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# Copyright 1999-2015 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
EAPI=5
DESCRIPTION="Pipeline to generate phylogenetic tree from SNP data"
HOMEPAGE="http://chibba.pgml.uga.edu/snphylo"
SRC_URI="http://chibba.pgml.uga.edu/snphylo/snphylo.tar.gz -> ${P}.tar.gz"
# http://github.com/thlee/SNPhylo
# http://www.biomedcentral.com/1471-2164/15/162
LICENSE="GPL-2"
SLOT="0"
KEYWORDS=""
IUSE=""
DEPEND=""
RDEPEND="${DEPEND}
sci-biology/fastdnaml
sci-biology/muscle
sci-biology/phylip"
# http://chibba.pgml.uga.edu/snphylo/install_on_linux.html
# R packages (phangorn, gdsfmt, SNPRelate and getopt)
# $ apt-get -y install r-base-dev r-cran-getopt r-cran-rgl
S="${WORKDIR}"/"${PN}"
src_compile(){
bash setup.sh || die
}
src_install(){
dobin snphylo.sh
}
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