105da8de02
Also update dependencies to build latest py-deeptools versions and add a patch to run tests: * Replace pypi URL with github URL to download tests * Update dependency versions of py-pysam, py-matplotlib * Add new py-deeptoolsintervals package as a dependency * Add py-plotly and py-nose dependencies * Patch setup.py to collect and run tests
42 lines
1.8 KiB
Python
42 lines
1.8 KiB
Python
# Copyright 2013-2019 Lawrence Livermore National Security, LLC and other
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# Spack Project Developers. See the top-level COPYRIGHT file for details.
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#
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# SPDX-License-Identifier: (Apache-2.0 OR MIT)
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from spack import *
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class PyDeeptools(PythonPackage):
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"""deepTools addresses the challenge of handling the large amounts of data
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that are now routinely generated from DNA sequencing centers."""
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homepage = "https://pypi.io/packages/source/d/deepTools"
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# The test suite and associated test data is missing in the pypi tarball.
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url = "https://github.com/deeptools/deepTools/archive/3.3.0.tar.gz"
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version('3.3.0', sha256='a7aaf79fe939ca307fe6ec5e156750389fdfa4324bf0dd6bf5f53d5fda109358')
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version('3.2.1', sha256='dbee7676951a9fdb1b88956fe4a3294c99950ef193ea1e9edfba1ca500bd6a75')
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version('2.5.2', sha256='16d0cfed29af37eb3c4cedd9da89b4952591dc1a7cd8ec71fcba87c89c62bf79')
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depends_on('python@2.7:', type=('build', 'run'))
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depends_on('py-setuptools', type='build')
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depends_on('py-numpy@1.9.0:', type=('build', 'run'))
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depends_on('py-scipy@0.17.0:', type=('build', 'run'))
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depends_on('py-py2bit@0.2.0:', type=('build', 'run'))
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depends_on('py-pybigwig@0.2.1:', type=('build', 'run'))
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depends_on('py-pysam@0.14.0:', type=('build', 'run'))
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depends_on('py-matplotlib@2.1.2:', type=('build', 'run'))
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depends_on('py-numpydoc@0.5:', type=('build', 'run'))
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depends_on('py-plotly@2.0.0:', type=('build', 'run'))
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depends_on('py-deeptoolsintervals@0.1.8:', type=('build', 'run'))
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depends_on('py-nose', type='test')
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def patch(self):
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# Add nosetest hook for "python setup.py test" argument.
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filter_file(r'^setup\(',
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r'''setup(
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tests_require='nose',
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test_suite='nose.collector',''',
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'setup.py')
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