Package: CGHcall

Version: 2.10.0

Command: /home/biocbuild/bbs-2.7-bioc/R/bin/R CMD check --no-vignettes --timings CGHcall_2.10.0.tar.gz

StartedAt: 2011-04-07 05:27:45 -0700 (Thu, 07 Apr 2011)

EndedAt: 2011-04-07 05:28:38 -0700 (Thu, 07 Apr 2011)

EllapsedTime: 52.6 seconds

RetCode: 0

Status:  OK

CheckDir: CGHcall.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.7-bioc/meat/CGHcall.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 ‘CGHcall/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CGHcall’ version ‘2.10.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘CGHcall’ can be installed ... 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 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 ... 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘CGHcall’ ...
** 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 
**************************************************************************


Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: marray
Loading required package: limma
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (CGHcall)

name	user	system	elapsed
CGHcall	1.044	0.044	1.093
ExpandCGHcall	0.912	0.008	0.923
class.cghCall	0.068	0.000	0.070
class.cghRaw	0.456	0.024	0.486
class.cghSeg	0.068	0.000	0.066
make_cghRaw	0.104	0.000	0.103
normalize	0.928	0.000	0.963
plot.summary	0.000	0.000	0.001
postsegnormalize	0.924	0.000	0.923
preprocess	0.064	0.000	0.063
segmentData	0.016	0.000	0.020