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# Copyright 2013-2023 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 Paintor(MakefilePackage):
"""Probabilistic Annotation integrator. Fast, integrative fine mapping with functional
data"""
homepage = "https://github.com/gkichaev/PAINTOR_V3.0"
url = "https://github.com/gkichaev/PAINTOR_V3.0/archive/refs/tags/3.0.tar.gz"
version("3.0", sha256="cc39d3c334cc6d787e4f04847192c9d0185025a2ca46910bd38901b6679d198f")
depends_on("nlopt")
depends_on("eigen")
def edit(self, spec, prefix):
makefile = FileFilter("Makefile")
makefile.filter("CC = g\\+\\+", f"CC = {spack_cxx}")
makefile.filter(
r"(.*)-I/\$\(curr\)/eigen/Eigen(.*)",
r"\1-I{}/eigen3/Eigen\2".format(spec["eigen"].prefix.include),
)
makefile.filter(r"(.*)-L/\$\{curr}/lib(.*)", r"\1-L{}\2".format(spec["nlopt"].prefix.lib))
makefile.filter(
r"(.*)-I/\${curr}/include(.*)", r"\1-I{}\2".format(spec["nlopt"].prefix.include)
)
@run_after("install")
def mv_binary(self):
mkdirp(self.prefix.bin)
with working_dir(self.build_directory):
install("PAINTOR", self.prefix.bin)
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