56 lines
1.8 KiB
Python
56 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 GmapGsnap(AutotoolsPackage):
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"""GMAP: A Genomic Mapping and Alignment Program for
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mRNA and EST Sequences, and GSNAP: Genomic Short-read
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Nucleotide Alignment Program"""
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homepage = "http://research-pub.gene.com/gmap/"
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url = "http://research-pub.gene.com/gmap/src/gmap-gsnap-2017-06-16.tar.gz"
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version('2018-07-04', sha256='a9f8c1f0810df65b2a089dc10be79611026f4c95e4681dba98fea3d55d598d24')
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version('2018-03-25', 'f08e65c1e4d9574a3eb7f15f8ca6af16')
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version('2018-02-12', '13152aedeef9ac66be915fc6bf6464f2')
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version('2017-06-16', 'fcc91b8bdd4bf12ae3124de0c00db0c0')
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version('2014-12-28', '1ab07819c9e5b5b8970716165ccaa7da')
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depends_on('zlib')
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depends_on('bzip2')
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variant(
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'simd',
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description='CPU support.',
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values=('avx2', 'sse42', 'avx512', 'sse2'),
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multi=True,
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default='sse2'
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)
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def configure(self, spec, prefix):
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configure = Executable('../configure')
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for simd in spec.variants['simd'].value:
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with working_dir(simd, create=True):
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configure('--with-simd-level={0}'.format(simd),
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'--prefix={0}'.format(prefix))
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def build(self, spec, prefix):
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for simd in spec.variants['simd'].value:
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with working_dir(simd):
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make()
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def check(self):
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for simd in self.spec.variants['simd'].value:
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with working_dir(simd):
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make('check')
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def install(self, spec, prefix):
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for simd in spec.variants['simd'].value:
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with working_dir(simd):
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make('install')
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