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Package 112/389 | Hostname | OS / Arch | BUILD | CHECK | BUILD BIN | ||||
edgeR 1.6.15 Mark Robinson
| wilson1 | Linux (openSUSE 11.1) / 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 |
Package: edgeR |
Version: 1.6.15 |
Command: /home/biocbuild/bbs-2.6-bioc/R/bin/R CMD check --no-vignettes --timings edgeR_1.6.15.tar.gz |
StartedAt: 2010-10-04 17:11:50 -0700 (Mon, 04 Oct 2010) |
EndedAt: 2010-10-04 17:12:30 -0700 (Mon, 04 Oct 2010) |
EllapsedTime: 39.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: edgeR.Rcheck |
Warnings: 0 |
* checking for working pdflatex ... OK * using log directory '/loc/home/biocbuild/bbs-2.6-bioc/meat/edgeR.Rcheck' * using R version 2.11.1 (2010-05-31) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'edgeR/DESCRIPTION' ... OK * this is package 'edgeR' version '1.6.15' * 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 data for non-ASCII characters ... OK * checking examples ... 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:
* install options are ' --no-html' * 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:
name | user | system | elapsed | |
DGEList | 0.012 | 0.000 | 0.012 | |
alpha.approxeb | 0.168 | 0.000 | 0.170 | |
approx.expected.info | 0.512 | 0.000 | 0.513 | |
calcNormFactors | 0.004 | 0.000 | 0.003 | |
commonCondLogLikDerDelta | 0.004 | 0.000 | 0.004 | |
condLogLikDerDelta | 0.004 | 0.000 | 0.001 | |
condLogLikDerSize | 0 | 0 | 0 | |
de4DGE | 0.056 | 0.000 | 0.053 | |
deDGE | 0.328 | 0.000 | 0.329 | |
equalizeLibSizes | 0.160 | 0.004 | 0.164 | |
estimateCommonDisp | 0.068 | 0.000 | 0.066 | |
estimateDispIter | 0.504 | 0.000 | 0.503 | |
estimatePs | 0.008 | 0.000 | 0.008 | |
estimateSmoothing | 0.036 | 0.004 | 0.082 | |
estimateTagwiseDisp | 0.180 | 0.004 | 0.182 | |
exactTest | 0.048 | 0.000 | 0.049 | |
findMaxD2 | 0.284 | 0.000 | 0.286 | |
getCounts | 0.004 | 0.000 | 0.003 | |
interpolateHelper | 3.336 | 0.004 | 3.342 | |
logLikDerP | 0.000 | 0.000 | 0.002 | |
maPlot | 0.012 | 0.000 | 0.014 | |
plotMDS.dge | 7.920 | 0.044 | 7.963 | |
plotSmear | 0.808 | 0.004 | 0.811 | |
q2qnbinom | 0.116 | 0.000 | 0.115 | |
quantileAdjust | 0.176 | 0.000 | 0.175 | |
readDGE | 0 | 0 | 0 | |
splitIntoGroups | 0.004 | 0.000 | 0.003 | |
subsetting | 0.008 | 0.000 | 0.006 | |
tau2.0.objective | 0.008 | 0.004 | 0.012 | |
topTags | 0.060 | 0.004 | 0.062 | |
weightedCondLogLikDerDelta | 0.004 | 0.000 | 0.004 | |