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# 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/ncbi-tools++/ncbi-tools++-0.2010.06.15-r1.ebuild,v 1.3 2012/11/05 11:22:49 jlec Exp $
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EAPI="3"
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inherit eutils flag-o-matic multilib toolchain-funcs
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MY_TAG="Jun_15_2010"
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MY_Y="${MY_TAG/*_/}"
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MY_P="ncbi_cxx--${MY_TAG}"
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DESCRIPTION="NCBI C++ Toolkit, including NCBI BLAST+"
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HOMEPAGE="http://www.ncbi.nlm.nih.gov/books/bv.fcgi?rid=toolkit"
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SRC_URI="
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ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/${MY_Y}/${MY_TAG}/${MY_P}.tar.gz
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http://dev.gentoo.org/~jlec/distfiles/${PN}-${PV#0.}-asneeded.patch.xz"
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LICENSE="public-domain"
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SLOT="0"
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IUSE="sqlite mysql"
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KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
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DEPEND="
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sqlite? ( dev-db/sqlite:3 )
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mysql? ( virtual/mysql )"
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RDEPEND="${DEPEND}"
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S="${WORKDIR}/${MY_P}"
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src_prepare() {
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# filter-ldflags -Wl,--as-needed
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# append-ldflags -Wl,--no-undefined
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sed -i -e 's/-print-file-name=libstdc++.a//' \
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-e '/sed/ s/\([gO]\[0-9\]\)\*/\1\\+/' \
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src/build-system/configure || die
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epatch \
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"${FILESDIR}"/${PN}-${PV#0.}-gcc46.patch \
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"${FILESDIR}"/${PN}-${PV#0.}-gcc47.patch \
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"${WORKDIR}"/${PN}-${PV#0.}-asneeded.patch \
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"${FILESDIR}"/${PN}-${PV#0.}-libpng15.patch \
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"${FILESDIR}"/${PN}-${PV#0.}-glibc-214.patch
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use prefix && append-ldflags -Wl,-rpath,"${EPREFIX}/usr/$(get_libdir)/${PN}"
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}
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src_configure() {
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tc-export CXX CC
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# conf check for sqlite and mysql
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"${S}"/configure --without-debug \
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--with-bin-release \
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--with-bincopy \
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--without-static \
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--with-dll \
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--with-mt \
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--prefix="${ED}"/usr \
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--libdir="${ED}"/usr/$(get_libdir)/${PN} \
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|| die
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}
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src_compile() {
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emake all_r -C GCC*-Release*/build || die
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}
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src_install() {
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emake install || die
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# File collisions with sci-biology/ncbi-tools
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rm -f "${ED}"/usr/bin/{asn2asn,rpsblast,test_regexp}
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echo "LDPATH=${EPREFIX}/usr/$(get_libdir)/${PN}" > ${S}/99${PN}
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doenvd "${S}/99${PN}"
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}
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pkg_postinst() {
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einfo 'Please run "source /etc/profile" before using this package in the current shell.'
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}
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