570 lines
23 KiB
Python
570 lines
23 KiB
Python
# Copyright 2013-2022 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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import os
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import shutil
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import socket
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from os import environ as env
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import llnl.util.tty as tty
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from spack.package import *
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def cmake_cache_entry(name, value, vtype=None):
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"""
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Helper that creates CMake cache entry strings used in
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'host-config' files.
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"""
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if vtype is None:
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if value == "ON" or value == "OFF":
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vtype = "BOOL"
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else:
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vtype = "PATH"
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return 'set({0} "{1}" CACHE {2} "")\n\n'.format(name, value, vtype)
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class Conduit(CMakePackage):
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"""Conduit is an open source project from Lawrence Livermore National
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Laboratory that provides an intuitive model for describing hierarchical
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scientific data in C++, C, Fortran, and Python. It is used for data
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coupling between packages in-core, serialization, and I/O tasks."""
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homepage = "https://software.llnl.gov/conduit"
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url = "https://github.com/LLNL/conduit/releases/download/v0.3.0/conduit-v0.3.0-src-with-blt.tar.gz"
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git = "https://github.com/LLNL/conduit.git"
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tags = ["radiuss", "e4s"]
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version("develop", branch="develop", submodules=True)
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# note: the main branch in conduit was renamed to develop, this next entry
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# is to bridge any spack dependencies that are still using the name master
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version("master", branch="develop", submodules=True)
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# note: 2021-05-05 latest tagged release is now preferred instead of develop
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version("0.8.4", sha256="55c37ddc668dbc45d43b60c440192f76e688a530d64f9fe1a9c7fdad8cd525fd")
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version("0.8.3", sha256="a9e60945366f3b8c37ee6a19f62d79a8d5888be7e230eabc31af2f837283ed1a")
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version("0.8.2", sha256="928eb8496bc50f6d8404f5bfa70220250876645d68d4f35ce0b99ecb85546284")
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version("0.8.1", sha256="488f22135a35136de592173131d123f7813818b7336c3b18e04646318ad3cbee")
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version("0.8.0", sha256="0607dcf9ced44f95e0b9549f5bbf7a332afd84597c52e293d7ca8d83117b5119")
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version("0.7.2", sha256="359fd176297700cdaed2c63e3b72d236ff3feec21a655c7c8292033d21d5228a")
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version("0.7.1", sha256="460a480cf08fedbf5b38f707f94f20828798327adadb077f80dbab048fd0a07d")
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version("0.7.0", sha256="ecaa9668ebec5d4efad19b104d654a587c0adbd5f502128f89601408cb4d7d0c")
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version("0.6.0", sha256="078f086a13b67a97e4ab6fe1063f2fef2356df297e45b43bb43d74635f80475d")
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version("0.5.1", sha256="68a3696d1ec6d3a4402b44a464d723e6529ec41016f9b44c053676affe516d44")
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version("0.5.0", sha256="7efac668763d02bd0a2c0c1b134d9f5ee27e99008183905bb0512e5502b8b4fe")
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version("0.4.0", sha256="c228e6f0ce5a9c0ffb98e0b3d886f2758ace1a4b40d00f3f118542c0747c1f52")
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version("0.3.1", sha256="7b358ca03bb179876291d4a55d6a1c944b7407a80a588795b9e47940b1990521")
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version("0.3.0", sha256="52e9cf5720560e5f7492876c39ef2ea20ae73187338361d2744bdf67567da155")
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# note: checksums on github automatic release source tars changed ~9/17
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version("0.2.1", sha256="796576b9c69717c52f0035542c260eb7567aa351ee892d3fbe3521c38f1520c4")
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version("0.2.0", sha256="31eff8dbc654a4b235cfcbc326a319e1752728684296721535c7ca1c9b463061")
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maintainers = ["cyrush"]
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###########################################################################
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# package variants
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###########################################################################
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variant("shared", default=True, description="Build Conduit as shared libs")
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variant("test", default=True, description="Enable Conduit unit tests")
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# variants for python support
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variant("python", default=False, description="Build Conduit Python support")
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variant("fortran", default=True, description="Build Conduit Fortran support")
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# variants for comm and i/o
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variant("mpi", default=True, description="Build Conduit MPI Support")
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# set to false for systems that implicitly link mpi
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variant("blt_find_mpi", default=True, description="Use BLT CMake Find MPI logic")
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variant("hdf5", default=True, description="Build Conduit HDF5 support")
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# TODO: remove 'compat' variant when VisIt starts distributing HDF5
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# binaries
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variant(
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"hdf5_compat",
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default=True,
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when="+hdf5",
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description="Build Conduit with HDF5 1.8.x (compatibility mode)",
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)
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variant("silo", default=False, description="Build Conduit Silo support")
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variant("adios", default=False, description="Build Conduit ADIOS support")
