Package: beadarray

Version: 1.4.0

Command: D:\biocbld\bbs-2.0-bioc\R\bin\R.exe CMD INSTALL --build --library=beadarray.buildbin-libdir beadarray_1.4.0.tar.gz

RetCode: 0

Time: 32.1 seconds

Status: OK

PackageFile: beadarray_1.4.0.zip

installing R.css in D:/biocbld/bbs-2.0-bioc/meat/beadarray.buildbin-libdir

Using auto-selected zip options 'beadarray-ZIPDATA=zip beadarray-HELP=ziponly'

---------- Making package beadarray ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  making DLL ...
making BLImagePlot.d from BLImagePlot.c
making createBeadSummaryData.d from createBeadSummaryData.c
making findProbeIndices.d from findProbeIndices.c
making readBeadImages.d from readBeadImages.c
making returnTIFF.d from returnTIFF.c
gcc   -ID:/biocbld/bbs-2.0-bioc/R/include  -Wall -O3 -std=gnu99   -c BLImagePlot.c -o BLImagePlot.o
gcc   -ID:/biocbld/bbs-2.0-bioc/R/include  -Wall -O3 -std=gnu99   -c createBeadSummaryData.c -o createBeadSummaryData.o
createBeadSummaryData.c: In function `findAllOutliers':
createBeadSummaryData.c:243: warning: 'status' might be used uninitialized in this function
gcc   -ID:/biocbld/bbs-2.0-bioc/R/include  -Wall -O3 -std=gnu99   -c findProbeIndices.c -o findProbeIndices.o
gcc   -ID:/biocbld/bbs-2.0-bioc/R/include  -Wall -O3 -std=gnu99   -c readBeadImages.c -o readBeadImages.o
readBeadImages.c: In function `readBeadImage':
readBeadImages.c:554: warning: 'BeginData' might be used uninitialized in this function
readBeadImages.c:554: warning: 'ImageWidth' might be used uninitialized in this function
readBeadImages.c:554: warning: 'ImageHeight' might be used uninitialized in this function
readBeadImages.c:554: warning: 'StripOffset' might be used uninitialized in this function
readBeadImages.c:555: warning: 'offset' might be used uninitialized in this function
readBeadImages.c:555: warning: 'records' might be used uninitialized in this function
gcc   -ID:/biocbld/bbs-2.0-bioc/R/include  -Wall -O3 -std=gnu99   -c returnTIFF.c -o returnTIFF.o
returnTIFF.c: In function `readTIFF':
returnTIFF.c:17: warning: 'BeginData' might be used uninitialized in this function
returnTIFF.c:17: warning: 'ImageWidth' might be used uninitialized in this function
returnTIFF.c:17: warning: 'ImageHeight' might be used uninitialized in this function
returnTIFF.c:17: warning: 'StripOffset' might be used uninitialized in this function
returnTIFF.c:18: warning: 'offset' might be used uninitialized in this function
returnTIFF.c:18: warning: 'records' might be used uninitialized in this function
windres -I D:/biocbld/bbs-2.0-bioc/R/include  -i beadarray_res.rc -o beadarray_res.o
gcc  -shared -s  -o beadarray.dll beadarray.def BLImagePlot.o createBeadSummaryData.o findProbeIndices.o readBeadImages.o returnTIFF.o beadarray_res.o  -LD:/biocbld/bbs-2.0-bioc/R/bin    -lR
  ... DLL made
  installing DLL
  installing R files
  installing inst files
  installing data files
  installing man source files
  installing indices
Loading required package: methods
  zipping data
  installing help
 >>> Building/Updating help pages for package 'beadarray'
     Formats: text html latex example chm 
  BLData                            text    html    latex           chm
  BSData                            text    html    latex           chm
  BeadLevelNormalise                text    html    latex           chm
  DiffScore                         text    html    latex           chm
  LargeDataObject                   text    html    latex   example chm
  QC                                text    html    latex           chm
  arrayNames                        text    html    latex   example chm
  backgroundCorrect                 text    html    latex   example chm
  backgroundNormalise               text    html    latex   example chm
  boxplotBeads                      text    html    latex   example chm
  class-BeadLevelList               text    html    latex           chm
  class.ExpressionSetIllumina       text    html    latex           chm
  combineBeadLevelLists             text    html    latex           chm
  copyBeadLevelLists                text    html    latex   example chm
  createBeadSummaryData             text    html    latex   example chm
  displayTIFFImage                  text    html    latex   example chm
  findAllOutliers                   text    html    latex   example chm
  findBeadStatus                    text    html    latex   example chm
  getArrayData                      text    html    latex   example chm
  imageplot                         text    html    latex   example chm
  interactivePlots                  text    html    latex           chm
  medianNormalise                   text    html    latex   example chm
  numBeads                          text    html    latex   example chm
  plotBeadDensities                 text    html    latex   example chm
  plotBeadIntensities               text    html    latex   example chm
  plotBeadLocations                 text    html    latex   example chm
  plotMA                            text    html    latex           chm
  plotMAXY                          text    html    latex   example chm
  plotOnSAM                         text    html    latex           chm
  plotRG                            text    html    latex   example chm
  plotXY                            text    html    latex           chm
  qcBeadLevel                       text    html    latex   example chm
  rankInvariantNormalise            text    html    latex   example chm
  readBeadLevelData                 text    html    latex   example chm
  readBeadSummaryData               text    html    latex   example chm
  readBeadSummaryTargets            text    html    latex   example chm
  readBeadTargets                   text    html    latex   example chm
  readIllumina                      text    html    latex   example chm
  readQC                            text    html    latex   example chm
  zipping help files
Microsoft HTML Help Compiler 4.74.8702



Compiling d:\biocbld\bbs-2.0-bioc\meat\R.INSTALL.5392\beadarray\chm\beadarray.chm





Compile time: 0 minutes, 0 seconds

40	Topics

143	Local links

0	Internet links

1	Graphic





Created d:\biocbld\bbs-2.0-bioc\meat\R.INSTALL.5392\beadarray\chm\beadarray.chm, 70,704 bytes

Compression decreased file by 91,106 bytes.

  preparing package beadarray for lazy loading
Loading required package: limma
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
Loading required package: annotate
Loading required package: lattice
KernSmooth 2.22 installed
Copyright M. P. Wand 1997
Loading required package: affy
Loading required package: affyio
Loading required package: beadarraySNP
Loading required package: quantsmooth
Loading required package: quantreg
Loading required package: SparseM
Loading required package: lodplot
Loading required package: grid
  adding MD5 sums

packaged installation of package 'beadarray' as beadarray_1.4.0.zip
* DONE (beadarray)