97 lines
2.7 KiB
Bash
97 lines
2.7 KiB
Bash
# Copyright 1999-2012 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/vienna-rna/vienna-rna-1.8.5.ebuild,v 1.8 2012/02/26 01:44:58 patrick Exp $
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EAPI="3"
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PYTHON_DEPEND="python? 2"
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SUPPORT_PYTHON_ABIS="1"
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RESTRICT_PYTHON_ABIS="*-jython"
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inherit autotools distutils multilib perl-module toolchain-funcs
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DESCRIPTION="RNA secondary structure prediction and comparison"
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HOMEPAGE="http://www.tbi.univie.ac.at/~ivo/RNA/"
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SRC_URI="http://www.tbi.univie.ac.at/~ivo/RNA/ViennaRNA-${PV}.tar.gz"
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LICENSE="vienna-rna"
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SLOT="0"
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IUSE="python static-libs"
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KEYWORDS="amd64 ~ppc x86"
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DEPEND="
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dev-lang/perl
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media-libs/gd
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python? ( dev-lang/swig )"
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RDEPEND="${DEPEND}"
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S="${WORKDIR}/ViennaRNA-${PV}"
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PATCHES=(
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"${FILESDIR}"/${PN}-1.6.5-c-fixes.patch
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"${FILESDIR}"/${PN}-1.7.2-LDFLAGS.patch
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"${FILESDIR}"/${PN}-1.8.3-gcc4.3.patch
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"${FILESDIR}"/${PN}-1.8.3-disable-gd.patch
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"${FILESDIR}"/${PN}-1.8.4-jobserver-fix.patch
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"${FILESDIR}"/${PN}-1.8.4-bindir.patch
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"${FILESDIR}"/${PN}-1.8.4-overflows.patch
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"${FILESDIR}"/${PN}-1.8.4-implicits.patch
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)
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src_prepare() {
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base_src_prepare
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sed -i 's/ getline/ v_getline/' Readseq/ureadseq.c || die
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sed -i 's/@PerlCmd@ Makefile.PL/& INSTALLDIRS=vendor/' Perl/Makefile.am || die
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eautoreconf
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cd RNAforester && eautoreconf
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use python && cp "${FILESDIR}"/${P}-setup.py "${S}"/setup.py
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}
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src_configure() {
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econf --with-cluster
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sed -e "s:LIBDIR = /usr/lib:LIBDIR = ${D}/usr/$(get_libdir):" \
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-e "s:INCDIR = /usr/include:INCDIR = ${D}/usr/include:" \
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-i RNAforester/g2-0.70/Makefile \
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|| die "Failed patching RNAForester build system."
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sed -e "s:CC=cc:CC=$(tc-getCC):" -e "s:CFLAGS=:CFLAGS=${CFLAGS}:" \
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-i Readseq/Makefile || die "Failed patching readseq Makefile."
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}
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src_compile() {
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emake clean || die
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emake || die
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emake -C Readseq || die "Failed to compile readseq."
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# TODO: Add (optional?) support for the NCBI toolkit.
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if use python; then
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pushd Perl > /dev/null
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mv RNA_wrap.c{,-perl}
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swig -python RNA.i
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popd > /dev/null
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distutils_src_compile
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mv Perl/RNA_wrap.c{-perl,}
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fi
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}
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src_test() {
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cd "${S}"/Perl && emake check || die "Perl tests failed"
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cd "${S}"/Readseq && emake test || die "Readseq tests failed"
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}
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src_install() {
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emake DESTDIR="${D}" install || die
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if ! use static-libs; then
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rm -f "${ED}"/usr/$(get_libdir)/*.a || die
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fi
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dodoc AUTHORS ChangeLog NEWS README THANKS || die
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newbin Readseq/readseq readseq-vienna || die
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dodoc Readseq/Readseq.help || die
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newdoc Readseq/Readme README.readseq || die
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newdoc Readseq/Formats Formats.readseq || die
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# remove perlocal.pod to avoid file collisions (see #240358)
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fixlocalpod || die "Failed to remove perlocal.pod"
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use python && distutils_src_install
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}
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