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Package 140/479HostnameOS / ArchBUILDCHECKBUILD BIN
edgeR 2.3.29
Mark Robinson , Davis McCarthy , Gordon Smyth
Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/edgeR
Last Changed Rev: 56416 / Revision: 56603
Last Changed Date: 2011-06-27 01:21:02 -0700 (Mon, 27 Jun 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise (64-bit) / x64  OK [ OK ] OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: edgeR
Version: 2.3.29
Command: mkdir edgeR.buildbin-libdir && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=edgeR.buildbin-libdir edgeR_2.3.29.tar.gz >edgeR-install.out 2>&1 && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --library=edgeR.buildbin-libdir --install="check:edgeR-install.out" --force-multiarch --no-vignettes --timings edgeR_2.3.29.tar.gz && mv edgeR.buildbin-libdir/* edgeR.Rcheck/ && rmdir edgeR.buildbin-libdir
StartedAt: 2011-07-07 04:50:19 -0700 (Thu, 07 Jul 2011)
EndedAt: 2011-07-07 04:52:10 -0700 (Thu, 07 Jul 2011)
EllapsedTime: 111.0 seconds
RetCode: 0
Status:  OK  
CheckDir: edgeR.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/edgeR.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-20 r56188)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'edgeR/DESCRIPTION' ... OK
* this is package 'edgeR' version '2.3.29'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'edgeR' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 name space can be loaded with stated dependencies ... OK
** checking whether the name space 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 name space can be loaded with stated dependencies ... OK
** checking whether the name space 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386'
  Running 'edgeR-Tests.R'
  Comparing 'edgeR-Tests.Rout' to 'edgeR-Tests.Rout.save' ... OK
 OK
** running tests for arch 'x64'
  Running 'edgeR-Tests.R'
  Comparing 'edgeR-Tests.Rout' to 'edgeR-Tests.Rout.save' ... OK
 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

edgeR.Rcheck/00install.out:


install for i386

* installing *source* package 'edgeR' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'edgeR.Rnw' 
** testing if installed package can be loaded

add DLL for x64

* installing *source* package 'edgeR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'edgeR' as edgeR_2.3.29.zip

* DONE (edgeR)

edgeR.Rcheck/edgeR-Ex.timings:

nameusersystemelapsed
DGEList0.010.000.02
adjustedProfileLik0.020.000.01
approx.expected.info0.090.000.10
betaApproxNBTest000
bin.dispersion3.400.023.41
binomTest0.030.000.03
calcNormFactors000
commonCondLogLikDerDelta000
condLogLikDerDelta000
condLogLikDerSize000
cpm000
cutWithMinN0.010.000.02
dglmStdResid0.070.000.06
dim000
dispBinTrend0.870.000.87
dispCoxReid0.040.000.04
dispCoxReidInterpolateTagwise0.280.000.28
dispCoxReidSplineTrend1.470.001.47
equalizeLibSizes0.120.000.13
estimateCRDisp0.570.000.56
estimateCommonDisp0.060.000.06
estimateGLMCommonDisp0.140.000.14
estimateGLMTagwiseDisp0.920.000.92
estimateGLMTrendedDisp0.640.000.64
estimatePs000
estimateSmoothing0.030.000.03
estimateTagwiseDisp0.160.010.17
exactTest0.040.000.05
expandAsMatrix000
getCounts0.020.000.02
getOffset000
getPriorN000
glmfit0.590.000.59
gof0.030.000.03
goodTuring0.020.000.02
logLikDerP000
maPlot0.030.000.03
maximizeInterpolant0.010.000.01
meanvar0.290.000.28
mglm0.040.000.05
movingAverageByCol000
plotMDS.dge1.550.021.56
plotSmear0.670.000.67
q2qnbinom0.090.000.09
readDGE000
splitIntoGroups000
subsetting0.080.000.08
systematicSubset000
thinCounts000
topTags0.080.000.08
weightedComLik0.040.000.05
weightedCondLogLikDerDelta000