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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 Freebayes(MakefilePackage):
"""Bayesian haplotype-based genetic polymorphism discovery and
genotyping."""
homepage = "https://github.com/ekg/freebayes"
git = "https://github.com/ekg/freebayes.git"
version('1.1.0', commit='39e5e4bcb801556141f2da36aba1df5c5c60701f',
submodules=True)
depends_on('cmake', type='build')
depends_on('zlib')
parallel = False
def edit(self, spec, prefix):
makefile = FileFilter('Makefile')
b = prefix.bin
makefile.filter('cp bin/freebayes bin/bamleftalign /usr/local/bin/',
'cp bin/freebayes bin/bamleftalign {0}'.format(b))
@run_before('install')
def make_prefix_dot_bin(self):
mkdir(prefix.bin)
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