Package: DEXSeq

Version: 1.5.9

Command: rm -rf DEXSeq.buildbin-libdir && mkdir DEXSeq.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DEXSeq.buildbin-libdir DEXSeq_1.5.9.tar.gz >DEXSeq-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=DEXSeq.buildbin-libdir --install="check:DEXSeq-install.out" --force-multiarch --no-vignettes --timings DEXSeq_1.5.9.tar.gz && mv DEXSeq.buildbin-libdir/* DEXSeq.Rcheck/ && rmdir DEXSeq.buildbin-libdir

StartedAt: 2013-03-25 02:00:54 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 02:06:57 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 362.8 seconds

RetCode: 0

Status:  OK

CheckDir: DEXSeq.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/DEXSeq.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 'DEXSeq/DESCRIPTION' ... OK
* this is package 'DEXSeq' version '1.5.9'
* 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 'DEXSeq' 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 ... 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 examples ...
** running examples for arch 'i386' ... [95s] OK
Examples with CPU or elapsed time > 5s
                         user system elapsed
read.HTSeqCounts        26.41   0.24   26.89
estimateDispersionsTRT  18.57   0.01   18.58
makeCompleteDEUAnalysis 14.54   0.00   14.54
estimateDispersions     10.36   0.13   10.48
fitDispersionFunction    8.94   0.00    8.94
testGeneForDEU           8.27   0.01    8.28
** running examples for arch 'x64' ... [101s] OK
Examples with CPU or elapsed time > 5s
                         user system elapsed
read.HTSeqCounts        27.83   0.19   28.02
estimateDispersionsTRT  19.26   0.00   19.27
makeCompleteDEUAnalysis 15.68   0.00   15.68
estimateDispersions     11.48   0.09   11.60
fitDispersionFunction    9.05   0.00    9.04
testGeneForDEU           8.74   0.00    8.74
* 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

install for i386

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

install for x64

* installing *source* package 'DEXSeq' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DEXSeq' as DEXSeq_1.5.9.zip
* DONE (DEXSeq)