50 lines
2.0 KiB
Python
50 lines
2.0 KiB
Python
##############################################################################
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# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
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# Produced at the Lawrence Livermore National Laboratory.
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#
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# This file is part of Spack.
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# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
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# LLNL-CODE-647188
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#
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# For details, see https://github.com/llnl/spack
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# Please also see the NOTICE and LICENSE files for our notice and the LGPL.
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#
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# This program is free software; you can redistribute it and/or modify
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# it under the terms of the GNU Lesser General Public License (as
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# published by the Free Software Foundation) version 2.1, February 1999.
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#
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# This program is distributed in the hope that it will be useful, but
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# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
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# conditions of the GNU Lesser General Public License for more details.
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#
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# You should have received a copy of the GNU Lesser General Public
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# License along with this program; if not, write to the Free Software
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# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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##############################################################################
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from spack import *
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class Vegas2(Package):
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""""VEGAS2 is an extension that uses 1,000 Genomes data to model SNP
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correlations across the autosomes and chromosome X"""
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homepage = "https://vegas2.qimrberghofer.edu.au/"
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url = "https://vegas2.qimrberghofer.edu.au/vegas2v2"
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version('2', '815d80b86e9e294f99332bb5181e897a', expand=False)
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depends_on('perl', type='run')
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depends_on('r', type='run')
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depends_on('plink')
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depends_on('r-mvtnorm', type='run')
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depends_on('r-corpcor', type='run')
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def url_for_version(self, version):
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url = 'https://vegas2.qimrberghofer.edu.au/vegas2v{0}'
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return url.format(version)
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def install(self, spec, prefix):
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mkdirp(prefix.bin)
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install('vegas2v{0}'.format(self.version), prefix.bin)
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