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# Copyright 1999-2013 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI=4
inherit eutils toolchain-funcs
DESCRIPTION="Whole genome association analysis toolset"
HOMEPAGE="http://pngu.mgh.harvard.edu/~purcell/plink/"
SRC_URI="http://pngu.mgh.harvard.edu/~purcell/plink/dist/${P}-src.zip"
LICENSE="GPL-2"
SLOT="0"
IUSE="lapack -webcheck R"
KEYWORDS="amd64 x86"
DEPEND="
app-arch/unzip
lapack? ( virtual/pkgconfig )"
RDEPEND="
sys-libs/zlib
lapack? ( virtual/lapack )"
S="${WORKDIR}/${P}-src"
# Package collides with net-misc/putty. Renamed to p-link following discussion with Debian.
# Package contains bytecode-only jar gPLINK.jar. Ignored, notified upstream.
src_prepare() {
epatch \
"${FILESDIR}"/${PV}-flags.patch \
"${FILESDIR}"/${P}-gcc47.patch
use webcheck || sed -i '/WITH_WEBCHECK =/ s/^/#/' "${S}/Makefile" || die
use R || sed -i '/WITH_R_PLUGINS =/ s/^/#/' "${S}/Makefile" || die
use lapack || sed -i '/WITH_LAPACK =/ s/^/#/' "${S}/Makefile" || die
tc-export PKG_CONFIG
}
src_compile() {
emake \
CXX_UNIX=$(tc-getCXX)
}
src_install() {
newbin plink p-link
dodoc README.txt
}
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