spliceSites

Package: spliceSites
Type: Package
Title: A bioconductor package for exploration of alignment gap
positions from RNA-seq data
Version: 1.20.0
Date: 2012-10-28
Author: Wolfgang Kaisers
Maintainer: Wolfgang Kaisers <kaisers@med.uni-duesseldorf.de>
Description: Performs splice centered analysis on RNA-seq data.
License: GPL-2
biocViews: RNAseq,GeneExpression,DifferentialExpression,Proteomics
Depends: methods, rbamtools (>= 2.14.3), refGenome (>=
1.6.0), Biobase, Biostrings (>= 2.28.0)
Imports: BiocGenerics, doBy, seqLogo, IRanges
Collate: allClasses.r allGenerics.r c-methods.r dim-methods.r
head-methods.r show-methods.r spliceSites.r
Packaged: 2016-05-04 05:11:47 UTC; biocbuild
NeedsCompilation: yes

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'spliceSites' ...
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c spliceSites.c -o spliceSites.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o spliceSites.so spliceSites.o -lm -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/spliceSites/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'spliceSites'
    finding HTML links ... done
    SpliceCountSet-class                    html  
    aaGapSites-class                        html  
    addGeneAligns                           html  
    addHbond                                html  
    addMaxEnt                               html  
    alt_X_ranks                             html  
    annGapSites-class                       html  
    annotate-ExpressionSet                  html  
    annotation                              html  
    as.data.frame-methods                   html  
    c-methods                               html  
    cRanges-class                           html  
    caRanges-class                          html  
    cdRanges-class                          html  
    countByGeneName                         html  
    dim-methods                             html  
    dnaGapSites-class                       html  
    dnaRanges                               html  
    extractByGeneName                       html  
    extractRange                            html  
    gapSites-class                          html  
    gapSites                                html  
    getGapSites                             html  
    hbond-class                             html  
    head-methods                            html  
    initialize-methods                      html  
    keyProfiler-class                       html  
    lrCodons                                html  
    maxEnt-class                            html  
    merge-methods                           html  
    plotGeneAlignDepth                      html  
    rangeByGeneName                         html  
    readCuffGeneFpkm                        html  
    readExpSet                              html  
    readMergedBamGaps                       html  
    readTabledBamGaps                       html  
    seqlogo                                 html  
    silic_tryp                              html  
    sortTable-methods                       html  
    spliceSites-package                     html  
    trim                                    html  
    truncateSeq                             html  
    truncate_seq                            html  
    trypsinCleave                           html  
    uniqueJuncAnn                           html  
    write.files                             html  
    xCodons                                 html  
    xJunc                                   html  
    xJuncStrand                             html  
    z[-methods                              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (spliceSites)
Making 'packages.html' ... done