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Package 24/264HostnameOS / ArchBUILDCHECKBUILD BIN
arrayMagic 1.17.3
Andreas Buness
Snapshot Date: 2008-04-09 00:13:10 -0700 (Wed, 09 Apr 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/arrayMagic
Last Changed Rev: 29331 / Revision: 30951
Last Changed Date: 2007-12-27 13:57:27 -0800 (Thu, 27 Dec 2007)
lamb1 Linux (SUSE 10.1) / x86_64 [ ERROR ] skipped 
wilson2 Linux (openSUSE 10.3) / x86_64  ERROR  skipped 
wellington Linux (openSUSE 10.3) / i686  ERROR  skipped 
liverpool Windows Server 2003 R2 (32-bit) / x64  ERROR  skipped  skipped 
pelham Mac OS X Leopard (10.5.1) / i386  ERROR  skipped  skipped 
Package: arrayMagic
Version: 1.17.3
Command: /home/biocbuild/bbs-2.2-bioc/R/bin/R CMD build arrayMagic
StartedAt: 2008-04-09 02:37:43 -0700 (Wed, 09 Apr 2008)
EndedAt: 2008-04-09 02:38:16 -0700 (Wed, 09 Apr 2008)
EllapsedTime: 33.5 seconds
RetCode: 1
Status: ERROR
PackageFile: None
PackageFileSize: NA

Command output

* checking for file 'arrayMagic/DESCRIPTION' ... OK
* preparing 'arrayMagic':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
* Installing *source* package 'arrayMagic' ...
** 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: vsn
Loading required package: affy
Loading required package: affyio
Loading required package: preprocessCore
Loading required package: limma
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
** help
Note: removing empty section \examples
Note: removing empty section \examples
Note: removing empty section \details
Note: removing empty section \details
Note: removing empty section \examples
Note: removing empty section \details
Note: removing empty section \details
Note: removing empty section \examples
Note: removing empty section \examples
Note: removing empty section \details
Note: removing empty section \details
 >>> Building/Updating help pages for package 'arrayMagic'
     Formats: text html latex example 
  arrayData-class                   text    html    latex   example
  cbind.arrayData                   text    html    latex
  cbind.exprSetRG                   text    html    latex
  colCors                           text    html    latex   example
  controlledApply                   text    html    latex   example
  controlledSubsetting              text    html    latex   example
  detectReplicas                    text    html    latex   example
  exprSetRG-class                   text    html    latex   example
  fdc                               text    html    latex   example
  interweave                        text    html    latex   example
  normalise                         text    html    latex   example
  plot.imageMatrix                  text    html    latex   example
  plotDistributions                 text    html    latex   example
  processArrayData                  text    html    latex   example
  processArrayDataObject            text    html    latex   example
  qualityDiagnostics                text    html    latex
  qualityParameters                 text    html    latex   example
  readIntensities                   text    html    latex   example
  readpDataSlides                   text    html    latex   example
  removeSpots                       text    html    latex   example
  simpleApply                       text    html    latex   example
  slideMerge                        text    html    latex   example
  spatialLayout                     text    html    latex   example
  spotMerge                         text    html    latex   example
  visualiseHybridisations           text    html    latex
  visualiseQualityParameters        text    html    latex
  write.htmltable                   text    html    latex   example
  writeToFile                       text    html    latex   example
** building package indices ...
* DONE (arrayMagic)
* creating vignettes ... ERROR

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: affy
Loading required package: affyio
Loading required package: preprocessCore
Loading required package: limma
Loading required package: survival
Loading required package: splines

******      Deprecation warning                  ***
* The package 'arrayMagic' is deprecated and will  *
* not be supported after the retirement of the     *
* exprSet class from Bioconductor.                 *
* Please consider using the NchannelSet class from *
* Biobase and functions from the limma and         *
* arrayQualityMetrics packages.                    *
****************************************************

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Error: processing vignette 'arrayMagicVignette.Rnw' failed with diagnostics:
 chunk 10 (label=normalise) 
Error : The phenoData class is defunct, use AnnotatedDataFrame (with ExpressionSet) instead
Execution halted