Package: cghMCR

Version: 1.8.0

Command: /home/biocbuild/bbs-2.7-bioc/R/bin/R CMD check --no-vignettes --timings cghMCR_1.8.0.tar.gz

StartedAt: 2011-03-31 05:01:43 -0700 (Thu, 31 Mar 2011)

EndedAt: 2011-03-31 05:02:45 -0700 (Thu, 31 Mar 2011)

EllapsedTime: 62.6 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: cghMCR.Rcheck

Warnings: 1

* using log directory ‘/loc/home/biocbuild/bbs-2.7-bioc/meat/cghMCR.Rcheck’
* using R version 2.12.2 (2011-02-25)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cghMCR/DESCRIPTION’ ... OK
* this is package ‘cghMCR’ version ‘1.8.0’
* 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 ... WARNING
Found the following significant warnings:
  Warning: use of a true value for 'ZipData' is deprecated
See ‘/loc/home/biocbuild/bbs-2.7-bioc/meat/cghMCR.Rcheck/00install.out’ for details.
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There was 1 warning, see
  ‘/loc/home/biocbuild/bbs-2.7-bioc/meat/cghMCR.Rcheck/00check.log’
for details

* installing *source* package ‘cghMCR’ ...
** R
** data
Warning: use of a true value for 'ZipData' is deprecated
** 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 new generic function for "genefilter" in "CNTools"
Creating a new generic function for "print" in "cghMCR"
Creating a new generic function for "colnames" in "cghMCR"
Creating a new generic function for "rownames" in "cghMCR"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (cghMCR)

name	user	system	elapsed
SGOL-class	0.000	0.000	0.001
cghMCR-class	0.172	0.004	0.175
cghMCR	0.116	0.004	0.119
mergeMCRProbes	4.000	0.024	4.040
plot.DNAcopy	0	0	0