Package: cghMCR

Version: 1.11.0

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch cghMCR_1.11.0.tar.gz

StartedAt: 2011-06-22 02:00:44 -0700 (Wed, 22 Jun 2011)

EndedAt: 2011-06-22 02:05:30 -0700 (Wed, 22 Jun 2011)

EllapsedTime: 286.7 seconds

RetCode: 0

Status:  OK

CheckDir: cghMCR.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/cghMCR.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56037)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cghMCR/DESCRIPTION’ ... OK
* this is package ‘cghMCR’ version ‘1.11.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘cghMCR’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 98.7Mb
  sub-directories of 1Mb or more:
    sampleData  97.1Mb
* 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 ... NOTE
prepare_Rd: SGOL-class.Rd:49: Dropping empty section \note
prepare_Rd: cghMCR-class.Rd:56: Dropping empty section \references
prepare_Rd: mergeMCRProbes.Rd:28: Dropping empty section \references
* 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 sizes of PDF files under ‘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

* installing *source* package ‘cghMCR’ ...
** R
** data
** inst
** preparing package for lazy loading

**************************************************************************
   The plan to change the data format for CNA object has been postponed   
 in order to ensure backward compatibility with older versions of DNAcopy 
**************************************************************************

Loading required package: tools
Loading required package: genefilter
Creating a generic function for "genefilter" from package "genefilter" in package “CNTools”
Creating a generic function for "print" from package "base" in package “cghMCR”
Creating a generic function for "colnames" from package "base" in package “cghMCR”
Creating a generic function for "rownames" from package "base" in package “cghMCR”
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘findMCR.Rnw’ 
** testing if installed package can be loaded
Creating a generic function for "genefilter" from package "genefilter" in package “CNTools”

* DONE (cghMCR)

name	user	system	elapsed
SGOL-class	0.001	0.000	0.002
cghMCR-class	0.182	0.014	0.365
cghMCR	0.086	0.008	0.096
mergeMCRProbes	4.403	0.143	4.846
plot.DNAcopy	0.001	0.001	0.001