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# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack.package import *
class Qtltools(MakefilePackage):
"""A complete tool set for molecular QTL discovery and analysis."""
homepage = "https://qtltools.github.io/qtltools/"
url = "https://github.com/qtltools/qtltools/archive/refs/tags/1.3.1.tar.gz"
license("GPL-3.0-only")
version("1.3.1", sha256="033b9b61923fd65c4b8b80bc0add321e6fd6fb40de49d15c2dfe6a4d7e60764a")
version("1.3", sha256="032020d7e038eac4ec01701343a887bced7cca356cbd24b3d5bbadf83686faeb")
depends_on("boost +pic +iostreams +program_options")
depends_on("gsl")
depends_on("htslib ~libcurl ~libdeflate")
depends_on("r +rmath")
def edit(self, spec, prefix):
makefile = FileFilter("Makefile")
makefile.filter("BOOST_INC=.*", "BOOST_INC=" + self.spec["boost"].prefix.include)
makefile.filter("BOOST_LIB=.*", "BOOST_LIB=" + self.spec["boost"].prefix.lib)
makefile.filter("RMATH_INC=.*", "RMATH_INC=" + self.spec["r"].prefix.include)
makefile.filter("RMATH_LIB=.*", "RMATH_LIB=" + self.spec["r"].prefix.rlib)
makefile.filter("HTSLD_INC=.*", "HTSLD_INC=" + self.spec["htslib"].prefix.include)
makefile.filter("HTSLD_LIB=.*", "HTSLD_LIB=" + self.spec["htslib"].prefix.lib)
makefile.filter("prefix *=.*", "prefix = " + prefix)
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