snapCGH 1.10.0
Thomas Hardcastle
| Bioconductor Changelog | | Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/snapCGH | | Last Changed Rev: 34811 / Revision: 38965 | | Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008) |
| wilson2 | Linux (openSUSE 11.1) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | [ OK ] | OK | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | OK | OK |
| pelham | Mac OS X Leopard (10.5.6) / i386 | OK | OK | OK |
* checking for file 'snapCGH/DESCRIPTION' ... OK
* preparing 'snapCGH':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
installing R.css in E:/biocbld/bbs-2.3-bioc/tmpdir/Rinst319659838
---------- Making package snapCGH ------------
adding build stamp to DESCRIPTION
making DLL ...
making optimizer.d from optimizer.c
gcc -std=gnu99 -Ie:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c optimizer.c -o optimizer.o
optimizer.c: In function 'fr_two':
optimizer.c:26: warning: unused variable 'temp3'
optimizer.c:26: warning: unused variable 'temp2'
optimizer.c:26: warning: unused variable 'denom'
optimizer.c: In function 'fr_three':
optimizer.c:195: warning: unused variable 'temp3'
optimizer.c:195: warning: unused variable 'temp2'
optimizer.c:195: warning: unused variable 'denom'
optimizer.c:194: warning: unused variable 'alphahat'
optimizer.c: In function 'fr_four':
optimizer.c:413: warning: unused variable 'temp3'
optimizer.c:413: warning: unused variable 'temp2'
optimizer.c:413: warning: unused variable 'denom'
optimizer.c:412: warning: unused variable 'alphahat'
optimizer.c: In function 'fr_five':
optimizer.c:687: warning: unused variable 'temp3'
optimizer.c:687: warning: unused variable 'temp2'
optimizer.c:687: warning: unused variable 'denom'
optimizer.c:686: warning: unused variable 'alphahat'
windres --preprocessor="gcc -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.3-bioc/R/include -i snapCGH_res.rc -o snapCGH_res.o
gcc -std=gnu99 -shared -s -o snapCGH.dll snapCGH.def optimizer.o snapCGH_res.o -Le:/biocbld/bbs-2.3-bioc/R/bin -lR
... DLL made
installing DLL
installing R files
installing inst files
installing data files
preparing package snapCGH for lazy loading
Loading required package: limma
Loading required package: tilingArray
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: affy
Loading required package: RColorBrewer
Loading required package: grid
Loading required package: strucchange
Loading required package: zoo
Attaching package: 'zoo'
The following object(s) are masked from package:base :
as.Date.numeric
Loading required package: sandwich
Loading required package: vsn
Loading required package: lattice
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
Loading required package: geneplotter
Loading required package: annotate
Loading required package: AnnotationDbi
Loading required package: xtable
KernSmooth 2.22 installed
Copyright M. P. Wand 1997
Attaching package: 'geneplotter'
The following object(s) are masked from package:lattice :
panel.smoothScatter
Loading required package: pixmap
Loading required package: DNAcopy
Attaching package: 'DNAcopy'
The following object(s) are masked from package:tilingArray :
segment
Loading required package: GLAD
Loading required package: cluster
Loading required package: aCGH
Loading required package: multtest
Loading required package: sma
Attaching package: 'aCGH'
The following object(s) are masked from package:stats :
heatmap
installing man source files
installing indices
not zipping data
installing help
>>> Building/Updating help pages for package 'snapCGH'
Formats: text html latex example chm
IDProbes text html latex chm
LargeDataObject text html latex example chm
Note: unmatched right brace in file 'SegList.Rd' on or after line 31
Note: unmatched right brace in file 'SegList.Rd' on or after line 31
SegList text html latex chm
Viterbi.five text html latex chm
Viterbi.four text html latex chm
Viterbi.three text html latex chm
Viterbi.two text html latex chm
cbind text html latex chm
chrominfo.Mb text html latex chm
compareSegmentations text html latex chm
convert.output text html latex example chm
dim text html latex example chm
dimnames text html latex chm
filter text html latex chm
find.param.five text html latex chm
find.param.four text html latex chm
Note: unmatched right brace in file 'find.param.one.Rd' on or after line 18
Note: unmatched right brace in file 'find.param.one.Rd' on or after line 18
find.param.one text html latex chm
find.param.three text html latex chm
find.param.two text html latex chm
findBreakPoints text html latex chm
fit.model text html latex chm
Note: removing empty section \examples in file 'genomePlot.Rd'
Note: removing empty section \examples in file 'genomePlot.Rd'
genomePlot text html latex chm
Note: removing empty section \examples in file 'heatmapGenome.Rd'
Note: removing empty section \examples in file 'heatmapGenome.Rd'
heatmapGenome text html latex chm
imputeMissingValues text html latex chm
log2ratios text html latex chm
mergeStates text html latex chm
Note: unmatched right brace in file 'non.zero.length.distr.non.tiled.Rd' on or after line 9
Note: unmatched right brace in file 'non.zero.length.distr.non.tiled.Rd' on or after line 9
non.zero.length.distr.non.tiled text html latex chm
non.zero.length.distr.tiled text html latex chm
Note: removing empty section \examples in file 'plotSegmentedGenome.Rd'
Note: removing empty section \examples in file 'plotSegmentedGenome.Rd'
plotSegmentedGenome text html latex chm
Note: unmatched right brace in file 'processCGH.Rd' on or after line 44
Note: unmatched right brace in file 'processCGH.Rd' on or after line 44
processCGH text html latex chm
read.clonesinfo text html latex chm
readPositionalInfo text html latex chm
removeByWeights text html latex chm
runBioHMM text html latex chm
runDNAcopy text html latex chm
runGLAD text html latex chm
runHMM text html latex chm
runTilingArray text html latex chm
Note: removing empty section \examples in file 'sim.structure.Rd'
Note: removing empty section \examples in file 'sim.structure.Rd'
sim.structure text html latex chm
zero.length.distr.non.tiled text html latex chm
zero.length.distr.tiled text html latex chm
zoomChromosome text html latex chm
zoomGenome text html latex chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\bbs-2.3-bioc\meat\snapCGH\chm\snapCGH.chm
Compile time: 0 minutes, 1 second
44 Topics
178 Local links
0 Internet links
1 Graphic
Created e:\biocbld\bbs-2.3-bioc\meat\snapCGH\chm\snapCGH.chm, 64,504 bytes
Compression decreased file by 86,802 bytes.
adding MD5 sums
* DONE (snapCGH)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'snapCGH_1.10.0.tar.gz'