gentoo-overlay/sci-biology/ncbi-tools++/ncbi-tools++-2010.06.15-r1.ebuild

# Copyright 1999-2012 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/ncbi-tools++/ncbi-tools++-2010.06.15-r1.ebuild,v 1.5 2012/06/03 12:53:18 jlec Exp $

EAPI="3"

inherit eutils flag-o-matic multilib toolchain-funcs

MY_TAG="Jun_15_2010"
MY_Y="${MY_TAG/*_/}"
MY_P="ncbi_cxx--${MY_TAG}"

DESCRIPTION="NCBI C++ Toolkit, including NCBI BLAST+"
HOMEPAGE="http://www.ncbi.nlm.nih.gov/books/bv.fcgi?rid=toolkit"
SRC_URI="
	ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/${MY_Y}/${MY_TAG}/${MY_P}.tar.gz
	http://dev.gentoo.org/~jlec/distfiles/${P}-asneeded.patch.xz"

LICENSE="public-domain"
SLOT="0"
IUSE="sqlite mysql"
KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"

DEPEND="
	sqlite? ( dev-db/sqlite:3 )
	mysql? ( virtual/mysql )"
RDEPEND="${DEPEND}"

S="${WORKDIR}/${MY_P}"

src_prepare() {
#	filter-ldflags -Wl,--as-needed
#	append-ldflags -Wl,--no-undefined
	sed -i -e 's/-print-file-name=libstdc++.a//' \
		-e '/sed/ s/\([gO]\[0-9\]\)\*/\1\\+/' \
		src/build-system/configure || die
	epatch \
		"${FILESDIR}"/${P}-gcc46.patch \
		"${FILESDIR}"/${P}-gcc47.patch \
		"${WORKDIR}"/${P}-asneeded.patch \
		"${FILESDIR}"/${P}-libpng15.patch \
		"${FILESDIR}"/${P}-glibc-214.patch

	use prefix && append-ldflags -Wl,-rpath,"${EPREFIX}/usr/$(get_libdir)/${PN}"
}

src_configure() {
	tc-export CXX CC
# conf check for sqlite and mysql
	"${S}"/configure --without-debug \
		--with-bin-release \
		--with-bincopy \
		--without-static \
		--with-dll \
		--with-mt \
		--prefix="${ED}"/usr \
		--libdir="${ED}"/usr/$(get_libdir)/${PN} \
		|| die
}

src_compile() {
	emake all_r -C GCC*-Release*/build || die
}

src_install() {
	emake install || die
	# File collisions with sci-biology/ncbi-tools
	rm -f "${ED}"/usr/bin/{asn2asn,rpsblast,test_regexp}

	echo "LDPATH=${EPREFIX}/usr/$(get_libdir)/${PN}" > ${S}/99${PN}
	doenvd "${S}/99${PN}"
}

pkg_postinst() {
	einfo 'Please run "source /etc/profile" before using this package in the current shell.'
}