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variant("parmetis", default=True, description="Build Conduit Parmetis support")
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# zfp compression
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variant("zfp", default=False, description="Build Conduit ZFP support")
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# variants for dev-tools (docs, etc)
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variant("doc", default=False, description="Build Conduit's documentation")
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# doxygen support is wip, since doxygen has several dependencies
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# we want folks to explicitly opt in to building doxygen
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variant("doxygen", default=False, description="Build Conduit's Doxygen documentation")
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###########################################################################
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# package dependencies
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###########################################################################
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#######################
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# CMake
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#######################
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# cmake 3.14.1 or newer
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depends_on("cmake@3.14.1:", type="build")
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#######################
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# Python
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#######################
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depends_on("python", when="+python")
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extends("python", when="+python")
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depends_on("py-numpy", when="+python", type=("build", "run"))
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depends_on("py-mpi4py", when="+python+mpi", type=("build", "run"))
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#######################
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# I/O Packages
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#######################
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###############
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# HDF5
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###############
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depends_on("hdf5", when="+hdf5")
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depends_on("hdf5~shared", when="+hdf5~shared")
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# Require older HDF5 to ensure compatibility with VisIt: see #29132
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depends_on("hdf5@1.8.0:1.8", when="+hdf5+hdf5_compat")
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###############
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# Silo
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###############
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# we are not using silo's fortran features
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depends_on("silo+shared", when="+silo+shared")
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depends_on("silo~shared", when="+silo~shared")
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###############
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# ADIOS
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###############
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depends_on("adios+mpi~hdf5+shared", when="+adios+mpi+shared")
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depends_on("adios+mpi~hdf5~shared~blosc", when="+adios+mpi~shared")
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depends_on("adios~mpi~hdf5+shared", when="+adios~mpi+shared")
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depends_on("adios~mpi~hdf5~shared~blosc", when="+adios~mpi~shared")
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#######################
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# ZFP
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#######################
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depends_on("zfp bsws=8", when="+zfp")
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# hdf5 zfp plugin when both hdf5 and zfp are on
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depends_on("h5z-zfp~fortran", when="+hdf5+zfp")
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#######################
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# Parmetis
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#######################
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depends_on("parmetis", when="+parmetis")
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depends_on("metis", when="+parmetis")
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#######################
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# MPI
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#######################
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depends_on("mpi", when="+mpi")
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#######################
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# Documentation related
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#######################
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depends_on("py-sphinx", when="+python+doc", type="build")
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depends_on("py-sphinx-rtd-theme", when="+python+doc", type="build")
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depends_on("doxygen", when="+doc+doxygen")
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# Tentative patch for fj compiler
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# Cmake will support fj compiler and this patch will be removed
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patch("fj_flags.patch", when="%fj")
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patch("bpparametis.patch", when="@0.8.1")
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# Add missing include for numeric_limits
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# https://github.com/LLNL/conduit/pull/773
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patch(
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"https://github.com/LLNL/conduit/pull/773.patch?full_index=1",
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when="@:0.7.2",
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sha256="784d74942a63acf698c31b39848b46b4b755bf06faa6aa6fb81be61783ec0c30",
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)
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def setup_build_environment(self, env):
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env.set("CTEST_OUTPUT_ON_FAILURE", "1")
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# conduit uses a <=1.10 api version before 0.8
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if "@:0.7 +hdf5" in self.spec and "@1.10:" in self.spec["hdf5"]:
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env.append_flags("CFLAGS", "-DH5_USE_110_API")
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env.append_flags("CXXFLAGS", "-DH5_USE_110_API")
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def url_for_version(self, version):
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"""
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Provide proper url
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"""
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v = str(version)
