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# Copyright 2013-2018 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class Mrbayes(AutotoolsPackage):
"""MrBayes is a program for Bayesian inference and model choice across a
wide range of phylogenetic and evolutionary models. MrBayes uses Markov
chain Monte Carlo (MCMC) methods to estimate the posterior distribution
of model parameters."""
homepage = "http://mrbayes.sourceforge.net"
git = "https://github.com/NBISweden/MrBayes.git"
version('2017-11-22', commit='8a9adb11bcc538cb95d91d57568dff383f924503')
variant('mpi', default=True, description='Enable MPI parallel support')
variant('beagle', default=True, description='Enable BEAGLE library for speed benefits')
variant('sse', default=True, description='Enable SSE in order to substantially speed up execution')
depends_on('autoconf', type='build')
depends_on('automake', type='build')
depends_on('libtool', type='build')
depends_on('m4', type='build')
depends_on('libbeagle', when='+beagle')
depends_on('mpi', when='+mpi')
def configure_args(self):
args = []
if '~beagle' in self.spec:
args.append('--with-beagle=no')
else:
args.append('--with-beagle=%s' % self.spec['libbeagle'].prefix)
if '~sse' in self.spec:
args.append('--enable-sse=no')
else:
args.append('--enable-sse=yes')
if '~mpi' in self.spec:
args.append('--enable-mpi=no')
else:
args.append('--enable-mpi=yes')
return args
def install(self, spec, prefix):
mkdirp(prefix.bin)
with working_dir('src'):
install('mb', prefix.bin)
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