# Copyright 2013-2020 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 *


class PyTetoolkit(PythonPackage):
    """TEToolkit is a software package that utilizes both unambiguously
       (uniquely) and ambiguously (multi-) mapped reads to perform
       differential enrichment analyses from high throughput sequencing
       experiments."""

    homepage = "http://hammelllab.labsites.cshl.edu/software"
    pypi = "TEToolkit/TEToolkit-1.5.1.tar.gz"

    version('2.0.3', sha256='1d0f5928b30c6cd9dbef8e092ae0c11e9e707faf92a19af8eed3e360da7d4e46')
    version('1.5.1', sha256='22c13ca45bccc89e9d9bf48d59ae6db1fa4c634def64fc56ba9bffd23aa689ac')

    depends_on('py-setuptools')
    depends_on('python@2.7:', type=('build', 'run'))
    depends_on('py-pysam', type=('build', 'run'))
    depends_on('r-deseq', when='@:1.5.1', type=('build', 'run'))
    depends_on('r-deseq2', when='@2.0.0:', type=('build', 'run'))