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if v == "0.2.0":
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return "https://github.com/LLNL/conduit/archive/v0.2.0.tar.gz"
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elif v == "0.2.1":
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return "https://github.com/LLNL/conduit/archive/v0.2.1.tar.gz"
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else:
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# starting with v 0.3.0, conduit uses BLT
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# (https://github.com/llnl/blt) as a submodule, since github does
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# not automatically package source from submodules, conduit
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# provides a custom src tarball
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return "https://github.com/LLNL/conduit/releases/download/v{0}/conduit-v{1}-src-with-blt.tar.gz".format(
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v, v
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)
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return url
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####################################################################
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# Note: cmake, build, and install stages are handled by CMakePackage
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####################################################################
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# provide cmake args (pass host config as cmake cache file)
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def cmake_args(self):
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host_config = self._get_host_config_path(self.spec)
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options = []
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options.extend(["-C", host_config, "../spack-src/src/"])
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return options
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@run_after("build")
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@on_package_attributes(run_tests=True)
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def build_test(self):
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with working_dir("spack-build"):
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print("Running Conduit Unit Tests...")
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make("test")
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@run_after("install")
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@on_package_attributes(run_tests=True)
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def check_install(self):
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"""
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Checks the spack install of conduit using conduit's
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using-with-cmake example
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"""
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print("Checking Conduit installation...")
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spec = self.spec
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install_prefix = spec.prefix
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example_src_dir = join_path(install_prefix, "examples", "conduit", "using-with-cmake")
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print("Checking using-with-cmake example...")
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with working_dir("check-conduit-using-with-cmake-example", create=True):
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cmake_args = ["-DCONDUIT_DIR={0}".format(install_prefix), example_src_dir]
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cmake(*cmake_args)
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make()
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example = Executable("./conduit_example")
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example()
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print("Checking using-with-make example...")
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example_src_dir = join_path(install_prefix, "examples", "conduit", "using-with-make")
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example_files = glob.glob(join_path(example_src_dir, "*"))
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with working_dir("check-conduit-using-with-make-example", create=True):
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for example_file in example_files:
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shutil.copy(example_file, ".")
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make("CONDUIT_DIR={0}".format(install_prefix))
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example = Executable("./conduit_example")
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example()
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def _get_host_config_path(self, spec):
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sys_type = spec.architecture
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# if on llnl systems, we can use the SYS_TYPE
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if "SYS_TYPE" in env:
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sys_type = env["SYS_TYPE"]
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host_config_path = "{0}-{1}-{2}-conduit-{3}.cmake".format(
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socket.gethostname(), sys_type, spec.compiler, spec.dag_hash()
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)
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dest_dir = spec.prefix
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host_config_path = os.path.abspath(join_path(dest_dir, host_config_path))
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return host_config_path
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@run_before("cmake")
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def hostconfig(self):
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"""
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This method creates a 'host-config' file that specifies
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all of the options used to configure and build conduit.
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For more details about 'host-config' files see:
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http://software.llnl.gov/conduit/building.html
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"""
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spec = self.spec
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if not os.path.isdir(spec.prefix):
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os.mkdir(spec.prefix)
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#######################
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# Compiler Info
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#######################
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c_compiler = env["SPACK_CC"]
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cpp_compiler = env["SPACK_CXX"]
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if "+fortran" in spec:
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f_compiler = env["SPACK_FC"]
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else:
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f_compiler = None
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#######################################################################
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# Directly fetch the names of the actual compilers to create a
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# 'host config' file that works outside of the spack install env.
