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# Copyright 1999-2016 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI=5
inherit eutils flag-o-matic fortran-2 toolchain-funcs
DESCRIPTION="A suite of algorithms for ecological bioinformatics"
HOMEPAGE="http://www.mothur.org/"
SRC_URI="https://github.com/mothur/mothur/archive/v${PV}.tar.gz -> ${P}.tar.gz"
LICENSE="GPL-3"
SLOT="0"
IUSE="mpi readline zlib"
KEYWORDS="~amd64 ~x86"
CDEPEND="dev-libs/boost"
RDEPEND="
readline? ( sys-libs/readline:= )
sci-biology/uchime
mpi? ( virtual/mpi )"
DEPEND="${RDEPEND}
app-arch/unzip"
pkg_setup() {
fortran-2_pkg_setup
use mpi && export CXX=mpicxx || export CXX=$(tc-getCXX)
use amd64 && append-cppflags -DBIT_VERSION
use readline && export USEREADLINE=yes || export USEREADLINE=no
export USEBOOST=yes
use zlib && export USECOMPRESSION=yes || export USECOMPRESSION=no
}
src_prepare() {
epatch \
"${FILESDIR}"/${P}-makefile.patch \
# "${FILESDIR}"/${PN}-1.27.0-overflows.patch
}
src_compile() {
# USEBOOST should be set already in pkg_setup
emake USEMPI=$(usex mpi) USEREADLINE=$(usex readline) USECOMPRESSION=$(usex zlib)
}
src_install() {
dobin ${PN}
dodoc README.md
}
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