64bdc3251f
- Add a test that verifies checksums on all packages - Also add an attribute to packages that indicates whether they need a manual download or not, and add an exception in the tests for these packages until we can verify them.
50 lines
1.8 KiB
Python
50 lines
1.8 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
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class Targetp(Package):
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"""TargetP predicts the subcellular location of eukaryotic protein sequences.
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Note: A manual download is required for TargetP.
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Spack will search your current directory for the download file.
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Alternatively, add this file to a mirror so that Spack can find it.
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For instructions on how to set up a mirror, see
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http://spack.readthedocs.io/en/latest/mirrors.html"""
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homepage = "http://www.cbs.dtu.dk/services/TargetP/"
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url = "file://{0}/targetp-1.1b.Linux.tar.gz".format(os.getcwd())
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manual_download = True
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version('1.1b', '80233d0056e11abfd22a4ce73d1808c6')
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depends_on('perl', type='run')
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depends_on('awk', type='run')
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depends_on('chlorop')
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depends_on('signalp')
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def patch(self):
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targetp = FileFilter('targetp')
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targetp.filter('TARGETP=', '#TARGETP=')
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targetp.filter('CHLOROP=/usr/cbs/bio/bin/chlorop',
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self.spec['chlorop'].prefix.bin.chlorop)
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targetp.filter('SIGNALP=/usr/cbs/bio/bin/signalp',
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self.spec['signalp'].prefix.signalp)
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targetp.filter('TMP=/scratch', 'TMP=/tmp')
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def install(self, spec, prefix):
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install_tree('bin', prefix.bin)
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install_tree('etc', prefix.etc)
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install_tree('how', prefix.how)
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install_tree('test', prefix.test)
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install_tree('tmp', prefix.tmp)
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install('targetp', prefix.targetp)
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def setup_environment(self, spack_env, run_env):
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run_env.set('TARGETP', self.prefix)
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run_env.prepend_path('PATH', self.prefix)
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