BioC 2.12: CHECK report for yaqcaffy on moscato2

Package: yaqcaffy

Version: 1.20.0

Command: rm -rf yaqcaffy.buildbin-libdir && mkdir yaqcaffy.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=yaqcaffy.buildbin-libdir yaqcaffy_1.20.0.tar.gz >yaqcaffy-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=yaqcaffy.buildbin-libdir --install="check:yaqcaffy-install.out" --force-multiarch --no-vignettes --timings yaqcaffy_1.20.0.tar.gz && mv yaqcaffy.buildbin-libdir/* yaqcaffy.Rcheck/ && rmdir yaqcaffy.buildbin-libdir

StartedAt: 2013-10-09 04:36:50 -0700 (Wed, 09 Oct 2013)

EndedAt: 2013-10-09 04:42:12 -0700 (Wed, 09 Oct 2013)

EllapsedTime: 322.0 seconds

RetCode: 0

Status: OK

CheckDir: yaqcaffy.Rcheck

Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/yaqcaffy.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'yaqcaffy/DESCRIPTION' ... OK
* this is package 'yaqcaffy' version '1.20.0'
* 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 'yaqcaffy' 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' ... [75s] OK
Examples with CPU or elapsed time > 5s
             user system elapsed
getOutliers 31.97   0.44   32.62
getAllInt   12.46   0.22   12.68
getQCRatios  7.43   0.11    7.53
yaqc.plot    7.10   0.08    7.19
yaqc.affy    7.00   0.06    7.07
** running examples for arch 'x64' ... [76s] OK
Examples with CPU or elapsed time > 5s
             user system elapsed
getOutliers 32.26   0.41   32.67
getAllInt   13.21   0.15   13.37
yaqc.plot    7.21   0.22    7.43
yaqc.affy    7.25   0.09    7.34
getQCRatios  7.13   0.17    7.32
* 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 'yaqcaffy' ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'summary' from package 'base' in package 'yaqcaffy'
Creating a generic function for 'merge' from package 'base' in package 'yaqcaffy'
Creating a generic function for 'identical' from package 'base' in package 'yaqcaffy'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'yaqcaffy' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'yaqcaffy' as yaqcaffy_1.20.0.zip
* DONE (yaqcaffy)

BioC 2.12: CHECK report for yaqcaffy on moscato2

Summary

Command output