| # Copyright 1999-2015 Gentoo Foundation |
| # Distributed under the terms of the GNU General Public License v2 |
| # $Id$ |
| |
| EAPI=5 |
| |
| inherit eutils flag-o-matic multilib toolchain-funcs |
| |
| EXTENSIONS="-without-extensions" |
| |
| DESCRIPTION="Multiple sequence alignments using a variety of algorithms" |
| HOMEPAGE="http://mafft.cbrc.jp/alignment/software/index.html" |
| SRC_URI="http://mafft.cbrc.jp/alignment/software/${P}${EXTENSIONS}-src.tgz" |
| |
| LICENSE="BSD" |
| SLOT="0" |
| KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos ~x86-macos" |
| IUSE="threads" |
| |
| S="${WORKDIR}"/${P}${EXTENSIONS} |
| |
| src_prepare() { |
| # epatch "${FILESDIR}"/${PN}-7.037-respect.patch |
| use threads && append-cppflags -Denablemultithread |
| # sed "s:GENTOOLIBDIR:$(get_libdir):g" -i core/Makefile || die |
| sed -i -e "s/(PREFIX)\/man/(PREFIX)\/share\/man/" "${S}"/core/Makefile || die "sed failed" |
| sed \ |
| -e 's:$(LDFLAGS)::g' \ |
| -e 's:$(CC) -o $@:$(CC) $(LDFLAGS) -o $@:g' \ |
| -e 's:$(CC) -shared -o $@:$(CC) $(LDFLAGS) -shared -o $@:g' \ |
| -e '/INSTALL/s: -s : :g' \ |
| -i core/Makefile || die |
| } |
| |
| src_compile() { |
| cd core || die |
| emake \ |
| $(usex threads ENABLE_MULTITHREAD="-Denablemultithread" ENABLE_MULTITHREAD="") \ |
| PREFIX="${EPREFIX}"/usr \ |
| CC="$(tc-getCC)" \ |
| CFLAGS="${CFLAGS} -Wno-unused-result" |
| } |
| |
| src_test() { |
| export MAFFT_BINARIES="${S}"/core |
| cd test || die |
| bash ../core/mafft sample > test.fftns2 || die |
| bash ../core/mafft --maxiterate 100 sample > test.fftnsi || die |
| bash ../core/mafft --globalpair sample > test.gins1 || die |
| bash ../core/mafft --globalpair --maxiterate 100 sample > test.ginsi || die |
| bash ../core/mafft --localpair sample > test.lins1 || die |
| bash ../core/mafft --localpair --maxiterate 100 sample > test.linsi || die |
| |
| diff test.fftns2 sample.fftns2 || die |
| diff test.fftnsi sample.fftnsi || die |
| diff test.gins1 sample.gins1 || die |
| diff test.ginsi sample.ginsi || die |
| diff test.lins1 sample.lins1 || die |
| } |
| |
| src_install() { |
| dodoc readme |
| cd core || die |
| emake PREFIX="${ED}usr" install |
| } |