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# 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
}
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