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Package 121/419HostnameOS / ArchBUILDCHECKBUILD BIN
edgeR 2.0.5
Mark Robinson , Davis McCarthy , Gordon Smyth
Snapshot Date: 2011-03-30 23:22:56 -0700 (Wed, 30 Mar 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_7/madman/Rpacks/edgeR
Last Changed Rev: 53597 / Revision: 54281
Last Changed Date: 2011-03-10 18:08:06 -0800 (Thu, 10 Mar 2011)
lamb2 Linux (openSUSE 11.2) / 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 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: edgeR
Version: 2.0.5
Command: /home/biocbuild/bbs-2.7-bioc/R/bin/R CMD check --no-vignettes --timings edgeR_2.0.5.tar.gz
StartedAt: 2011-03-31 05:38:16 -0700 (Thu, 31 Mar 2011)
EndedAt: 2011-03-31 05:39:11 -0700 (Thu, 31 Mar 2011)
EllapsedTime: 54.6 seconds
RetCode: 0
Status:  OK 
CheckDir: edgeR.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.7-bioc/meat/edgeR.Rcheck’
* using R version 2.12.2 (2011-02-25)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘edgeR/DESCRIPTION’ ... OK
* this is package ‘edgeR’ version ‘2.0.5’
* 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 package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘mseq-Tests.R’
 OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

edgeR.Rcheck/00install.out:

* installing *source* package ‘edgeR’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (edgeR)

edgeR.Rcheck/edgeR-Ex.timings:

nameusersystemelapsed
DGEList0.0120.0000.011
approx.expected.info0.0840.0000.083
betaApproxNBTest0.0000.0000.001
calcNormFactors0.0000.0000.003
commonCondLogLikDerDelta0.0000.0000.004
condLogLikDerDelta0.0000.0000.002
condLogLikDerSize0.0000.0000.001
dglmStdResid0.0560.0040.059
dim0.0040.0000.003
equalizeLibSizes0.1520.0040.156
estimateCRDisp1.7160.0001.715
estimateCommonDisp0.0560.0000.057
estimatePs0.0040.0000.006
estimateSmoothing0.0320.0000.032
estimateTagwiseDisp0.1760.0000.175
exactTest0.0440.0000.047
getCounts0.0080.0000.004
glmfit0.0560.0000.058
goodTuring0.0080.0000.005
logLikDerP0.0040.0000.003
maPlot0.0160.0000.015
meanvar5.3880.0125.412
mglm0.0360.0000.037
plotMDS.dge7.5170.0407.557
plotSmear0.7480.0000.750
q2qnbinom0.1120.0040.114
readDGE000
splitIntoGroups0.0040.0000.003
subsetting0.0600.0000.061
topTags0.0520.0040.056
weightedComLik0.0320.0000.031
weightedCondLogLikDerDelta0.0040.0000.004