66 lines
1.5 KiB
Bash
66 lines
1.5 KiB
Bash
# Copyright 1999-2020 Gentoo Authors
|
|
# Distributed under the terms of the GNU General Public License v2
|
|
|
|
EAPI=7
|
|
|
|
inherit toolchain-funcs
|
|
|
|
DESCRIPTION="The Celera de novo whole-genome shotgun DNA sequence assembler, aka CABOG"
|
|
HOMEPAGE="https://sourceforge.net/projects/wgs-assembler/"
|
|
SRC_URI="mirror://sourceforge/${PN}/wgs-${PV}.tar.bz2"
|
|
|
|
LICENSE="GPL-2"
|
|
SLOT="0"
|
|
KEYWORDS="amd64 x86"
|
|
|
|
DEPEND="
|
|
net-libs/libtirpc
|
|
x11-libs/libXt
|
|
!x11-terms/terminator"
|
|
RDEPEND="${DEPEND}
|
|
app-shells/tcsh
|
|
dev-perl/Log-Log4perl"
|
|
|
|
S="${WORKDIR}/wgs-${PV}"
|
|
|
|
PATCHES=(
|
|
"${FILESDIR}"/${P}-build.patch
|
|
"${FILESDIR}"/${P}-libtirpc.patch
|
|
)
|
|
|
|
src_configure() {
|
|
tc-export AR CC CXX
|
|
|
|
cd kmer || die
|
|
./configure.sh || die
|
|
}
|
|
|
|
src_compile() {
|
|
# not really an install target
|
|
emake -C kmer -j1 install
|
|
emake -C src -j1 SITE_NAME=LOCAL
|
|
}
|
|
|
|
src_install() {
|
|
OSTYPE=$(uname)
|
|
MACHTYPE=$(uname -m)
|
|
MACHTYPE=${MACHTYPE/x86_64/amd64}
|
|
MY_S="${OSTYPE}-${MACHTYPE}"
|
|
sed -i 's|#!/usr/local/bin/|#!/usr/bin/env |' $(find $MY_S -type f) || die
|
|
|
|
sed -i '/sub getBinDirectory ()/ a return "/usr/bin";' ${MY_S}/bin/runCA* || die
|
|
sed -i '/sub getBinDirectoryShellCode ()/ a return "bin=/usr/bin\n";' ${MY_S}/bin/runCA* || die
|
|
sed -i '1 a use lib "/usr/share/'${PN}'/lib";' $(find $MY_S -name '*.p*') || die
|
|
|
|
dobin kmer/${MY_S}/bin/*
|
|
|
|
insinto /usr/include/${PN}
|
|
doins -r kmer/${MY_S}/include/.
|
|
|
|
insinto /usr/share/${PN}/lib
|
|
doins -r ${MY_S}/bin/TIGR
|
|
rm -rf ${MY_S}/bin/TIGR || die
|
|
dobin ${MY_S}/bin/*
|
|
|
|
dodoc README
|
|
}
|