| # Copyright 1999-2012 Gentoo Foundation |
| # Distributed under the terms of the GNU General Public License v2 |
| # $Id$ |
| |
| EAPI=4 |
| |
| inherit flag-o-matic autotools |
| |
| DESCRIPTION="A fast splice junction mapper for RNA-Seq reads" |
| HOMEPAGE="http://tophat.cbcb.umd.edu/" |
| SRC_URI="http://tophat.cbcb.umd.edu/downloads/${P}.tar.gz" |
| |
| LICENSE="Artistic" |
| SLOT="0" |
| IUSE="+bam" |
| KEYWORDS="~amd64 ~x86" |
| |
| DEPEND="bam? ( sci-biology/samtools )" |
| RDEPEND="${DEPEND} |
| sci-biology/bowtie" |
| |
| MAKEOPTS="${MAKEOPTS} -j1" |
| |
| src_prepare() { |
| filter-ldflags -Wl,--as-needed |
| eautoreconf |
| } |
| |
| src_configure() { |
| econf \ |
| $(use_with bam) |
| } |
