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# Copyright 1999-2015 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: $
EAPI=5
inherit eutils toolchain-funcs
DESCRIPTION="An ultrafast memory-efficient short read aligner"
HOMEPAGE="http://bowtie-bio.sourceforge.net/"
SRC_URI="mirror://sourceforge/bowtie-bio/${P}-src.zip"
LICENSE="Artistic"
SLOT="1"
KEYWORDS="~amd64 ~x86 ~x64-macos"
IUSE="examples"
DEPEND="app-arch/unzip"
RDEPEND=""
DOCS=( AUTHORS NEWS TUTORIAL doc/README )
HTML_DOCS=( doc/{manual.html,style.css} )
src_prepare() {
# Suppress useless -Wall pollution
sed -i 's/\-Wall/\-Wno-enum-compare/g' Makefile || die
}
src_compile() {
emake \
CC="$(tc-getCC)" \
CPP="$(tc-getCXX)" \
CFLAGS="" \
CXXFLAGS="" \
EXTRA_FLAGS="${LDFLAGS}" \
RELEASE_FLAGS="${CXXFLAGS}"
}
src_install() {
dobin ${PN} ${PN}-*
exeinto /usr/libexec/${PN}
doexe scripts/*
newman MANUAL ${PN}.1
einstalldocs
if use examples; then
insinto /usr/share/${PN}
doins -r genomes indexes
fi
}
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