40 lines
1.6 KiB
Python
40 lines
1.6 KiB
Python
# Copyright 2013-2023 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.package import *
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class KaksCalculator(MakefilePackage, SourceforgePackage):
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"""KaKs_Calculator adopts model selection and model averaging to calculate
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nonsynonymous (Ka) and synonymous (Ks) substitution rates, attempting to
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include as many features as needed for accurately capturing evolutionary
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information in protein-coding sequences."""
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homepage = "https://sourceforge.net/projects/kakscalculator2"
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sourceforge_mirror_path = "kakscalculator2/KaKs_Calculator2.0.tar.gz"
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version("2.0", sha256="e2df719a2fecc549d8ddc4e6d8f5cfa4b248282dca319c1928eaf886d68ec3c5")
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build_directory = "src"
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def url_for_version(self, version):
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url = "https://downloads.sourceforge.net/project/kakscalculator2/KaKs_Calculator{0}.tar.gz"
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return url.format(version)
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# include<string.h> needs added to header file for compilation to work
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def patch(self):
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with working_dir(self.build_directory):
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header = FileFilter("base.h")
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header.filter("#include<time.h>", "#include<time.h>\n#include<string.h>")
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def install(self, spec, prefix):
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mkdirp(prefix.bin)
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with working_dir(self.build_directory):
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install("KaKs_Calculator", prefix.bin)
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install("ConPairs", prefix.bin)
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install("AXTConvertor", prefix.bin)
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install_tree("doc", prefix.doc)
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install_tree("examples", prefix.examples)
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