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new package: py-cnvkit and py-pomegranate (#15222)

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The py-pomegranate package is a dependency of py-cnvkit
This commit is contained in:
Glenn Johnson
2020-02-27 12:06:19 -06:00
committed by GitHub
parent c34ed6e6b5
commit 167c75842a
2 changed files with 51 additions and 0 deletions
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# 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 PyCnvkit(PythonPackage):
"""Copy number variation toolkit for high-throughput sequencing."""
homepage = "https://github.com/etal/cnvkit"
url = "https://pypi.io/packages/source/C/CNVkit/CNVkit-0.9.6.tar.gz"
version('0.9.6', sha256='be889c98a5cf0a994330b8c31c0a65151fb0095fe4e75a1e04118da2516248c2')
depends_on('py-setuptools', type='build')
depends_on('py-futures@3.0:', type=('build', 'run'), when='^python@:2.7')
depends_on('py-biopython@1.62:', type=('build', 'run'))
depends_on('py-future@0.15.2:', type=('build', 'run'))
depends_on('py-pomegranate@0.9.0:', type=('build', 'run'))
depends_on('py-matplotlib@1.3.1:', type=('build', 'run'))
depends_on('py-numpy@1.9:', type=('build', 'run'))
depends_on('py-pandas@0.20.1:0.24.999', type=('build', 'run'))
depends_on('py-pyfaidx@0.4.7:', type=('build', 'run'))
depends_on('py-pysam@0.10.0:', type=('build', 'run'))
depends_on('py-reportlab@3.0:', type=('build', 'run'))
depends_on('py-scipy@0.15.0:', type=('build', 'run'))

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var/spack/repos/builtin/packages/py-pomegranate/package.py Normal file
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# 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 PyPomegranate(PythonPackage):
"""Fast, flexible and easy to use probabilistic modelling in Python."""
homepage = "https://github.com/jmschrei/pomegranate"
url = "https://pypi.io/packages/source/p/pomegranate/pomegranate-0.12.0.tar.gz"
version('0.12.0', sha256='8b00c88f7cf9cad8d38ea00ea5274821376fefb217a1128afe6b1fcac54c975a')
depends_on('py-setuptools', type='build')
depends_on('py-cython@0.22.1:', type='build')
depends_on('py-numpy@1.8.0:', type=('build', 'run'))
depends_on('py-joblib@0.9.0b4:', type=('build', 'run'))
depends_on('py-networkx@2.0:', type=('build', 'run'))
depends_on('py-scipy@0.17.0:', type=('build', 'run'))
depends_on('py-pyyaml', type=('build', 'run'))