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# Copyright 1999-2014 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
EAPI="5"
inherit perl-module
DESCRIPTION="Do It Yourself Annotation, a collection of tools and libraries for sequence assembly and annotation"
HOMEPAGE="http://gmod.org/wiki/Diya"
SRC_URI="mirror://sourceforge/diyg/files/diya/diya-1.0/diya-${PV/_/-}.tar.gz"
LICENSE="GPL-3"
SLOT="0"
IUSE="-minimal"
KEYWORDS="~amd64 ~x86"
DEPEND="sci-biology/bioperl
dev-perl/Data-Utilities
dev-perl/XML-Simple"
RDEPEND="${DEPEND}
!minimal? (
sci-biology/mummer
sci-biology/glimmer
sci-biology/trnascan-se
sci-biology/infernal )"
# see ftp://ftp.ncbi.nih.gov/blast/ to check if blast and blast+ are different from ncbi-tools and ncbi-tools++
# * rfamscan.pl v0.1 (http://www.sanger.ac.uk/Users/sgj/code/)
# * UniRef50 (http://www.ebi.ac.uk/uniref/)
# * Protein Clusters (ftp://ftp.ncbi.nih.gov/genomes/Bacteria/CLUSTERS/)
# The file cddid_all.tbl can be found at ftp://ftp.ncbi.nih.gov/pub/mmdb/cdd/.
S="${WORKDIR}/diya-${PV/_/-}"
SRC_TEST=do
src_install() {
mydoc="INSTALL README docs/diya.html"
perl-module_src_install
insinto /usr/share/${PN}
doins -r diya.conf docs examples scripts
}
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