sigPathway

Package: sigPathway
Type: Package
Title: Pathway Analysis
Version: 1.40.0
Date: 2008-10-19
Author: Weil Lai (optimized R and C code), Lu Tian and Peter Park
(algorithm development and initial R code)
Maintainer: Weil Lai <wlai@alum.mit.edu>
Depends: R (>= 2.10)
Suggests: hgu133a.db (>= 1.10.0), XML (>= 1.6-3), AnnotationDbi (>=
1.3.12)
Description: Conducts pathway analysis by calculating the NT_k and NE_k
statistics as described in Tian et al. (2005)
License: GPL-2
URL: http://www.pnas.org/cgi/doi/10.1073/pnas.0506577102
http://www.chip.org/~ppark/Supplements/PNAS05.html
biocViews: DifferentialExpression, MultipleComparison
NeedsCompilation: yes
Packaged: 2016-05-04 02:52:41 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'sigPathway' ...
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c calc_gene_set_internal.c -o calc_gene_set_internal.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c calc_gene_set_stat.c -o calc_gene_set_stat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c calc_probe_stat.c -o calc_probe_stat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c calc_weights.c -o calc_weights.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c matrix_fn.c -o matrix_fn.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c permute.c -o permute.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c shuffle.c -o shuffle.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c sigPathway.c -o sigPathway.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o sigPathway.so calc_gene_set_internal.o calc_gene_set_stat.o calc_probe_stat.o calc_weights.o matrix_fn.o permute.o shuffle.o sigPathway.o -L/home/ddbj/local/lib64/R/lib -lRlapack -L/home/ddbj/local/lib64/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/sigPathway/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'sigPathway'
    finding HTML links ... done
    MuscleExample                           html  
    calcTNullFast                           html  
    calcTStatFast                           html  
    calculate.GSEA                          html  
    calculate.NGSk                          html  
    calculatePathwayStatistics              html  
    estimateNumPerm                         html  
    getPathwayStatistics.NGSk               html  
    getPathwayStatistics                    html  
    importGeneSets                          html  
    rankPathways.NGSk                       html  
    rankPathways                            html  
    runSigPathway                           html  
    selectGeneSets                          html  
    writeSigPathway                         html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (sigPathway)
Making 'packages.html' ... done