14599f09be
* Separate Apple Clang from LLVM Clang Apple Clang is a compiler of its own. All places referring to "-apple" suffix have been updated. * Hack to use a dash in 'apple-clang' To be able to use autodoc from Sphinx we need a valid Python name for the module that contains Apple's Clang code. * Updated packages to account for the existence of apple-clang Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Added unit test for XCode related functions Co-authored-by: Gregory Becker <becker33@llnl.gov> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
109 lines
3.9 KiB
Python
109 lines
3.9 KiB
Python
# Copyright 2013-2020 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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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/v8.2.11.tar.gz"
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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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