GLAD 2.0.0
Philippe Hupe
| Bioconductor Changelog | | Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/GLAD | | Last Changed Rev: 39013 / Revision: 42512 | | Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009) |
| wilson1 | 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 (10.5.8) / i386 | OK | OK | OK |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.4-bioc/meat/GLAD.Rcheck'
* using R version 2.9.2 (2009-08-24)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GLAD/DESCRIPTION' ... OK
* this is package 'GLAD' version '2.0.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GLAD' 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 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 ... NOTE
chrBreakpoints.profileCGH: no visible global function definition for
'laws'
chrBreakpoints.profileCGH: possible error in aws(y =
subsetdata$LogRatio, x = x, hinit = hinit, hmax = hmax, sigma2 =
sigma, NN = FALSE, symmetric = TRUE, ...): unused argument(s) (x = x,
hinit = hinit, NN = FALSE, symmetric = TRUE)
chrBreakpoints.profileCGH: possible error in aws(y =
subsetdata$LogRatio, hinit = hinit, hmax = hmax, sigma2 = sigma,
symmetric = TRUE, ...): unused argument(s) (hinit = hinit, symmetric
= TRUE)
plotProfile.profileCGH: no visible binding for global variable
'cytoband'
* checking Rd files ... OK
* checking Rd files against version 2 parser ... 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
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK
* Installing *source* package 'GLAD' ...
** libs
making DLL ...
gcc -I"e:/biocbld/bbs-2.4-bioc/R/include" -O3 -Wall -std=gnu99 -c HaarSeg.c -o HaarSeg.o
HaarSeg.c: In function 'HaarConv':
HaarSeg.c:47: warning: unused variable 'totalNorm'
HaarSeg.c:134:8: warning: "/*" within comment
HaarSeg.c:158:8: warning: "/*" within comment
HaarSeg.c: In function 'FindLocalPeaks':
HaarSeg.c:110: warning: unused variable 'j'
HaarSeg.c: In function 'HaarConv':
HaarSeg.c:46: warning: 'highNonNormed' may be used uninitialized in this function
HaarSeg.c:45: warning: 'lowNonNormed' may be used uninitialized in this function
HaarSeg.c:42: warning: 'highWeightSum' may be used uninitialized in this function
HaarSeg.c:41: warning: 'lowWeightSum' may be used uninitialized in this function
gcc -I"e:/biocbld/bbs-2.4-bioc/R/include" -O3 -Wall -std=gnu99 -c distance.c -o distance.o
gcc -I"e:/biocbld/bbs-2.4-bioc/R/include" -O3 -Wall -std=gnu99 -c glad-function.c -o glad-function.o
g++ -I"e:/biocbld/bbs-2.4-bioc/R/include" -O2 -Wall -c glad.cpp -o glad.o
glad.cpp: In function 'void detectOutliers(double*, int*, int*, int*, int*, int*, double*, int*)':
glad.cpp:112: warning: comparison between signed and unsigned integer expressions
gcc -I"e:/biocbld/bbs-2.4-bioc/R/include" -O3 -Wall -std=gnu99 -c hclust.c -o hclust.o
gcc -I"e:/biocbld/bbs-2.4-bioc/R/include" -O3 -Wall -std=gnu99 -c laws.c -o laws.o
g++ -shared -s -o GLAD.dll tmp.def HaarSeg.o distance.o glad-function.o glad.o hclust.o laws.o -Le:/biocbld/bbs-2.4-bioc/R/bin -lR
... done
** R
** data
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
>>> Building/Updating help pages for package 'GLAD'
Formats: text html latex example chm
ChrNumeric text html latex example chm
ColorBar text html latex example chm
GLAD-internal text html latex chm
arrayCGH text html latex example chm
arrayPersp text html latex example chm
arrayPlot text html latex example chm
as.data.frame.profileCGH text html latex example chm
as.profileCGH text html latex example chm
bladder text html latex example chm
cytoband text html latex example chm
daglad text html latex example chm
glad text html latex example chm
hclust text html latex example chm
kernel text html latex chm
myPalette text html latex example chm
plotProfile text html latex example chm
profileCGH text html latex example chm
snijders text html latex example chm
tkdaglad text html latex example chm
veltman text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\BBS-2~1.4-B\meat\GLAD~1.RCH\00_PKG~1\GLAD\chm\GLAD.chm
Compile time: 0 minutes, 0 seconds
21 Topics
100 Local links
14 Internet links
1 Graphic
Created e:\biocbld\BBS-2~1.4-B\meat\GLAD~1.RCH\00_PKG~1\GLAD\chm\GLAD.chm, 54,027 bytes
Compression decreased file by 54,223 bytes.
** building package indices ...
** MD5 sums
* DONE (GLAD)