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# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI="3"
inherit eutils flag-o-matic
DESCRIPTION="A rapid whole genome aligner"
HOMEPAGE="http://mummer.sourceforge.net/"
SRC_URI="mirror://sourceforge/mummer/MUMmer${PV}.tar.gz"
LICENSE="Artistic"
SLOT="0"
IUSE="doc"
KEYWORDS="amd64 x86"
DEPEND=""
RDEPEND="app-shells/tcsh"
S="${WORKDIR}/MUMmer${PV}"
src_prepare() {
use amd64 && append-flags -DSIXTYFOURBITS
epatch \
"${FILESDIR}"/${PV}-prll.patch \
"${FILESDIR}"/${PV}-ldflags.patch
sed \
-e '/^CFLAGS/d' \
-e '/^CXXFLAGS/d' \
-e '/^LDFLAGS/d' \
-i Makefile || die
}
src_compile() {
emake || die
sed -i -e 's|\($AUX_BIN_DIR = "\).*"|\1/usr/bin"|' \
-e 's|\($BIN_DIR = "\).*"|\1/usr/bin"|' \
-e 's|\($SCRIPT_DIR = "\).*"|\1/usr/share/'${PN}'/lib"|' \
-e 's|\(set bindir = \).*|\1/usr/bin|' \
-e 's|\(set scriptdir = \).*|\1/usr/share/'${PN}'/scripts|' \
-e 's|\(use lib "\).*"|\1/usr/share/'${PN}'/lib"|' \
scripts/* exact-tandems mapview mummerplot nucmer promer run-mummer{1,3} || die
mv annotate mummer-annotate || die
sed -i 's|$bindir/annotate|$bindir/mummer-annotate|' run-mummer1 scripts/run-mummer1.csh || die
}
src_install() {
dobin $(find . -maxdepth 1 -type f -executable) aux_bin/* || die
insinto /usr/share/${PN}/scripts
doins scripts/{*.awk,*.csh,*.pl} || die
insinto /usr/share/${PN}/lib
doins scripts/Foundation.pm || die
dodoc ACKNOWLEDGEMENTS ChangeLog README || die
insinto /usr/share/doc/${PF}
if use doc; then
doins -r docs || die
fi
}
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