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# Copyright 2013-2024 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.package 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",
sha256="dc85834219141a4e9a246391b48185a739223a5e00b1b1c4d2517822388278ba",
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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