Package: arrayQualityMetrics

Version: 1.0.17

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check arrayQualityMetrics_1.0.17.tar.gz

RetCode: 0

Time: 273.8 seconds

Status: WARNINGS

CheckDir: arrayQualityMetrics.Rcheck

Warnings: 1

* checking for working latex ... OK
* using log directory '/Users/biocbuild/bbs-2.1-bioc/meat/arrayQualityMetrics.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-08-10 r42465)
* checking for file 'arrayQualityMetrics/DESCRIPTION' ... OK
* this is package 'arrayQualityMetrics' version '1.0.17'
* 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 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 name space can be loaded with stated dependencies ... 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
makePlot: no visible global function definition for 'devDims'
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented S4 methods:
  generic 'arrayQualityMetrics' and siglist 'NChannelSet'
  generic 'arrayQualityMetrics' and siglist 'ExpressionSet'
  generic 'arrayQualityMetrics' and siglist 'AffyBatch'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* creating arrayQualityMetrics-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating arrayQualityMetrics-manual.tex ... OK
* checking arrayQualityMetrics-manual.tex ... OK

WARNING: There was 1 warning, see
  /Users/biocbuild/bbs-2.1-bioc/meat/arrayQualityMetrics.Rcheck/00check.log
for details

* Installing *source* package 'arrayQualityMetrics' ...
** R
** inst
** preparing package for lazy loading
Loading required package: Biobase
Loading required package: tools

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: geneplotter
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KernSmooth 2.22 installed
Copyright M. P. Wand 1997
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** help
 >>> Building/Updating help pages for package 'arrayQualityMetrics'
     Formats: text html latex example 
  arrayQualityMetrics               text    html    latex   example
** building package indices ...
* DONE (arrayQualityMetrics)