# Copyright 2013-2019 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)

from spack import *
import os


class PhrapCrossmatchSwat(MakefilePackage):
    """phrap is a program for assembling shotgun DNA sequence data.
       cross_match is a general purpose utility for comparing any two DNA
       sequence sets using a 'banded' version of swat.
       swat is a program for searching one or more DNA or protein query
       sequences, or a query profile, against a sequence database"""

    homepage = "http://www.phrap.org/phredphrapconsed.html"
    url      = "file://{0}/phrap-crossmatch-swat-1.090518.tar.gz".format(os.getcwd())

    version('1.090518', sha256='81f50c4410e8604cdefcc34ef6dc7b037be3bb45b94c439611a5590c1cf83665')

    def install(self, spec, prefix):
        mkdirp(prefix.bin)
        for b in ['phrap', 'cross_match', 'swat']:
            install(b, prefix.bin)