Package: arrayQualityMetrics

Version: 3.9.3

Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings arrayQualityMetrics_3.9.3.tar.gz

StartedAt: 2011-07-06 23:34:51 -0700 (Wed, 06 Jul 2011)

EndedAt: 2011-07-06 23:37:31 -0700 (Wed, 06 Jul 2011)

EllapsedTime: 160.0 seconds

RetCode: 0

Status:  OK

CheckDir: arrayQualityMetrics.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/arrayQualityMetrics.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-15 r56138)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘arrayQualityMetrics/DESCRIPTION’ ... OK
* this is package ‘arrayQualityMetrics’ version ‘3.9.3’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘arrayQualityMetrics’ can be installed ... OK
* checking installed package size ... 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 ... NOTE
aqm.probesmap: no visible binding for global variable ‘hasTarget’
* 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 ... NONE
* 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 ‘arrayQualityMetrics’ ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for "boxplot" from package "graphics" in package “affyPLM”
Creating a generic function for "hist" from package "graphics" in package “affyPLM”
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘aqm.Rnw’ 
   ‘arrayQualityMetrics.Rnw’ 
** testing if installed package can be loaded
Creating a generic function for "boxplot" from package "graphics" in package “affyPLM”
Creating a generic function for "hist" from package "graphics" in package “affyPLM”

* DONE (arrayQualityMetrics)