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Package 134/514HostnameOS / ArchBUILDCHECKBUILD BIN
DEXSeq 1.0.2
Alejandro Reyes
Snapshot Date: 2012-03-23 18:21:46 -0700 (Fri, 23 Mar 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/DEXSeq
Last Changed Rev: 61153 / Revision: 64395
Last Changed Date: 2011-12-06 08:03:09 -0800 (Tue, 06 Dec 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: DEXSeq
Version: 1.0.2
Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings DEXSeq_1.0.2.tar.gz
StartedAt: 2012-03-24 00:03:49 -0700 (Sat, 24 Mar 2012)
EndedAt: 2012-03-24 00:05:06 -0700 (Sat, 24 Mar 2012)
EllapsedTime: 76.9 seconds
RetCode: 0
Status:  OK 
CheckDir: DEXSeq.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/DEXSeq.Rcheck’
* using R version 2.14.2 (2012-02-29)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DEXSeq/DESCRIPTION’ ... OK
* this is package ‘DEXSeq’ version ‘1.0.2’
* 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 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 ...
*** tangling vignette sources ...
   ‘DEXSeq.Rnw’ 
** testing if installed package can be loaded

* DONE (DEXSeq)

DEXSeq.Rcheck/DEXSeq-Ex.timings:

nameusersystemelapsed
DEUresultTable0.0000.0000.001
DEXSeqHTML000
ExonCountSet-class000
countTableForGene0.2720.0040.275
counts0.020.000.02
design0.0120.0080.025
estimateDispersions0.0000.0000.001
estimateExonDispersionsForModelFrame0.2840.0080.292
estimateSizeFactors0.0400.0000.042
estimatelog2FoldChanges000
exonIDs0.0240.0040.024
fitDispersionFunction9.6640.0249.771
geneCountTable0.0720.0040.079
geneIDs0.1440.0000.155
makeCompleteDEUAnalysis17.309 0.01217.845
modelFrameForGene0.0200.0080.031
newExonCountSet0.340.000.34
plotDEXSeq000
read.HTSeqCounts0.0080.0000.007
sizeFactors0.0320.0080.041
subsetByGenes0.0480.0000.049
testForDEU000
testGeneForDEU10.021 0.00010.025