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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 Vegas2(Package):
""""VEGAS2 is an extension that uses 1,000 Genomes data to model SNP
correlations across the autosomes and chromosome X"""
homepage = "https://vegas2.qimrberghofer.edu.au/"
url = "https://vegas2.qimrberghofer.edu.au/vegas2v2"
version('2', '815d80b86e9e294f99332bb5181e897a', expand=False)
depends_on('perl', type='run')
depends_on('r', type='run')
depends_on('plink')
depends_on('r-mvtnorm', type='run')
depends_on('r-corpcor', type='run')
def url_for_version(self, version):
url = 'https://vegas2.qimrberghofer.edu.au/vegas2v{0}'
return url.format(version)
def install(self, spec, prefix):
mkdirp(prefix.bin)
install('vegas2v{0}'.format(self.version), prefix.bin)
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