aCGH 1.12.0
Jane Fridlyand
| 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/aCGH | | Last Changed Rev: 28558 / Revision: 30966 | | Last Changed Date: 2007-11-07 23:08:50 -0800 (Wed, 07 Nov 2007) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | WARNINGS | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | WARNINGS | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | WARNINGS | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | WARNINGS | OK |
| lemming | Windows Server 2003 (32-bit) / x64 | [ OK ] | WARNINGS | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | WARNINGS | OK |
* checking for file 'aCGH/DESCRIPTION' ... OK
* preparing 'aCGH':
* 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/Rinst421201901
---------- Making package aCGH ------------
adding build stamp to DESCRIPTION
making DLL ...
making hmm.d from hmm.cpp
g++-sjlj -g3 -Id:/biocbld/bbs-2.1-bioc/R/include -O2 -Wall -c hmm.cpp -o hmm.o
hmm.cpp: In function 'double calc_observed_likelihood_iter(std::vector<std::vector<double, std::allocator<double> >, std::allocator<std::vector<double, std::allocator<double> > > >&, std::vector<std::vector<double, std::allocator<double> >, std::allocator<std::vector<double, std::allocator<double> > > >&, double*, bool, double*, std::vector<std::vector<double, std::allocator<double> >, std::allocator<std::vector<double, std::allocator<double> > > >&, std::vector<std::vector<double, std::allocator<double> >, std::allocator<std::vector<double, std::allocator<double> > > >&, bool)':
hmm.cpp:32: warning: deprecated conversion from string constant to 'char*'
hmm.cpp:42: warning: deprecated conversion from string constant to 'char*'
hmm.cpp:82: warning: deprecated conversion from string constant to 'char*'
hmm.cpp:87: warning: deprecated conversion from string constant to 'char*'
windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I d:/biocbld/bbs-2.1-bioc/R/include -i aCGH_res.rc -o aCGH_res.o
g++-sjlj -shared -s -o aCGH.dll aCGH.def hmm.o aCGH_res.o -Ld:/biocbld/bbs-2.1-bioc/R/bin -lm -lR
... DLL made
installing DLL
installing R files
installing demos
installing inst files
installing data files
preparing package aCGH for lazy loading
Loading required package: cluster
Loading required package: survival
Loading required package: splines
Loading required package: multtest
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: sma
installing man source files
installing indices
not zipping data
installing help
Note: unmatched right brace in 'aCGH.process' on or after line 28
Note: unmatched right brace in 'aCGH.process.Rd' on or after line 28
>>> Building/Updating help pages for package 'aCGH'
Formats: text html latex example chm
aCGH text html latex example chm
aCGH.process text html latex example chm
aCGH.read.Sprocs text html latex example chm
aCGH.test text html latex example chm
clusterGenome text html latex example chm
colorectal text html latex example chm
computeSD.func text html latex chm
fga.func text html latex example chm
find.genomic.events text html latex chm
find.hmm.states text html latex example chm
findAber.func text html latex chm
findAmplif.func text html latex chm
findOutliers.func text html latex chm
findTrans.func text html latex chm
gainLoss text html latex example chm
heatmap text html latex example chm
human.chrom.info.Jul03 text html latex chm
human.chrom.info.May04 text html latex chm
impute.HMM text html latex example chm
impute.lowess text html latex example chm
mergeFunc text html latex chm
mergeLevels text html latex example chm
plotFreqStat text html latex example chm
plotGenome text html latex example chm
plotHmmStates text html latex example chm
plotSummaryProfile text html latex example chm
states.hmm.func text html latex chm
summarize.clones text html latex example chm
threshold.func text html latex example chm
HHC5012: Error: Cannot create a temporary file in your TEMP path.
HHC4016: Warning: Cannot open "n;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\aCGH\chm\aCGH.chm
HHC4016: Warning: Cannot open "n;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:
adding MD5 sums
* DONE (aCGH)
* 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 'aCGH_1.12.0.tar.gz'