Package: arrayMagic

Version: 1.12.2

Command: /loc/biocbuild/1.9d/R/bin/R CMD build arrayMagic

RetCode: 0

Time: 141.6 seconds

Status: OK

PackageFile: arrayMagic_1.12.2.tar.gz

* 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
** save image
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

    Vignettes contain introductory material. To view, type
    'openVignette()' or start with 'help(Biobase)'. For details
    on reading vignettes, see the openVignette help page.

Loading required package: vsn
Loading required package: limma
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
[1] "arrayData"
[1] "initialize"
[1] "weights<-"
[1] "weights<-"
[1] "intensities<-"
[1] "intensities<-"
[1] "spotAttr<-"
[1] "spotAttr<-"
[1] "hybAttrList<-"
[1] "hybAttrList<-"
[1] "getIntensities"
[1] "getIntensities"
[1] "getWeights"
[1] "getWeights"
[1] "getSpotAttr"
[1] "getSpotAttr"
[1] "getHybAttrList"
[1] "getHybAttrList"
[1] "getHybAttr"
[1] "getHybAttr"
[1] "getHybAttrRed"
[1] "getHybAttrRed"
[1] "getHybAttrGreen"
[1] "getHybAttrGreen"
[1] "["
[1] "as.RGList"
[1] "as.RGList"
[1] "show"
[1] "exprSetRG"
[1] "initialize"
[1] "show"
[1] "as.exprSet"
[1] "as.exprSet"
[1] "as.RGList"
[1] "getIndGreen"
[1] "getIndGreen"
[1] "getExprSetGreen"
[1] "getExprSetGreen"
[1] "getIndRed"
[1] "getIndRed"
[1] "getExprSetRed"
[1] "getExprSetRed"
[1] "getExprSetLogRatio"
[1] "getExprSetLogRatio"
[1] "getExprSetGreenMinusRed"
[1] "getExprSetGreenMinusRed"
[1] "getExprSetRedMinusGreen"
[1] "getExprSetRedMinusGreen"
[1] "phenoDataGreen"
[1] "phenoDataGreen"
[1] "pDataGreen"
[1] "pDataGreen"
[1] "phenoDataRed"
[1] "phenoDataRed"
[1] "pDataRed"
[1] "pDataRed"
[1] "phenoDataSlide"
[1] "phenoDataSlide"
[1] "pDataSlide"
[1] "pDataSlide"
[1] "slideSubset"
[1] "slideSubset"
[1] "["
** help
 >>> Building/Updating help pages for package 'arrayMagic'
     Formats: text html latex example 
  arrayData-class                   text    html    latex   example
  cbind.arrayData                   text    html    latex   example
  cbind.exprSetRG                   text    html    latex   example
  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   example
  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   example
  visualiseQualityParameters        text    html    latex   example
  write.htmltable                   text    html    latex   example
  writeToFile                       text    html    latex   example
** building package indices ...
* DONE (arrayMagic)
* creating vignettes ... OK
* removing junk files
* checking for LF line-endings in source files
* checking for empty or unneeded directories
* building 'arrayMagic_1.12.2.tar.gz'