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Package 30/319HostnameOS / ArchBUILDCHECKBUILD BIN
arrayQualityMetrics 2.2.3
Audrey Kauffmann
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/arrayQualityMetrics
Last Changed Rev: 42106 / Revision: 42512
Last Changed Date: 2009-10-01 07:30:44 -0700 (Thu, 01 Oct 2009)
wilson1 Linux (openSUSE 11.1) / x86_64  OK [ OK ]
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
Package: arrayQualityMetrics
Version: 2.2.3
Command: /home/biocbuild/bbs-2.4-bioc/R/bin/R CMD check --no-vignettes arrayQualityMetrics_2.2.3.tar.gz
StartedAt: 2009-10-20 15:29:37 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 15:35:28 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 351.7 seconds
RetCode: 0
Status: OK
CheckDir: arrayQualityMetrics.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.4-bioc/meat/arrayQualityMetrics.Rcheck'
* using R version 2.9.2 (2009-08-24)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'arrayQualityMetrics/DESCRIPTION' ... OK
* this is package 'arrayQualityMetrics' version '2.2.3'
* 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 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
aqm.probesmap: no visible binding for global variable 'ProbesMap'
* checking Rd files ... OK
* checking Rd files against version 2 parser ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

arrayQualityMetrics.Rcheck/00install.out:

* Installing *source* package 'arrayQualityMetrics' ...
** 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
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: gcrma
Loading required package: Biostrings
Loading required package: IRanges

Attaching package: 'IRanges'


	The following object(s) are masked from package:base :

	 cbind,
	 duplicated,
	 order,
	 pmax,
	 pmax.int,
	 pmin,
	 pmin.int,
	 rank,
	 rbind,
	 rep.int,
	 sapply,
	 sort,
	 table,
	 unique 

Loading required package: preprocessCore

Attaching package: 'affyPLM'


	The following object(s) are masked from package:stats :

	 resid,
	 residuals,
	 weights 

** help
*** installing help indices
 >>> Building/Updating help pages for package 'arrayQualityMetrics'
     Formats: text html latex example 
  XYfromGAL                         text    html    latex
  aqm.boxplot                       text    html    latex
  aqm.density                       text    html    latex
  aqm.heatmap                       text    html    latex
  aqm.maplot                        text    html    latex
  aqm.meansd                        text    html    latex
  aqm.nuse                          text    html    latex
  aqm.pca                           text    html    latex
  aqm.plot                          text    html    latex
  aqm.pmmm                          text    html    latex   example
  aqm.prepaffy                      text    html    latex   example
  aqm.prepdata                      text    html    latex   example
  aqm.probesmap                     text    html    latex
  aqm.qcstats                       text    html    latex   example
  aqm.rle                           text    html    latex
  aqm.rnadeg                        text    html    latex
  aqm.spatial                       text    html    latex
  aqm.spatialbg                     text    html    latex
  aqm.writereport                   text    html    latex   example
  aqmobj.box                        text    html    latex
  aqmobj.dens                       text    html    latex
  aqmobj.heat                       text    html    latex
  aqmobj.ma                         text    html    latex
  aqmobj.msd                        text    html    latex
  aqmobj.nuse                       text    html    latex
  aqmobj.pca                        text    html    latex
  aqmobj.pmmm                       text    html    latex
  aqmobj.prepaffy                   text    html    latex
  aqmobj.prepdata                   text    html    latex
  aqmobj.probesmap                  text    html    latex
  aqmobj.qcs                        text    html    latex
  aqmobj.rle                        text    html    latex
  aqmobj.rnadeg                     text    html    latex
  aqmobj.spatial                    text    html    latex
  aqmobj.spatialbg                  text    html    latex
  arrayQualityMetrics               text    html    latex
** building package indices ...
* DONE (arrayQualityMetrics)