@@ -0,0 +1,2241 @@
+##############################################################################%0A# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.%0A# Produced at the Lawrence Livermore National Laboratory.%0A#%0A# This file is part of Spack.%0A# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.%0A# LLNL-CODE-647188%0A#%0A# For details, see https://github.com/spack/spack%0A# Please also see the NOTICE and LICENSE files for our notice and the LGPL.%0A#%0A# This program is free software; you can redistribute it and/or modify%0A# it under the terms of the GNU Lesser General Public License (as%0A# published by the Free Software Foundation) version 2.1, February 1999.%0A#%0A# This program is distributed in the hope that it will be useful, but%0A# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF%0A# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and%0A# conditions of the GNU Lesser General Public License for more details.%0A#%0A# You should have received a copy of the GNU Lesser General Public%0A# License along with this program; if not, write to the Free Software%0A# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA%0A##############################################################################%0Afrom spack import *%0A%0A%0Aclass PyCnvkit(PythonPackage):%0A    %22%22%22A command-line toolkit and Python library for detecting copy number%0A       variants and alterations genome-wide from high-throughput sequencing.%22%22%22%0A%0A    homepage = %22http://cnvkit.readthedocs.io/en/stable/%22%0A    url      = %22https://github.com/etal/cnvkit/archive/v0.9.2.tar.gz%22%0A%0A    version('0.9.2', '16612c4dcc9570f6ef9fecc42caf1745')%0A%0A    depends_on('py-setuptools',        type='build')%0A    depends_on('py-biopython@1.62:',   type=('build', 'run'))%0A    depends_on('py-future@0.15.2:',    type=('build', 'run'))%0A    depends_on('py-matplotlib@1.3.1:', type=('build', 'run'))%0A    depends_on('py-numpy@1.9:',        type=('build', 'run'))%0A    depends_on('py-pandas@0.18.1:',    type=('build', 'run'))%0A    depends_on('py-pyfaidx@0.4.7:',    type=('build', 'run'))%0A    depends_on('py-pysam@0.10.0:',     type=('build', 'run'))%0A    depends_on('py-reportlab@3.0:',    type=('build', 'run'))%0A    depends_on('py-scipy@0.15.0:',     type=('build', 'run'))%0A

add new package (#7688)