33 lines
1.1 KiB
Python
33 lines
1.1 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 Shortbred(Package):
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"""ShortBRED is a system for profiling protein families of interest at
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very high specificity in shotgun meta'omic sequencing data."""
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homepage = "https://huttenhower.sph.harvard.edu/shortbred"
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url = "https://bitbucket.org/biobakery/shortbred/get/0.9.4.tar.gz"
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version('0.9.4', 'ad3dff344cbea3713e78b384afad28fd')
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depends_on('blast-plus@2.2.28:')
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depends_on('cdhit@4.6:')
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depends_on('muscle@3.8.31:')
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depends_on('python@2.7.9:')
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depends_on('py-biopython')
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depends_on('usearch@6.0.307:')
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def install(self, spec, prefix):
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mkdirp(prefix.bin)
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install('shortbred_identify.py', prefix.bin)
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install('shortbred_quantify.py', prefix.bin)
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install_tree('src', prefix.src)
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def setup_environment(self, spack_env, run_env):
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run_env.prepend_path('PYTHONPATH', self.prefix)
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