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 |
* checking for file 'beadarray/DESCRIPTION' ... OK
* preparing 'beadarray':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
installing R.css in D:/biocbld/bbs-2.1-bioc/tmpdir/Rinst497256246
---------- 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
not 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
HHC5012: Error: Cannot create a temporary file in your TEMP path.
HHC4016: Warning: Cannot open "\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\beadarray\chm\beadarray.chm
HHC4016: Warning: Cannot open "\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
* DONE (beadarray)
* creating vignettes ... OK
* cleaning src
* removing junk files
* excluding invalid files from 'beadarray'
Subdirectory 'R' contains invalid file names:
boxplotBeads.Rd
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'beadarray_1.6.0.tar.gz'