GLAD

Package: GLAD
Version: 2.36.0
Date: 2011-12-19
Title: Gain and Loss Analysis of DNA
Depends: R (>= 2.10)
SystemRequirements: gsl. Note: users should have GSL installed. Windows
users: 'consult the README file available in the inst directory
of the source distribution for necessary configuration
instructions'.
Suggests: aws, tcltk
Author: Philippe Hupe
Maintainer: Philippe Hupe <glad@curie.fr>
Description: Analysis of array CGH data : detection of breakpoints in
genomic profiles and assignment of a status (gain, normal or
loss) to each chromosomal regions identified.
License: GPL-2
URL: http://bioinfo.curie.fr
biocViews: Microarray, CopyNumberVariation
NeedsCompilation: yes
Packaged: 2016-05-04 02:42:47 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'GLAD' ...
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for GSL... yes
GSL has been found on the operating system
operating system: Linux
configure: creating ./config.status
config.status: creating src/Makevars

src/Makevars file

PKG_LIBS = -lgsl -lgslcblas -lm
PKG_CPPFLAGS = 

** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c BkpInfo.cpp -o BkpInfo.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c HaarSeg.cpp -o HaarSeg.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c MoveBkp.cpp -o MoveBkp.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c OutliersGNL.cpp -o OutliersGNL.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c chrBreakpoints.cpp -o chrBreakpoints.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c cutree.cpp -o cutree.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c daglad.cpp -o daglad.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c distance.cpp -o distance.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c filterBkp.cpp -o filterBkp.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c findCluster.cpp -o findCluster.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c glad-utils.cpp -o glad-utils.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c hclust.cpp -o hclust.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c laws.c -o laws.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c loopRemove.cpp -o loopRemove.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o GLAD.so BkpInfo.o HaarSeg.o MoveBkp.o OutliersGNL.o chrBreakpoints.o cutree.o daglad.o distance.o filterBkp.o findCluster.o glad-utils.o hclust.o laws.o loopRemove.o -lgsl -lgslcblas -lm -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/GLAD/libs
** R
** data
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'GLAD'
    finding HTML links ... done
    ChrNumeric                              html  
    ColorBar                                html  
    GLAD-internal                           html  
    arrayCGH                                html  
    arrayPersp                              html  
    arrayPlot                               html  
    as.data.frame.profileCGH                html  
    as.profileCGH                           html  
    bladder                                 html  
    cytoband                                html  
    daglad                                  html  
    glad                                    html  
    hclust                                  html  
    kernel                                  html  
    myPalette                               html  
    plotProfile                             html  
    profileCGH                              html  
    snijders                                html  
    tkdaglad                                html  
    veltman                                 html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (GLAD)
Making 'packages.html' ... done