##############################################################################
# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-647188
#
# For details, see https://github.com/spack/spack
# Please also see the NOTICE and LICENSE files for our notice and the LGPL.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License (as
# published by the Free Software Foundation) version 2.1, February 1999.
#
# This program is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
# conditions of the GNU Lesser General Public License for more details.
#
# You should have received a copy of the GNU Lesser General Public
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *


class PyPybedtools(PythonPackage):
    """pybedtools wraps and extends BEDTools and offers
    feature-level manipulations from within Python."""

    homepage = "http://daler.github.io/pybedtools"
    url      = "https://pypi.io/packages/source/p/pybedtools/pybedtools-0.7.10.tar.gz"

    version('0.7.10', 'f003c67e22c48b77f070538368ece70c')
    version('0.6.9',  'a24e4bcd0c89beb9535295db964f6a4a')

    depends_on('py-setuptools', type='build')
    depends_on('bedtools2',     type=('build', 'run'))
    depends_on('py-numpy',      type=('build', 'run'))
    depends_on('py-pandas',     type=('build', 'run'))
    depends_on('py-pysam@0.8.1:', type=('build', 'run'), when='@0.7.0:')
    depends_on('py-pysam@0.7.7',  type=('build', 'run'), when='@0.6.9')
    depends_on('py-six',        type=('build', 'run'))

##############################################################################
# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-647188
#
# For details, see https://github.com/spack/spack
# Please also see the NOTICE and LICENSE files for our notice and the LGPL.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License (as
# published by the Free Software Foundation) version 2.1, February 1999.
#
# This program is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
# conditions of the GNU Lesser General Public License for more details.
#
# You should have received a copy of the GNU Lesser General Public
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *


class PyPybedtools(PythonPackage):
    """pybedtools wraps and extends BEDTools and offers
    feature-level manipulations from within Python."""

    homepage = "http://daler.github.io/pybedtools"
    url      = "https://pypi.io/packages/source/p/pybedtools/pybedtools-0.7.10.tar.gz"

    version('0.7.10', 'f003c67e22c48b77f070538368ece70c')
    version('0.6.9',  'b7df049036422d8c6951412a90e83dca')

    depends_on('py-setuptools', type='build')
    depends_on('bedtools2',     type=('build', 'run'))
    depends_on('py-numpy',      type=('build', 'run'))
    depends_on('py-pandas',     type=('build', 'run'))
    depends_on('py-pysam@0.8.1:', type=('build', 'run'), when='@0.7.0:')
    depends_on('py-pysam@0.7.7',  type=('build', 'run'), when='@0.6.9')
    depends_on('py-six',        type=('build', 'run'))

fix hash for 0.6.9 (#7492)