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Package 26/233HostnameOS / ArchBUILDCHECKBUILD BIN
beadarray 1.6.0
Mark Dunning
Snapshot Date: 2008-04-09 12:13:20 -0700 (Wed, 09 Apr 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_1/madman/Rpacks/beadarray
Last Changed Rev: 27709 / Revision: 30966
Last Changed Date: 2007-10-02 17:41:09 -0700 (Tue, 02 Oct 2007)
lamb1 Linux (SUSE 10.1) / x86_64  OK  OK 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  OK 
wellington Linux (openSUSE 10.3) / i686  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
lemming Windows Server 2003 (32-bit) / x64  OK  OK [ OK ]
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
Package: beadarray
Version: 1.6.0
Command: D:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD INSTALL --build --library=beadarray.buildbin-libdir beadarray_1.6.0.tar.gz
StartedAt: 2008-04-09 22:49:07 -0700 (Wed, 09 Apr 2008)
EndedAt: 2008-04-09 22:50:19 -0700 (Wed, 09 Apr 2008)
EllapsedTime: 72.0 seconds
RetCode: 0
Status: OK
PackageFile: beadarray_1.6.0.zip
PackageFileSize: 16.24 MiB

Command output

installing R.css in D:/biocbld/bbs-2.1-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
gcc-sjlj  -std=gnu99  -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -Wall  -c BLImagePlot.c -o BLImagePlot.o
gcc-sjlj  -std=gnu99  -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -Wall  -c createBeadSummaryData.c -o createBeadSummaryData.o
createBeadSummaryData.c: In function 'findAllOutliers':
createBeadSummaryData.c:223: warning: 'status' may be used uninitialized in this function
gcc-sjlj  -std=gnu99  -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -Wall  -c findProbeIndices.c -o findProbeIndices.o
gcc-sjlj  -std=gnu99  -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -Wall  -c readBeadImages.c -o readBeadImages.o
readBeadImages.c: In function 'readBeadImage':
readBeadImages.c:571: warning: 'offset' may be used uninitialized in this function
readBeadImages.c:571: warning: 'records' may be used uninitialized in this function
readBeadImages.c:570: warning: 'StripOffset' may be used uninitialized in this function
readBeadImages.c:570: warning: 'ImageHeight' may be used uninitialized in this function
readBeadImages.c:570: warning: 'ImageWidth' may be used uninitialized in this function
readBeadImages.c:570: warning: 'BeginData' may be used uninitialized in this function
windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I D:/biocbld/bbs-2.1-bioc/R/include  -i beadarray_res.rc -o beadarray_res.o
gcc-sjlj  -std=gnu99  -shared -s  -o beadarray.dll beadarray.def BLImagePlot.o createBeadSummaryData.o findProbeIndices.o readBeadImages.o beadarray_res.o  -LD:/biocbld/bbs-2.1-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
  LargeDataObject                   text    html    latex   example chm
  QC                                text    html    latex   example chm
  arrayNames                        text    html    latex   example chm
  backgroundCorrect                 text    html    latex   example chm
  beadResids                        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
  findAllOutliers                   text    html    latex   example chm
  findBeadStatus                    text    html    latex   example chm
  getArrayData                      text    html    latex   example chm
  getVariance                       text    html    latex   example chm
  imageplot                         text    html    latex   example chm
  interactivePlots                  text    html    latex           chm
  medianNormalise                   text    html    latex   example chm
  normaliseIllumina                 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   example chm
  plotMAXY                          text    html    latex   example chm
  plotOnSAM                         text    html    latex           chm
  plotRG                            text    html    latex   example chm
  plotXY                            text    html    latex   example chm
  qcBeadLevel                       text    html    latex   example chm
  rankInvariantNormalise            text    html    latex   example chm
  readBGX                           text    html    latex   example chm
  readBeadSummaryData               text    html    latex   example chm
  readIllumina                      text    html    latex   example chm
  readQC                            text    html    latex   example chm
  zipping help files
HHC5012: Error: Cannot create a temporary file in your TEMP path.

HHC4016: Warning: Cannot open "iles\Windows Resource Kits\Tools\;c:\Program Files\Affymetrix\GDAC NetAffx;c:\gs\gs8.51\bin;c:\Program Files\Java\jdk1.5.0_06\bin;c:\program files\imagemagick-6.3.2-q16;c:\Program Files\MySQL\MySQL Server 5.0\bin;c:\Program Files\ggobi".

Microsoft HTML Help Compiler 4.74.8702



Compiling d:\biocbld\bbs-2.1-bioc\meat\R.INSTALL.5916\beadarray\chm\beadarray.chm



HHC4016: Warning: Cannot open "iles\Windows Resource Kits\Tools\;c:\Program Files\Affymetrix\GDAC NetAffx;c:\gs\gs8.51\bin;c:\Program Files\Java\jdk1.5.0_06\bin;c:\program files\imagemagick-6.3.2-q16;c:\Program Files\MySQL\MySQL Server 5.0\bin;c:\Program Files\ggobi".





The following files were not compiled:

  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: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Loading required package: xtable
Loading required package: lattice
KernSmooth 2.22 installed
Copyright M. P. Wand 1997
Loading required package: affy
Loading required package: affyio
Loading required package: preprocessCore
  adding MD5 sums

packaged installation of package 'beadarray' as beadarray_1.6.0.zip
* DONE (beadarray)