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# Copyright 1999-2009 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1.ebuild,v 1.3 2009/02/26 17:36:19 weaver Exp $
DESCRIPTION="An ultrafast memory-efficient short read aligner"
HOMEPAGE="http://bowtie-bio.sourceforge.net/"
SRC_URI="mirror://sourceforge/bowtie-bio/${P}-src.zip"
LICENSE="Artistic"
SLOT="0"
IUSE=""
KEYWORDS="~amd64 ~x86"
DEPEND="app-arch/unzip"
RDEPEND=""
# NB: Bundles code from Maq (http://maq.sf.net) and the SeqAn library (http://www.seqan.de)
# FIXME: Requires patching for gcc 4.3
src_unpack() {
unpack ${A}
sed -i 's/$(CXX) $(RELEASE_FLAGS)/$(CXX) $(CXXFLAGS) $(RELEASE_FLAGS)/' "${S}/Makefile"
}
src_install() {
dobin bowtie bowtie-* || die
newman MANUAL bowtie.1
dodoc AUTHORS NEWS TUTORIAL
}
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