35 lines
1.5 KiB
Python
35 lines
1.5 KiB
Python
# Copyright 2013-2020 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 Bsseeker2(Package):
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"""A versatile aligning pipeline for bisulfite sequencing data."""
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homepage = "http://pellegrini.mcdb.ucla.edu/BS_Seeker2"
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url = "https://github.com/BSSeeker/BSseeker2/archive/BSseeker2-v2.1.8.tar.gz"
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version('2.1.8', sha256='34ebedce36a0fca9e22405d4c2c20bc978439d4a34d1d543657fbc53ff847934')
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version('2.1.7', sha256='ac90fb4ad8853ee920f1ffea2b1a8cfffcdb1508ff34be0091d5a9c90ac8c74a',
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url='https://github.com/BSSeeker/BSseeker2/archive/v2.1.7.tar.gz')
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version('2.1.2', sha256='08055dd314f85a9b74c259c2cb894ea2affdab2c7a120af3589c649e1900c5c6',
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url='https://github.com/BSSeeker/BSseeker2/archive/v2.1.2.tar.gz')
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depends_on('python@2.6:', type=('build', 'run'))
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depends_on('py-pysam', type=('build', 'run'))
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def install(self, spec, prefix):
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mkdirp(prefix.bin)
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install('Antisense.py', prefix.bin)
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install_tree('bs_index', prefix.bin.bs_index)
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install('bs_seeker2-build.py', prefix.bin)
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install_tree('bs_utils', prefix.bin.bs_utils)
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install_tree('galaxy', prefix.bin.galaxy)
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install_tree('bs_align', prefix.bin.bs_align)
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install('bs_seeker2-align.py', prefix.bin)
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install('bs_seeker2-call_methylation.py', prefix.bin)
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install('FilterReads.py', prefix.bin)
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