PING

Package: PING
Type: Package
Title: Probabilistic inference for Nucleosome Positioning with
MNase-based or Sonicated Short-read Data
Version: 2.16.0
Author: Xuekui Zhang <xuezhang@jhsph.edu>, Raphael Gottardo
<raph@stat.ubc.ca>, Sangsoon Woo, <swoo@fhcrc.org>
Maintainer: Renan Sauteraud <rsautera@fhcrc.org>
Depends: R (>= 2.15.0), chipseq, IRanges, GenomicRanges
Imports: methods, PICS, graphics, grDevices, stats, Gviz, fda,
BSgenome, stats4, BiocGenerics, IRanges, S4Vectors
Suggests: parallel, ShortRead, rtracklayer
Description: Probabilistic inference of ChIP-Seq using an empirical
Bayes mixture model approach.
Collate: setClasses.R setMethods.R PING.R postPING.R segmentPING.R
License: Artistic-2.0
Packaged: 2016-05-04 04:29:53 UTC; biocbuild
biocViews: Clustering, StatisticalMethod, Visualization, Sequencing
NeedsCompilation: yes

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'PING' ...
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for GSL... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c init.c -o init.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c ping.c -o ping.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o PING.so init.o ping.o -lgsl -lgslcblas -lm -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/PING/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'PING'
    finding HTML links ... done
    CoverageTrack                           html  
    finding level-2 HTML links ... done

Rd warning: /tmp/RtmpAS8WS9/R.INSTALL1151326d8290/PING/man/CoverageTrack.Rd:32: missing file link 'AnnotationTrack'
    NucleosomeTrack                         html  
Rd warning: /tmp/RtmpAS8WS9/R.INSTALL1151326d8290/PING/man/NucleosomeTrack.Rd:21: missing file link 'AnnotationTrack'
Rd warning: /tmp/RtmpAS8WS9/R.INSTALL1151326d8290/PING/man/NucleosomeTrack.Rd:34: missing file link 'DataTrack'
Rd warning: /tmp/RtmpAS8WS9/R.INSTALL1151326d8290/PING/man/NucleosomeTrack.Rd:35: missing file link 'AnnotationTrack'
    PICS_IMPORT                             html  
Rd warning: /tmp/RtmpAS8WS9/R.INSTALL1151326d8290/PING/man/PICS_IMPORT.Rd:38: missing file link 'segReadsList'
    PING                                    html  
    RawReadsTrack                           html  
Rd warning: /tmp/RtmpAS8WS9/R.INSTALL1151326d8290/PING/man/RawReadsTrack.Rd:33: missing file link 'DataTrack'
    ping-class                              html  
    pingError-class                         html  
    pingList-class                          html  
    plotSummary                             html  
    postPING                                html  
    segmentPING                             html  
    show                                    html  
    summary                                 html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (PING)
Making 'packages.html' ... done