53 lines
2.1 KiB
Python
53 lines
2.1 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 LICENSE file 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 Bwa(Package):
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"""Burrow-Wheeler Aligner for pairwise alignment between DNA sequences."""
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homepage = "http://github.com/lh3/bwa"
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url = "https://github.com/lh3/bwa/releases/download/v0.7.15/bwa-0.7.15.tar.bz2"
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version('0.7.15', 'fcf470a46a1dbe2f96a1c5b87c530554')
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depends_on('zlib')
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def install(self, spec, prefix):
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filter_file(r'^INCLUDES=',
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"INCLUDES=-I%s" % spec['zlib'].prefix.include, 'Makefile')
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filter_file(r'^LIBS=', "LIBS=-L%s " % spec['zlib'].prefix.lib,
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'Makefile')
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make()
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mkdirp(prefix.bin)
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install('bwa', join_path(prefix.bin, 'bwa'))
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set_executable(join_path(prefix.bin, 'bwa'))
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mkdirp(prefix.doc)
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install('README.md', prefix.doc)
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install('NEWS.md', prefix.doc)
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mkdirp(prefix.man1)
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install('bwa.1', prefix.man1)
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