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BioC 2.14: CHECK report for affycoretools on moscato2

This page was generated on 2014-10-08 08:51:23 -0700 (Wed, 08 Oct 2014).

Package 18/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
affycoretools 1.36.1
James W. MacDonald
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/affycoretools
Last Changed Rev: 91415 / Revision: 95116
Last Changed Date: 2014-06-15 12:18:18 -0700 (Sun, 15 Jun 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK [ OK ] OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK 

Summary

Package: affycoretools
Version: 1.36.1
Command: rm -rf affycoretools.buildbin-libdir && mkdir affycoretools.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=affycoretools.buildbin-libdir affycoretools_1.36.1.tar.gz >affycoretools-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=affycoretools.buildbin-libdir --install="check:affycoretools-install.out" --force-multiarch --no-vignettes --timings affycoretools_1.36.1.tar.gz
StartedAt: 2014-10-07 22:27:26 -0700 (Tue, 07 Oct 2014)
EndedAt: 2014-10-07 22:38:06 -0700 (Tue, 07 Oct 2014)
EllapsedTime: 639.7 seconds
RetCode: 0
Status:  OK  
CheckDir: affycoretools.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf affycoretools.buildbin-libdir && mkdir affycoretools.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=affycoretools.buildbin-libdir affycoretools_1.36.1.tar.gz >affycoretools-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=affycoretools.buildbin-libdir --install="check:affycoretools-install.out" --force-multiarch --no-vignettes --timings affycoretools_1.36.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-2.14-bioc/meat/affycoretools.Rcheck'
* using R version 3.1.1 (2014-07-10)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'affycoretools/DESCRIPTION' ... OK
* this is package 'affycoretools' version '1.36.1'
* 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 'affycoretools' 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' ... [33s] OK
Examples with CPU or elapsed time > 5s
         user system elapsed
plotDeg 12.04   0.08   12.14
** running examples for arch 'x64' ... [42s] OK
Examples with CPU or elapsed time > 5s
         user system elapsed
plotDeg 12.81   0.14   12.98
* 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

affycoretools.Rcheck/00install.out:


install for i386

* installing *source* package 'affycoretools' ...
** 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 'affycoretools' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'affycoretools' as affycoretools_1.36.1.zip
* DONE (affycoretools)

affycoretools.Rcheck/examples_i386/affycoretools-Ex.timings:

nameusersystemelapsed
annBM000
entrezLinks000
makeVenn000
plotDeg12.04 0.0812.14
plotPCA0.050.000.04
vennCounts20.060.000.07
vennPage000

affycoretools.Rcheck/examples_x64/affycoretools-Ex.timings:

nameusersystemelapsed
annBM000
entrezLinks000
makeVenn000
plotDeg12.81 0.1412.98
plotPCA0.030.000.03
vennCounts20.090.000.09
vennPage000