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# Copyright 1999-2015 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
EAPI=5
AUTOTOOLS_AUTORECONF=true
inherit autotools-utils
DESCRIPTION="Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler"
HOMEPAGE="http://www.bcgsc.ca/platform/bioinfo/software/abyss/"
SRC_URI="http://www.bcgsc.ca/downloads/abyss/${P}.tar.gz"
LICENSE="abyss"
SLOT="0"
IUSE="+mpi openmp"
KEYWORDS="~amd64 ~x86"
DEPEND="
dev-cpp/sparsehash
mpi? ( virtual/mpi )"
RDEPEND="${DEPEND}"
# todo: --enable-maxk=N configure option
# todo: fix automagic mpi toggling
PATCHES=(
"${FILESDIR}"/${P}-gcc-4.7.patch
"${FILESDIR}"/${PN}-1.3.3-ac_prog_ar.patch
"${FILESDIR}"/${P}-samtoafg.patch
)
src_prepare() {
tc-export AR
sed -i -e "s/-Werror//" configure.ac || die #365195
sed -i -e "/dist_pkgdoc_DATA/d" Makefile.am || die
autotools-utils_src_prepare
}
src_configure() {
local myeconfargs=(
--docdir="${EPREFIX}/usr/share/doc/${PF}"
$(use_enable openmp)
)
autotools-utils_src_configure
}
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