53 lines
1.6 KiB
Python
53 lines
1.6 KiB
Python
# Copyright 2013-2020 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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from os import symlink
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class Recon(MakefilePackage):
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"""RECON: a package for automated de novo identification of repeat families
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from genomic sequences."""
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homepage = "http://eddylab.org/software/recon/"
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url = "http://eddylab.org/software/recon/RECON1.05.tar.gz"
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version('1.05', sha256='4d4f76f439bcffd50380cffc41a80dc15fa4a80f38a04234e24da893ed7c025a')
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variant('repeatmasker', default=False,
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description='Use RepeatMasker developer patches (1.08)')
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patch('repeatmasker_recon.patch', when='+repeatmasker')
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build_directory = 'src'
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depends_on('perl', type='run')
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@property
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def install_targets(self):
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return [
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'install',
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'BINDIR=%s' % self.prefix.bin
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]
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# edit the recon.pl script with the prefix as mentioned in the README
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def edit(self, spec, prefix):
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filter_file('$path = ""', '$path = "%s"' % prefix.bin,
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'scripts/recon.pl', string=True)
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# recon's makefile is very basic -- the target directory must
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# already exist to properly install
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@run_before('install')
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def prepare_bin(self):
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mkdirp(prefix.bin)
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# finally, install the scripts dir as well
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# and link the recon command into bin.
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@run_after('install')
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def finalize(self):
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install_tree('scripts', prefix.scripts)
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symlink(join_path(prefix.scripts, 'recon.pl'),
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join_path(prefix.bin, 'recon'))
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