snapCGH 1.23.0
John Marioni
| Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/snapCGH | | Last Changed Rev: 54810 / Revision: 55359 | | Last Changed Date: 2011-04-13 18:14:51 -0700 (Wed, 13 Apr 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | OK | [ OK ] |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
* installing *source* package 'snapCGH' ...
** libs
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/include" -O2 -Wall -std=gnu99 -c optimizer.c -o optimizer.o
optimizer.c: In function 'fr_two':
optimizer.c:26:30: warning: unused variable 'temp3'
optimizer.c:26:23: warning: unused variable 'temp2'
optimizer.c:26:10: warning: unused variable 'denom'
optimizer.c: In function 'fr_three':
optimizer.c:195:30: warning: unused variable 'temp3'
optimizer.c:195:23: warning: unused variable 'temp2'
optimizer.c:195:10: warning: unused variable 'denom'
optimizer.c:194:69: warning: unused variable 'alphahat'
optimizer.c: In function 'fr_four':
optimizer.c:413:30: warning: unused variable 'temp3'
optimizer.c:413:23: warning: unused variable 'temp2'
optimizer.c:413:10: warning: unused variable 'denom'
optimizer.c:412:69: warning: unused variable 'alphahat'
optimizer.c: In function 'fr_five':
optimizer.c:687:30: warning: unused variable 'temp3'
optimizer.c:687:23: warning: unused variable 'temp2'
optimizer.c:687:10: warning: unused variable 'denom'
optimizer.c:686:69: warning: unused variable 'alphahat'
optimizer.c:943:4: warning: assuming signed overflow does not occur when assuming that (X + c) < X is always false
optimizer.c: In function 'fr_four':
optimizer.c:585:1: warning: assuming signed overflow does not occur when assuming that (X + c) < X is always false
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o snapCGH.dll tmp.def optimizer.o -LD:/biocbld/bbs-2.9-bioc/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/snapCGH.buildbin-libdir/snapCGH/libs/x64
** R
** data
** inst
** preparing package for lazy loading
**************************************************************************
The plan to change the data format for CNA object has been postponed
in order to ensure backward compatibility with older versions of DNAcopy
**************************************************************************
######################################################################################
Have fun with GLAD
For smoothing it is possible to use either
the AWS algorithm (Polzehl and Spokoiny, 2002)
or the HaarSeg algorithm (Ben-Yaacov and Eldar, Bioinformatics, 2008)
If you use the package with AWS, please cite:
Hupe et al. (Bioinformatics, 2004) and Polzehl and Spokoiny (2002)
If you use the package with HaarSeg, please cite:
Hupe et al. (Bioinformatics, 2004) and (Ben-Yaacov and Eldar, Bioinformatics, 2008)
For fast computation it is recommanded to use
the daglad function with smoothfunc=haarseg
######################################################################################
New options are available in daglad: see help for details.
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation("pkgname")'.
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'snapCGHguide.Rnw'
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'snapCGH' as snapCGH_1.23.0.zip
* DONE (snapCGH)