54 lines
1.6 KiB
Python
54 lines
1.6 KiB
Python
# Copyright 2013-2022 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 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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maintainers = ["snehring"]
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version("1.1.3", sha256="bd510b8eef2de14898cbf417e1c7a30b97ddaba24e5e2834da7b02767362fe3c")
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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", "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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# let the user inject march if they want
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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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