examples with CPU or elapsed time > 5s
              user system elapsed
cnvGSAFisher 38.72   0.47    39.4
getCnvGenes   5.10   0.05     5.7
** running examples for arch 'x64' ... [66s] OK
Examples with CPU or elapsed time > 5s
              user system elapsed
cnvGSAFisher 52.97   0.46   53.43
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  'E:/biocbld/bbs-2.12-bioc/meat/cnvGSA.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'cnvGSA' ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'summary' from package 'base' in package 'cnvGSA'
** help
*** installing help indices
** building package indices
** installing vignettes
   'cnvGSA-vignette.Rnw' 
** testing if installed package can be loaded

install for x64

* installing *source* package 'cnvGSA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'cnvGSA' as cnvGSA_1.3.0.zip
* DONE (cnvGSA)