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# Copyright 2013-2020 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"
url = "https://github.com/NBISweden/MrBayes/releases/download/v3.2.7a/mrbayes-3.2.7a.tar.gz"
version('3.2.7a', sha256='1a4670be84e6b968d59382328294db4c8ceb73e0c19c702265deec6f2177815c')
version('3.2.7', sha256='39d9eb269969b501268d5c27f77687c6eaa2c71ccf15c724e6f330fc405f24b9')
variant('mpi', default=True, description='Enable MPI parallel support')
variant('beagle', default=True, description='Enable BEAGLE library for speed benefits')
variant('readline', default=False, description='Enable readline library, not recommended with MPI')
depends_on('libbeagle', when='+beagle')
depends_on('mpi', when='+mpi')
depends_on('readline', when='+readline')
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 '+readline' in self.spec:
args.append('--with-readline=yes')
else:
args.append('--with-readline=no')
if '~mpi' in self.spec:
args.append('--with-mpi=no')
else:
args.append('--with-mpi=yes')
return args
def install(self, spec, prefix):
mkdirp(prefix.bin)
with working_dir('src'):
install('mb', prefix.bin)
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