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# Copyright 1999-2016 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI=5
PYTHON_COMPAT=( python2_7 )
USE_RUBY="ruby20 ruby21"
if [ "$PV" == "9999" ]; then
ESVN_REPO_URI="http://biopieces.googlecode.com/svn/trunk"
KEYWORDS=""
inherit subversion
else
SRC_URI="http://biopieces.googlecode.com/files/biopieces_installer-${PV}.sh"
KEYWORDS=""
fi
inherit ruby-fakegem python-single-r1
DESCRIPTION="Trim adaptors, plot read lengths, qualities, map reads and submit to GenBank"
HOMEPAGE="http://code.google.com/p/biopieces"
SRC_URI=""
LICENSE="GPL-2"
SLOT="0"
IUSE="test"
REQUIRED_USE="${PYTHON_REQUIRED_USE}"
# Ruby terminal-table ?
CDEPEND="${PYTHON_DEPS}
>=dev-lang/perl-5.8
dev-perl/libwww-perl
dev-perl/Bit-Vector
dev-perl/Carp-Clan
dev-perl/Class-Inspector
dev-perl/DBD-mysql
dev-perl/DBI
dev-perl/HTML-Parser
dev-perl/Inline
dev-perl/Parse-RecDescent
dev-perl/SOAP-Lite
dev-perl/SVG
dev-perl/TermReadKey
dev-perl/URI
dev-perl/XML-Parser
virtual/perl-version
virtual/perl-DB_File
virtual/perl-Time-HiRes"
DEPEND="${CDEPEND}"
ruby_add_bdepend "dev-ruby/RubyInline"
ruby_add_rdepend "dev-ruby/gnuplot dev-ruby/narray"
# sci-biology/vmatch # http://www.vmatch.de/ # fecth restrict
# sci-biology/usearch-bin # http://www.drive5.com/usearch/ # fecth restrict
RDEPEND="${CDEPEND}
sci-biology/ncbi-tools
sci-biology/muscle
sci-biology/mummer
sci-biology/blat
sci-biology/bowtie
sci-biology/bwa
sci-biology/velvet
sci-biology/Ray
sci-biology/scan_for_matches
sci-biology/idba"
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