a8ccb8e116
- [x] add `concretize.lp`, `spack.yaml`, etc. to licensed files
- [x] update all licensed files to say 2013-2021 using
`spack license update-copyright-year`
- [x] appease mypy with some additions to package.py that needed
for oneapi.py
41 lines
1.4 KiB
Python
41 lines
1.4 KiB
Python
# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other
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# Spack Project Developers. See the top-level COPYRIGHT file for details.
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#
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# SPDX-License-Identifier: (Apache-2.0 OR MIT)
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from spack import *
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import os
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class Igvtools(Package):
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"""IGVTools suite of command-line utilities for preprocessing data
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files"""
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homepage = "https://software.broadinstitute.org/software/igv/home"
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url = "http://data.broadinstitute.org/igv/projects/downloads/2.3/igvtools_2.3.98.zip"
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version('2.3.98', sha256='07027c179f25960bab9919f255c0f8e08f0861861ac6dc02d92be8313e0316a4')
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depends_on('java@8:')
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def install(self, spec, prefix):
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mkdirp(prefix.bin)
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jar_file = 'igvtools.jar'
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install(jar_file, prefix.bin)
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install_tree('genomes', prefix.genomes)
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# Set up a helper script to call java on the jar file,
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# explicitly codes the path for java and the jar file.
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script_sh = join_path(os.path.dirname(__file__), "igvtools.sh")
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script = prefix.bin.igvtools
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install(script_sh, script)
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set_executable(script)
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# Munge the helper script to explicitly point to java and the
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# jar file.
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java = spec['java'].prefix.bin.java
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kwargs = {'ignore_absent': False, 'backup': False, 'string': False}
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filter_file('^java', java, script, **kwargs)
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filter_file(jar_file, join_path(prefix.bin, jar_file),
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script, **kwargs)
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