beadarray 1.7.9
Mark Dunning
| Snapshot Date: 2008-04-09 00:13:10 -0700 (Wed, 09 Apr 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/beadarray | | Last Changed Rev: 30925 / Revision: 30951 | | Last Changed Date: 2008-04-08 11:19:33 -0700 (Tue, 08 Apr 2008) |
| 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 |
| pelham | Mac OS X Leopard (10.5.1) / i386 | OK | OK | OK |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.2-bioc/meat/beadarray.Rcheck'
* using R version 2.7.0 Under development (unstable) (2008-03-10 r44730)
* using session charset: ISO8859-1
* checking for file 'beadarray/DESCRIPTION' ... OK
* this is package 'beadarray' version '1.7.9'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'beadarray' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating beadarray-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating beadarray-manual.tex ... OK
* checking beadarray-manual.tex using pdflatex ... OK
installing R.css in E:/biocbld/bbs-2.2-bioc/meat/beadarray.Rcheck
---------- 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 -std=gnu99 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c BLImagePlot.c -o BLImagePlot.o
gcc -std=gnu99 -Ie:/biocbld/bbs-2.2-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 -std=gnu99 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c findProbeIndices.c -o findProbeIndices.o
gcc -std=gnu99 -Ie:/biocbld/bbs-2.2-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 -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.2-bioc/R/include -i beadarray_res.rc -o beadarray_res.o
gcc -std=gnu99 -shared -s -o beadarray.dll beadarray.def BLImagePlot.o createBeadSummaryData.o findProbeIndices.o readBeadImages.o beadarray_res.o -Le:/biocbld/bbs-2.2-bioc/R/bin -lR
... DLL made
installing DLL
installing R files
installing inst files
installing data files
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
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
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\bbs-2.2-bioc\meat\beadarray.Rcheck\00_pkg_src\beadarray\chm\beadarray.chm
Compile time: 0 minutes, 0 seconds
37 Topics
128 Local links
0 Internet links
1 Graphic
Created e:\biocbld\bbs-2.2-bioc\meat\beadarray.Rcheck\00_pkg_src\beadarray\chm\beadarray.chm, 69,326 bytes
Compression decreased file by 89,517 bytes.
adding MD5 sums
* DONE (beadarray)