51 lines
2.0 KiB
Python
51 lines
2.0 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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import os.path
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class Ampliconnoise(MakefilePackage):
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"""AmpliconNoise is a collection of programs for the removal of noise
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from 454 sequenced PCR amplicons."""
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homepage = "https://code.google.com/archive/p/ampliconnoise/"
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url = "https://storage.googleapis.com/google-code-archive-downloads/v2/code.google.com/ampliconnoise/AmpliconNoiseV1.29.tar.gz"
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version('1.29', sha256='0bf946806d77ecaf0994ad8ebf9a5e98ad33c809f6def5c9340a16c367918167')
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depends_on('mpi@2:')
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depends_on('gsl')
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patch('Fix-return-type.patch')
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def setup_run_environment(self, env):
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env.prepend_path('PATH', self.prefix.Scripts)
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env.set('PYRO_LOOKUP_FILE', os.path.join(self.prefix, 'Data',
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'LookUp_E123.dat'))
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env.set('SEQ_LOOKUP_FILE', os.path.join(self.prefix, 'Data',
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'Tran.dat'))
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def install(self, spec, prefix):
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make('install')
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install_tree('bin', prefix.bin)
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install_tree('Data', prefix.Data)
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install_tree('FastaUnique', prefix.FastaUnique)
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install_tree('FCluster', prefix.FCluster)
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install_tree('NDist', prefix.NDist)
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install_tree('Perseus', prefix.Perseus)
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install_tree('PerseusD', prefix.PerseusD)
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install_tree('PyroDist', prefix.PyroDist)
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install_tree('PyroNoise', prefix.PyroNoise)
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install_tree('PyroNoiseM', prefix.PyroNoiseM)
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install_tree('Scripts', prefix.Scripts)
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install_tree('SeqDist', prefix.SeqDist)
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install_tree('SeqNoise', prefix.SeqNoise)
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install_tree('SplitClusterClust', prefix.SplitClusterClust)
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install_tree('SplitClusterEven', prefix.SplitClusterEven)
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install_tree('Test', prefix.Test)
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install_tree('TestFLX', prefix.TestFLX)
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install_tree('TestTitanium', prefix.TestTitanium)
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install_tree('TestTitaniumFast', prefix.TestTitaniumFast)
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