48 lines
1.9 KiB
Python
48 lines
1.9 KiB
Python
##############################################################################
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# Copyright (c) 2013-2018, 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/spack/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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import distutils.dir_util
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class Mefit(Package):
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"""This pipeline will merge overlapping paired-end reads, calculate
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merge statistics, and filter reads for quality."""
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homepage = "https://github.com/nisheth/MeFiT"
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url = "https://github.com/nisheth/MeFiT.git"
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version('1.0', git='https://github.com/nisheth/MeFiT.git', commit='0733326d8917570bbf70ff5c0f710bf66c13db09')
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depends_on('py-numpy')
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depends_on('py-htseq')
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depends_on('jellyfish')
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depends_on('casper %gcc@4.8.5')
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def install(self, spec, prefix):
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distutils.dir_util.copy_tree(".", prefix)
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def setup_environment(self, spack_env, run_env):
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run_env.prepend_path('PATH', self.prefix)
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