62927654dd
We'd like to use a consistent checksum scheme everywhere so that we can:
a) incorporate archive checksums into our specs and have a
consistent hashing algorithm across all specs.
b) index mirrors with a consistent type of checksum, and not one that
is dependent on how spack packages are written.
- [x] convert existing md5, sha224, sha512, sha1 checksums to sha256
49 lines
1.7 KiB
Python
49 lines
1.7 KiB
Python
# Copyright 2013-2019 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.path
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class Astral(Package):
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"""ASTRAL is a tool for estimating an unrooted species tree given a set of
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unrooted gene trees."""
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homepage = "https://github.com/smirarab/ASTRAL"
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url = "https://github.com/smirarab/ASTRAL/archive/v4.10.7.tar.gz"
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version('5.6.1', sha256='b49a67c9fe19c0c92a89dc2f1a3928840e698a53054a595c61546ca98448a076',
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url='https://github.com/smirarab/ASTRAL/archive/untagged-697f19dbce69929ece09.tar.gz')
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version('4.10.7', sha256='314b49e0129ec06a7c78a1b60d590259ede6a5e75253407031e108d8048fcc79')
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depends_on('java', type=('build', 'run'))
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depends_on('zip', type='build')
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phases = ['build', 'install']
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def build(self, spec, prefix):
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make = Executable('./make.sh')
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make()
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def install(self, spec, prefix):
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mkdirp(prefix.bin)
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install_tree('lib', prefix.tools.lib)
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jar_file = 'astral.{v}.jar'.format(v=self.version)
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install(jar_file, prefix.tools)
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script_sh = join_path(os.path.dirname(__file__), "astral.sh")
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script = prefix.bin.astral
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install(script_sh, script)
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set_executable(script)
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java = self.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('astral.jar', join_path(prefix.tools, jar_file),
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script, **kwargs)
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def setup_environment(self, spack_env, run_env):
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run_env.set('ASTRAL_HOME', self.prefix.tools)
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