54 lines
1.5 KiB
Python
54 lines
1.5 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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class Eagle(MakefilePackage):
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"""EAGLE: Explicit Alternative Genome Likelihood Evaluator"""
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homepage = "https://github.com/tony-kuo/eagle"
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url = "https://github.com/tony-kuo/eagle/archive/v1.1.2.tar.gz"
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version('1.1.2', sha256='afe967560d1f8fdbd0caf4b93b5f2a86830e9e4d399fee4a526140431343045e')
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depends_on('curl')
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depends_on('zlib')
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depends_on('lzma')
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depends_on('htslib')
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def edit(self, spec, prefix):
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# remove unused gcc flags
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filter_file('$(LFLAGS) $(INCLUDES)', '', 'Makefile', string=True)
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# drop static link to htslib
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filter_file('$(LIBS)', '', 'Makefile', string=True)
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# don't try to build htslib.
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filter_file('all: UTIL HTSLIB', 'all: UTIL',
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'Makefile', string=True)
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# add htslib link to ldflags
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filter_file('-lcurl', '-lcurl -lhts', 'Makefile', string=True)
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# use spack C compiler
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filter_file('CC=.*', 'CC={0}'.format(spack_cc), 'Makefile')
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# remove march=native %fj
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if self.spec.satisfies('%fj'):
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filter_file('-march=native', '', 'Makefile', string=True)
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def install(self, spec, prefix):
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mkdirp(prefix.bin)
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bins = [
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'eagle',
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'eagle-rc',
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'eagle-nm',
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]
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for b in bins:
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install(b, prefix.bin)
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