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# Copyright 1999-2015 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI=5
inherit toolchain-funcs
DESCRIPTION="Scaffold contigs using ABI Solid or Illumina mate pair info"
HOMEPAGE="http://www.cs.helsinki.fi/u/lmsalmel/mip-scaffolder"
SRC_URI="http://www.cs.helsinki.fi/u/lmsalmel/mip-scaffolder/"${P}".tar.gz"
LICENSE="BSD-2"
SLOT="0"
KEYWORDS="~amd64"
IUSE=""
DEPEND="sci-libs/lemon
sci-mathematics/lpsolve
dev-lang/perl"
RDEPEND="${DEPEND}"
src_prepare(){
sed -e 's:/home/user/lp-solve/:/usr/include/lpsolve/:; s:/home/user/lemon/:/usr/include/lemon:; s:/home/user/mip-scaffolder-0.6/:/usr/bin:' -i Makefile
find . -name Makefile | while read f; do sed -e "s:CC=g++:CC=$(tc-getCXX):; s:CFLAGS=-Wall -g -O9:CFLAGS=${CXXFLAGS}:" -i $f; done
sed -e 's:$(LPSOLVEROOT)/liblpsolve55.a:-llpsolve55:' -i split-scaffold/Makefile
}
src_install(){
dobin combine-scaffold/combine-scaffold filter-mappings/filter-mappings split-scaffold/split-scaffold write-scaffold/write-scaffold scripts/*.pl scripts/*.sh
dodoc README
}
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