52 lines
2.3 KiB
Python
52 lines
2.3 KiB
Python
##############################################################################
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# Copyright (c) 2013-2017, 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 Beast2(Package):
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"""BEAST is a cross-platform program for Bayesian inference using MCMC
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of molecular sequences. It is entirely orientated towards rooted,
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time-measured phylogenies inferred using strict or relaxed molecular
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clock models. It can be used as a method of reconstructing phylogenies
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but is also a framework for testing evolutionary hypotheses without
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conditioning on a single tree topology."""
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homepage = "http://beast2.org/"
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url = "https://github.com/CompEvol/beast2/releases/download/v2.4.6/BEAST.v2.4.6.Linux.tgz"
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version('2.4.6', 'b446f4ab121df9b991f7bb7ec94c8217')
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depends_on('java')
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def setup_environment(self, spack_env, run_env):
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run_env.set('BEAST', self.prefix)
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def install(self, spec, prefix):
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install_tree('bin', prefix.bin)
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install_tree('examples', join_path(self.prefix, 'examples'))
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install_tree('images', join_path(self.prefix, 'images'))
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install_tree('lib', prefix.lib)
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install_tree('templates', join_path(self.prefix, 'templates'))
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