# $Id: Portfile 73989 2010-12-01 19:01:59Z ryandesign@macports.org $

PortSystem          1.0

name                cufflinks
version             0.9.3
categories          science biology
platforms           darwin
maintainers         gmail.com:haroldpimentel
license             Boost

description         Cufflinks assembles transcripts, estimates their abundances,\
                    and tests for differential expression and regulation in RNA-Seq samples.

long_description    Cufflinks assembles transcripts, estimates their abundances, \
                    and tests for differential expression and regulation in RNA-Seq \
                    samples. It accepts aligned RNA-Seq reads and assembles the \
                    alignments into a parsimonious set of transcripts. \
                    Cufflinks then estimates the relative abundances of these \
                    transcripts based on how many reads support each one.

homepage            http://cufflinks.cbcb.umd.edu/
master_sites        ${homepage}downloads

checksums           sha1        f6c28d8f98569f8d1eae72ff050ce7d2d06bfba4\
                    rmd160      b9b3b8ec322e79e0e6f2b4b2f23de27b58ec44f4

depends_lib         port:zlib \
                    port:samtools \
                    port:boost

# samtools is not universal
universal_variant   no

post-destroot {
    xinstall -d ${destroot}${prefix}/share/doc/${name}
    xinstall -m 644 -W ${worksrcpath} \
        AUTHORS \
        LICENSE \
        README \
        ${destroot}${prefix}/share/doc/${name}
}