Package: yaqcaffy

Version: 1.13.0

Command: D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch yaqcaffy_1.13.0.tar.gz

StartedAt: 2011-07-07 06:42:57 -0700 (Thu, 07 Jul 2011)

EndedAt: 2011-07-07 06:46:31 -0700 (Thu, 07 Jul 2011)

EllapsedTime: 213.4 seconds

RetCode: 0

Status:  OK

CheckDir: yaqcaffy.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/yaqcaffy.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56036)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'yaqcaffy/DESCRIPTION' ... OK
* this is package 'yaqcaffy' version '1.13.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'yaqcaffy' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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 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 'yaqcaffy' ...
** R
** inst
** preparing package for lazy loading
Loading required package: affy
Loading required package: Biobase

Welcome to Bioconductor

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

Loading required package: genefilter
Loading required package: gcrma
Creating a generic function for "summary" from package "base" in package "yaqcaffy"
Creating a generic function for "merge" from package "base" in package "yaqcaffy"
Creating a generic function for "identical" from package "base" in package "yaqcaffy"
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'yaqcaffy.Rnw' 
** testing if installed package can be loaded

* DONE (yaqcaffy)

name	user	system	elapsed
YaqcControlProbes-class	0	0	0
getAllInt	15.34	0.35	15.72
getBioProbes	0.86	0.03	0.89
getOutliers	45.02	0.56	46.42
getQCRatios	9.06	0.22	9.28
getRatioProbes	1.17	0.05	1.22
getSpikeProbes	1.19	0.08	1.27
probeSelectionInterface	0	0	0
reprodPlot	0	0	0
yaqc.affy	8.8	0.2	9.0
yaqc.plot	8.77	0.12	8.89