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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 Libbeagle(AutotoolsPackage):
"""Beagle performs genotype calling, genotype phasing, imputation of
ungenotyped markers, and identity-by-descent segment detection."""
homepage = "https://github.com/beagle-dev/beagle-lib"
url = "https://github.com/beagle-dev/beagle-lib/archive/beagle_release_2_1_2.tar.gz"
version('2.1.2', '1107614e86f652f8ee45c1c92f2af3d4')
depends_on('autoconf', type='build')
depends_on('automake', type='build')
depends_on('libtool', type='build')
depends_on('m4', type='build')
depends_on('subversion', type='build')
depends_on('pkgconfig', type='build')
depends_on('java', type='build')
def url_for_version(self, version):
url = "https://github.com/beagle-dev/beagle-lib/archive/beagle_release_{0}.tar.gz"
return url.format(version.underscored)
def setup_environment(self, spack_env, run_env):
prefix = self.prefix
run_env.prepend_path('BEAST_LIB', prefix.lib)
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