52 lines
1.3 KiB
Bash
52 lines
1.3 KiB
Bash
|
# Copyright 1999-2010 Gentoo Foundation
|
||
|
|
# Distributed under the terms of the GNU General Public License v2
|
||
|
|
# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r2.ebuild,v 1.3 2010/07/16 17:29:32 hwoarang Exp $
|
||
|
|
|
||
|
|
EAPI="2"
|
||
|
|
|
||
|
|
inherit eutils
|
||
|
|
|
||
|
|
MY_PV=${PV//./}
|
||
|
|
|
||
|
|
DESCRIPTION="An HMM-based microbial gene finding system from TIGR"
|
||
|
|
HOMEPAGE="http://www.cbcb.umd.edu/software/glimmer/"
|
||
|
|
SRC_URI="http://www.cbcb.umd.edu/software/${PN}/${PN}${MY_PV}.tar.gz"
|
||
|
|
|
||
|
|
LICENSE="Artistic"
|
||
|
|
SLOT="0"
|
||
|
|
IUSE=""
|
||
|
|
KEYWORDS="amd64 x86"
|
||
|
|
|
||
|
|
DEPEND=""
|
||
|
|
RDEPEND="app-shells/tcsh
|
||
|
|
!app-crypt/pkcrack
|
||
|
|
!media-libs/libextractor"
|
||
|
|
|
||
|
|
S="${WORKDIR}/${PN}${PV}"
|
||
|
|
|
||
|
|
src_prepare() {
|
||
|
|
sed -i -e 's|\(set awkpath =\).*|\1 /usr/share/'${PN}'/scripts|' \
|
||
|
|
-e 's|\(set glimmerpath =\).*|\1 /usr/bin|' scripts/* || die "failed to rewrite paths"
|
||
|
|
# Fix Makefile to die on failure
|
||
|
|
sed -i 's/$(MAKE) $(TGT)/$(MAKE) $(TGT) || exit 1/' src/c_make.gen || die
|
||
|
|
# GCC 4.3 include fix
|
||
|
|
sed -i 's/include <string>/include <string.h>/' src/Common/delcher.hh || die
|
||
|
|
epatch "${FILESDIR}/${P}-glibc210.patch"
|
||
|
|
epatch "${FILESDIR}/${P}-jobserver-fix.patch"
|
||
|
|
epatch "${FILESDIR}/${P}-ldflags.patch"
|
||
|
|
}
|
||
|
|
|
||
|
|
src_compile() {
|
||
|
|
emake -C src || die
|
||
|
|
}
|
||
|
|
|
||
|
|
src_install() {
|
||
|
|
rm bin/test
|
||
|
|
dobin bin/* || die
|
||
|
|
|
||
|
|
insinto /usr/share/${PN}/scripts
|
||
|
|
doins scripts/* || die
|
||
|
|
|
||
|
|
dodoc glim302notes.pdf
|
||
|
|
}
|