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Diffstat (limited to 'sci-biology/lagan/lagan-2.0-r1.ebuild')
| -rw-r--r-- | sci-biology/lagan/lagan-2.0-r1.ebuild | 50 |
1 files changed, 50 insertions, 0 deletions
diff --git a/sci-biology/lagan/lagan-2.0-r1.ebuild b/sci-biology/lagan/lagan-2.0-r1.ebuild new file mode 100644 index 000000000000..63b966e79ef0 --- /dev/null +++ b/sci-biology/lagan/lagan-2.0-r1.ebuild @@ -0,0 +1,50 @@ +# Copyright 1999-2009 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI="2" + +inherit eutils + +MY_P="lagan20" + +DESCRIPTION="LAGAN, Multi-LAGAN, Shuffle-LAGAN, Supermap: Whole-genome multiple alignment of genomic DNA" +HOMEPAGE="http://lagan.stanford.edu/lagan_web/index.shtml" +SRC_URI="http://lagan.stanford.edu/lagan_web/${MY_P}.tar.gz" + +LICENSE="GPL-2" +SLOT="0" +IUSE="" +KEYWORDS="~amd64 ~x86" + +DEPEND="" +RDEPEND="" + +S="${WORKDIR}/${MY_P}" + +src_prepare() { + sed -i "/use Getopt::Long;/ i use lib \"/usr/share/${PN}/lib\";" "${S}/supermap.pl" || die + # NB: Testing with glibc-2.10 has uncovered a bug in src/utils/Sequence.h where libc getline is erroneously used instead of own getline + sed -i 's/getline/my_getline/' "${S}"/src/{anchors.c,glocal/io.cpp} || die + epatch "${FILESDIR}"/${P}-*.patch +} + +src_install() { + dobin lagan.pl slagan.pl mlagan + rm lagan.pl slagan.pl utils/Utils.pm + dodir /usr/share/${PN}/lib + insinto /usr/share/${PN}/lib + doins Utils.pm + exeinto /usr/share/${PN}/utils + doexe utils/* + exeinto /usr/share/${PN} + doexe *.pl anchors chaos glocal order prolagan + insinto /usr/share/${PN} + doins *.txt + dosym /usr/share/${PN}/supermap.pl /usr/bin/supermap + dosym /usr/bin/lagan.pl /usr/bin/lagan + dosym /usr/bin/slagan.pl /usr/bin/slagan + echo "LAGAN_DIR=\"/usr/share/${PN}\"" > ${S}/99${PN} + doenvd "${S}/99${PN}" + dodoc Readmes/README.* +} |