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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 Ldak(Package):
"""LDAK is a software package for analyzing GWAS data"""
homepage = "https://dougspeed.com/ldak/"
url = "https://dougspeed.com/wp-content/uploads/source.zip"
maintainers("snehring")
license("GPL-3.0-only")
version("5.2", sha256="ba3de4eb4f2d664b3c2a54bef2eb66d1a498ac423179e97a5795d010161b1805")
version(
"5.1",
sha256="ae3eb8c2ef31af210e138336fd6edcd0e3a26ea9bae89fd6c0c6ea33e3a1517e",
deprecated=True,
)
variant("glpk", default=False, description="Use glpk instead of vendored qsopt")
depends_on("zlib-api")
depends_on("blas")
depends_on("lapack")
depends_on("openblas threads=openmp", when="^openblas")
depends_on("intel-mkl threads=openmp", when="^intel-mkl")
depends_on("intel-oneapi-mkl threads=openmp", when="^intel-oneapi-mkl")
depends_on("glpk", when="+glpk")
requires("target=x86_64:", when="~glpk", msg="bundled qsopt is only for x86_64")
requires(
"^openblas",
*[f"^{intel_pkg}" for intel_pkg in INTEL_MATH_LIBRARIES],
policy="one_of",
msg="Only mkl or openblas are supported for blas/lapack with ldak",
)
conflicts("platform=cray", when="~glpk", msg="bundled qsopt only for linux or mac")
phases = ["build", "install"]
def build(self, spec, prefix):
libs = [
"-lm",
(self.spec["lapack"].libs + self.spec["blas"].libs).link_flags,
self.spec["zlib-api"].libs.link_flags,
]
includes = [
(self.spec["lapack"].headers + self.spec["blas"].headers).include_flags,
self.spec["zlib-api"].headers.include_flags,
]
if self.spec.satisfies("~glpk"):
if self.spec.satisfies("platform=darwin"):
libs.append("libqsopt.mac.a")
else:
libs.append("libqsopt.linux.a")
else:
includes.append(self.spec["glpk"].headers.include_flags)
libs.append(self.spec["glpk"].libs.link_flags)
if self.spec.satisfies("^mkl"):
filter_file("#define MKL.*", "#define MKL 1", "ldak.c")
if self.spec.satisfies("^openblas"):
filter_file("#define MKL.*", "#define MKL 2", "ldak.c")
filter_file("#if MKL==2", "#if MKL==2\n#include <cblas.h>\n", "ldak.c")
if self.spec.satisfies("+glpk"):
filter_file("#define MET.*", "#define MET 1", "ldak.c")
filter_file('#include"glpk.h"', "#include<glpk.h>", "ldak.c")
filter_file(r"weights\[", "tally3[", "weightfuns.c")
cc = Executable(spack_cc)
args = ["ldak.c", self.compiler.openmp_flag, "-o", "ldak"] + includes + libs
cc(*args)
def install(self, spec, prefix):
mkdirp(prefix.bin)
install("ldak", prefix.bin.ldak)
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