114 lines
4.1 KiB
Python
114 lines
4.1 KiB
Python
# Copyright 2013-2024 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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import glob
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from spack.package import *
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class Raxml(Package):
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"""RAxML (Randomized Axelerated Maximum Likelihood) is a program for
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sequential and parallel Maximum Likelihood based inference of large
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phylogenetic trees.
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"""
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homepage = "https://sco.h-its.org/exelixis/web/software/raxml"
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url = "https://github.com/stamatak/standard-RAxML/archive/v8.2.12.tar.gz"
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license("GPL-3.0-or-later")
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version("8.2.12", sha256="338f81b52b54e16090e193daf36c1d4baa9b902705cfdc7f4497e3e09718533b")
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version("8.2.11", sha256="08cda74bf61b90eb09c229e39b1121c6d95caf182708e8745bd69d02848574d7")
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variant("mpi", default=True, description="Enable MPI parallel support")
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variant("pthreads", default=False, description="Enable pthreads version")
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depends_on("mpi", when="+mpi")
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patch("nox86.patch")
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# Compiles with either GCC or ICC.
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conflicts("%cce")
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conflicts("%apple-clang")
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conflicts("%clang")
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conflicts("%nag")
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conflicts("%pgi")
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conflicts("%xl")
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conflicts("%xl_r")
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# can't build multiple binaries in parallel without things breaking
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parallel = False
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def install(self, spec, prefix):
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mkdirp(prefix.bin)
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files = glob.iglob("Makefile.*")
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for file in files:
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makefile = FileFilter(file)
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makefile.filter("gcc", spack_cc)
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if spec.satisfies("+mpi"):
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makefile.filter("mpicc", self.spec["mpi"].mpicc)
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if spec.target.family == "x86_64":
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if spec.satisfies("+mpi +pthreads") and "avx" in spec.target:
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make("-f", "Makefile.AVX.HYBRID.gcc")
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install("raxmlHPC-HYBRID-AVX", prefix.bin)
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if spec.satisfies("+mpi +pthreads") and "sse3" in spec.target:
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make("-f", "Makefile.SSE3.HYBRID.gcc")
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install("raxmlHPC-HYBRID-SSE3", prefix.bin)
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if spec.satisfies("+mpi +pthreads"):
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make("-f", "Makefile.HYBRID.gcc")
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install("raxmlHPC-HYBRID", prefix.bin)
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if spec.satisfies("+mpi") and "avx" in spec.target:
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make("-f", "Makefile.AVX.MPI.gcc")
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install("raxmlHPC-MPI-AVX", prefix.bin)
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if spec.satisfies("+mpi") and "sse3" in spec.target:
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make("-f", "Makefile.SSE3.MPI.gcc")
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install("raxmlHPC-MPI-SSE3", prefix.bin)
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if spec.satisfies("+mpi"):
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make("-f", "Makefile.MPI.gcc")
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install("raxmlHPC-MPI", prefix.bin)
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if spec.satisfies("+pthreads") and "avx" in spec.target:
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make("-f", "Makefile.AVX.PTHREADS.gcc")
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install("raxmlHPC-PTHREADS-AVX", prefix.bin)
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if spec.satisfies("+pthreads") and "sse3" in spec.target:
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make("-f", "Makefile.SSE3.PTHREADS.gcc")
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install("raxmlHPC-PTHREADS-SSE3", prefix.bin)
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if spec.satisfies("+pthreads"):
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make("-f", "Makefile.PTHREADS.gcc")
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install("raxmlHPC-PTHREADS", prefix.bin)
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if "sse3" in spec.target:
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make("-f", "Makefile.SSE3.gcc")
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install("raxmlHPC-SSE3", prefix.bin)
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if "avx" in spec.target:
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make("-f", "Makefile.AVX.gcc")
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install("raxmlHPC-AVX", prefix.bin)
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make("-f", "Makefile.gcc")
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install("raxmlHPC", prefix.bin)
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else:
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if spec.satisfies("+mpi +pthreads"):
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make("-f", "Makefile.HYBRID.nox86.gcc")
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install("raxmlHPC-HYBRID", prefix.bin)
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if spec.satisfies("+mpi"):
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make("-f", "Makefile.MPI.nox86.gcc")
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install("raxmlHPC-MPI", prefix.bin)
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if spec.satisfies("+pthreads"):
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make("-f", "Makefile.PTHREADS.nox86.gcc")
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install("raxmlHPC-PTHREADS", prefix.bin)
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make("-f", "Makefile.nox86.gcc")
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install("raxmlHPC", prefix.bin)
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