34 lines
1.1 KiB
Python
34 lines
1.1 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 Glfmultiples(MakefilePackage):
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"""glfMultiples is a GLF-based variant caller for next-generation
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sequencing data. It takes a set of GLF format genotype likelihood
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files as input and generates a VCF-format set of variant calls
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as output."""
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homepage = "https://genome.sph.umich.edu/wiki/GlfMultiples"
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url = "http://www.sph.umich.edu/csg/abecasis/downloads/generic-glfMultiples-2010-06-16.tar.gz"
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version(
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"2010-06-16", sha256="f7abef6f6b043e9052fb408bb2aae6d0d97d907aedc1b3e02dd0db08eb81b979"
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)
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depends_on("zlib")
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def edit(self, spec, prefix):
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makefile = FileFilter("Makefile")
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makefile.filter("CXX=.*", "CXX = " + env["CXX"])
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makefile.filter(
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"CFLAGS=.*",
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"CFLAGS=-O2 -I./libsrc -I./pdf " + "-D_FILE_OFFSET_BITS=64 -D__USE_LONG_INT",
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)
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def install(self, spec, prefix):
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make("INSTALLDIR=%s" % prefix, "install")
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