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# Copyright 2013-2021 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 PyDeeptools(PythonPackage):
"""deepTools addresses the challenge of handling the large amounts of data
that are now routinely generated from DNA sequencing centers."""
# The test suite and associated test data is missing in the pypi tarball.
homepage = "https://pypi.python.org/pypi/deepTools/"
url = "https://github.com/deeptools/deepTools/archive/3.3.0.tar.gz"
version('3.3.0', sha256='a7aaf79fe939ca307fe6ec5e156750389fdfa4324bf0dd6bf5f53d5fda109358')
version('3.2.1', sha256='dbee7676951a9fdb1b88956fe4a3294c99950ef193ea1e9edfba1ca500bd6a75')
version('2.5.2', sha256='16d0cfed29af37eb3c4cedd9da89b4952591dc1a7cd8ec71fcba87c89c62bf79')
depends_on('python@2.7:', type=('build', 'run'))
depends_on('py-setuptools', type='build')
depends_on('py-numpy@1.9.0:', type=('build', 'run'))
depends_on('py-scipy@0.17.0:', type=('build', 'run'))
depends_on('py-py2bit@0.2.0:', type=('build', 'run'))
depends_on('py-pybigwig@0.2.1:', type=('build', 'run'))
depends_on('py-pysam@0.14.0:', type=('build', 'run'))
depends_on('py-matplotlib@2.1.2:', type=('build', 'run'))
depends_on('py-numpydoc@0.5:', type=('build', 'run'))
depends_on('py-plotly@2.0.0:', type=('build', 'run'))
depends_on('py-deeptoolsintervals@0.1.8:', type=('build', 'run'))
def patch(self):
# Add nosetest hook for "python setup.py test" argument.
filter_file(r'^setup\(',
r'''setup(
tests_require='nose',
test_suite='nose.collector',''',
'setup.py')
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