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# Copyright 2013-2021 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)
import os.path
from spack import *
class SentieonGenomics(Package):
"""Sentieon provides complete solutions for secondary DNA analysis.
Our software improves upon BWA, GATK, Mutect, and Mutect2 based pipelines.
The Sentieon tools are deployable on any CPU-based computing system.
Please set the path to the sentieon license server with:
export SENTIEON_LICENSE=[FQDN]:[PORT]
Note: A manual download is required.
Spack will search your current directory for the download file.
Alternatively, add this file to a mirror so that Spack can find it.
For instructions on how to set up a mirror, see
http://spack.readthedocs.io/en/latest/mirrors.html"""
homepage = "https://www.sentieon.com/"
url = "file://{0}/sentieon-genomics-201808.01.tar.gz".format(os.getcwd())
manual_download = True
version('201808.07', sha256='fb66b18a7b99e44968eb2c3a6a5b761d6b1e70fba9f7dfc4e5db3a74ab3d3dd9')
version('201808.01', sha256='6d77bcd5a35539549b28eccae07b19a3b353d027720536e68f46dcf4b980d5f7')
# Licensing.
license_require = True
license_vars = ['SENTIEON_LICENSE']
def install(self, spec, prefix):
install_tree('bin', prefix.bin)
install_tree('doc', prefix.doc)
install_tree('etc', prefix.etc)
install_tree('lib', prefix.lib)
install_tree('libexec', prefix.libexec)
install_tree('share', prefix.share)
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