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BioC 2.12: CHECK report for codelink on george2

This page was generated on 2013-10-09 09:37:18 -0700 (Wed, 09 Oct 2013).

Package 144/671HostnameOS / ArchBUILDCHECKBUILD BIN
codelink 1.28.1
Diego Diez
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/codelink
Last Changed Rev: 76051 / Revision: 81334
Last Changed Date: 2013-04-25 23:16:38 -0700 (Thu, 25 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK [ OK ]
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: codelink
Version: 1.28.1
Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings codelink_1.28.1.tar.gz
StartedAt: 2013-10-09 01:07:54 -0700 (Wed, 09 Oct 2013)
EndedAt: 2013-10-09 01:11:35 -0700 (Wed, 09 Oct 2013)
EllapsedTime: 221.2 seconds
RetCode: 0
Status:  OK 
CheckDir: codelink.Rcheck
Warnings: 0

Command output

* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/codelink.Rcheck’
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘codelink/DESCRIPTION’ ... OK
* this is package ‘codelink’ version ‘1.28.1’
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘codelink’ can be installed ... [29s/30s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking examples ... [11s/11s] 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

codelink.Rcheck/00install.out:

* installing *source* package ‘codelink’ ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for ‘summary’ from package ‘base’ in package ‘codelink’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (codelink)

codelink.Rcheck/codelink-Ex.timings:

nameusersystemelapsed
Codelink-class0.0080.0080.015
CodelinkSet-class0.0160.0000.014
CodelinkSetUnique-class0.0160.0000.014
arrayNew0.0160.0000.013
as.matrix.Codelink0.0160.0000.015
averageProbes0.0160.0000.015
bkgdCorrect0.0120.0000.013
createWeights0.0160.0000.013
cutCV0.0120.0000.010
dim.Codelink0.0120.0000.013
imageCodelink0.0160.0000.014
logCodelink0.0120.0000.010
mergeArray0.0120.0040.012
na2false0.0120.0000.012
normalize0.0280.0000.029
normalize.loess0.0120.0000.014
plotCorrelation0.0080.0000.008
plotDensities0.0120.0000.011
plotMA0.0080.0000.009
readCodelink0.3960.0000.393
readHeader0.0120.0000.013
readHeaderXLS0.0120.0000.011
writeCodelink0.0120.0000.012