61 lines
1.9 KiB
Bash
61 lines
1.9 KiB
Bash
# Copyright 1999-2013 Gentoo Foundation
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# Distributed under the terms of the GNU General Public License v2
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# $Header: /var/cvsroot/gentoo-x86/sci-biology/mafft/mafft-7.050.ebuild,v 1.2 2013/07/19 09:44:31 jlec Exp $
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EAPI=5
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inherit eutils flag-o-matic multilib toolchain-funcs
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EXTENSIONS="-without-extensions"
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DESCRIPTION="Multiple sequence alignments using a variety of algorithms"
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HOMEPAGE="http://mafft.cbrc.jp/alignment/software/index.html"
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SRC_URI="http://mafft.cbrc.jp/alignment/software/${P}${EXTENSIONS}-src.tgz"
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LICENSE="BSD"
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SLOT="0"
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KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos ~x86-macos"
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IUSE="threads"
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S="${WORKDIR}"/${P}${EXTENSIONS}
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src_prepare() {
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epatch "${FILESDIR}"/${PN}-7.037-respect.patch
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use threads && append-cppflags -Denablemultithread
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sed "s:GENTOOLIBDIR:$(get_libdir):g" -i core/Makefile || die
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sed -i -e "s/(PREFIX)\/man/(PREFIX)\/share\/man/" "${S}"/core/Makefile || die "sed failed"
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}
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src_compile() {
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pushd core > /dev/null || die
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emake \
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$(usex threads ENABLE_MULTITHREAD="-Denablemultithread" ENABLE_MULTITHREAD="") \
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PREFIX="${EPREFIX}"/usr \
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CC="$(tc-getCC)" \
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CFLAGS="${CFLAGS}"
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popd > /dev/null || die
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}
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src_test() {
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export MAFFT_BINARIES="${S}"/core
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cd test || die
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bash ../core/mafft sample > test.fftns2 || die
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bash ../core/mafft --maxiterate 100 sample > test.fftnsi || die
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bash ../core/mafft --globalpair sample > test.gins1 || die
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bash ../core/mafft --globalpair --maxiterate 100 sample > test.ginsi || die
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bash ../core/mafft --localpair sample > test.lins1 || die
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bash ../core/mafft --localpair --maxiterate 100 sample > test.linsi || die
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diff test.fftns2 sample.fftns2 || die
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diff test.fftnsi sample.fftnsi || die
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diff test.gins1 sample.gins1 || die
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diff test.ginsi sample.ginsi || die
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diff test.lins1 sample.lins1 || die
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}
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src_install() {
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pushd core
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emake PREFIX="${ED}usr" install
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popd
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dodoc readme
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}
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