990d60d340
* mrbayes: new package * fixing beagle version * fixing typos * fixing libbeagle dependency types
73 lines
2.9 KiB
Python
73 lines
2.9 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 Mrbayes(AutotoolsPackage):
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"""MrBayes is a program for Bayesian inference and model choice across a
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wide range of phylogenetic and evolutionary models. MrBayes uses Markov
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chain Monte Carlo (MCMC) methods to estimate the posterior distribution
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of model parameters."""
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homepage = "http://mrbayes.sourceforge.net"
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url = "https://downloads.sourceforge.net/project/mrbayes/mrbayes/3.2.6/mrbayes-3.2.6.tar.gz"
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version('3.2.6', '95f9822f24be47b976bf87540b55d1fe')
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variant('mpi', default=True, description='Enable MPI parallel support')
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variant('beagle', default=True, description='Enable BEAGLE library for speed benefits')
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variant('sse', default=True, description='Enable SSE in order to substantially speed up execution')
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depends_on('autoconf', type='build')
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depends_on('automake', type='build')
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depends_on('libtool', type='build')
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depends_on('m4', type='build')
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depends_on('libbeagle', when='+beagle')
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depends_on('mpi', when='+mpi')
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configure_directory = 'src'
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def configure_args(self):
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args = []
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if '~beagle' in self.spec:
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args.append('--with-beagle=no')
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else:
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args.append('--with-beagle=%s' % self.spec['libbeagle'].prefix)
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if '~sse' in self.spec:
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args.append('--enable-sse=no')
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else:
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args.append('--enable-sse=yes')
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if '~mpi' in self.spec:
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args.append('--enable-mpi=no')
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else:
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args.append('--enable-mpi=yes')
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return args
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def install(self, spec, prefix):
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mkdirp(prefix.bin)
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with working_dir('src'):
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install('mb', prefix.bin)
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