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Package 148/553HostnameOS / ArchBUILDCHECKBUILD BIN
DEXSeq 1.2.1
Alejandro Reyes
Snapshot Date: 2012-09-23 17:01:39 -0700 (Sun, 23 Sep 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_10/madman/Rpacks/DEXSeq
Last Changed Rev: 68470 / Revision: 69725
Last Changed Date: 2012-08-15 00:43:04 -0700 (Wed, 15 Aug 2012)
lamb2 Linux (openSUSE 11.4) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: DEXSeq
Version: 1.2.1
Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch DEXSeq_1.2.1.tar.gz
StartedAt: 2012-09-23 23:54:21 -0700 (Sun, 23 Sep 2012)
EndedAt: 2012-09-23 23:56:18 -0700 (Sun, 23 Sep 2012)
EllapsedTime: 116.5 seconds
RetCode: 0
Status:  OK 
CheckDir: DEXSeq.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.10-bioc/meat/DEXSeq.Rcheck'
* using R version 2.15.1 (2012-06-22)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'DEXSeq/DESCRIPTION' ... OK
* this is package 'DEXSeq' version '1.2.1'
* 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 whether package 'DEXSeq' can be installed ... OK
* checking installed package size ... 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 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... 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

DEXSeq.Rcheck/00install.out:

* installing *source* package 'DEXSeq' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'DEXSeq.Rnw' 
** testing if installed package can be loaded

* DONE (DEXSeq)

DEXSeq.Rcheck/DEXSeq-Ex.timings:

nameusersystemelapsed
DEUresultTable0.0000.0000.001
DEXSeqHTML0.0010.0010.001
ExonCountSet-class000
countTableForGene0.2330.0140.258
counts0.0230.0020.027
design0.0290.0030.033
estimateDispersions0.0000.0010.000
estimateExonDispersionsForModelFrame0.4290.0390.471
estimateSizeFactors0.0580.0040.062
estimatelog2FoldChanges0.0010.0000.001
exonIDs0.0280.0090.037
fitDispersionFunction10.581 1.12511.758
geneCountTable0.0380.0030.042
geneIDs0.0230.0040.027
makeCompleteDEUAnalysis19.067 2.05921.217
modelFrameForGene0.0240.0040.029
newExonCountSet0.2330.0200.253
plotDEXSeq000
read.HTSeqCounts0.0040.0040.008
sizeFactors0.0400.0040.044
subsetByGenes0.0510.0060.057
testForDEU0.0000.0010.000
testGeneForDEU11.942 1.16613.162