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#######################################################################
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sys_type = spec.architecture
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# if on llnl systems, we can use the SYS_TYPE
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if "SYS_TYPE" in env:
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sys_type = env["SYS_TYPE"]
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# are we on a specific machine
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on_blueos = "blueos" in sys_type
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##############################################
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# Find and record what CMake is used
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##############################################
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cmake_exe = spec["cmake"].command.path
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# get hostconfig name
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host_cfg_fname = self._get_host_config_path(spec)
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cfg = open(host_cfg_fname, "w")
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cfg.write("##################################\n")
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cfg.write("# spack generated host-config\n")
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cfg.write("##################################\n")
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cfg.write("# {0}-{1}\n".format(sys_type, spec.compiler))
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cfg.write("##################################\n\n")
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# Include path to cmake for reference
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cfg.write("# cmake from spack \n")
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cfg.write("# cmake executable path: %s\n\n" % cmake_exe)
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#######################
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# Compiler Settings
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#######################
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cfg.write("#######\n")
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cfg.write("# using %s compiler spec\n" % spec.compiler)
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cfg.write("#######\n\n")
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cfg.write("# c compiler used by spack\n")
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cfg.write(cmake_cache_entry("CMAKE_C_COMPILER", c_compiler))
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cfg.write("# cpp compiler used by spack\n")
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cfg.write(cmake_cache_entry("CMAKE_CXX_COMPILER", cpp_compiler))
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cfg.write("# fortran compiler used by spack\n")
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if "+fortran" in spec:
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cfg.write(cmake_cache_entry("ENABLE_FORTRAN", "ON"))
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cfg.write(cmake_cache_entry("CMAKE_Fortran_COMPILER", f_compiler))
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else:
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cfg.write(cmake_cache_entry("ENABLE_FORTRAN", "OFF"))
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if "+shared" in spec:
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cfg.write(cmake_cache_entry("BUILD_SHARED_LIBS", "ON"))
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else:
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cfg.write(cmake_cache_entry("BUILD_SHARED_LIBS", "OFF"))
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# use global spack compiler flags
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cppflags = " ".join(spec.compiler_flags["cppflags"])
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if cppflags:
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# avoid always ending up with ' ' with no flags defined
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cppflags += " "
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cflags = cppflags + " ".join(spec.compiler_flags["cflags"])
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if cflags:
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cfg.write(cmake_cache_entry("CMAKE_C_FLAGS", cflags))
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cxxflags = cppflags + " ".join(spec.compiler_flags["cxxflags"])
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if cxxflags:
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cfg.write(cmake_cache_entry("CMAKE_CXX_FLAGS", cxxflags))
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fflags = " ".join(spec.compiler_flags["fflags"])
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if self.spec.satisfies("%cce"):
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fflags += " -ef"
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if fflags:
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cfg.write(cmake_cache_entry("CMAKE_Fortran_FLAGS", fflags))
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if (f_compiler is not None) and ("gfortran" in f_compiler) and ("clang" in cpp_compiler):
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libdir = os.path.join(os.path.dirname(os.path.dirname(f_compiler)), "lib")
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flags = ""
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for _libpath in [libdir, libdir + "64"]:
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if os.path.exists(_libpath):
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flags += " -Wl,-rpath,{0}".format(_libpath)
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description = "Adds a missing libstdc++ rpath"
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if flags:
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cfg.write(cmake_cache_entry("BLT_EXE_LINKER_FLAGS", flags, description))
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#######################
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# Unit Tests
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#######################
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if "+test" in spec:
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cfg.write(cmake_cache_entry("ENABLE_TESTS", "ON"))
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else:
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cfg.write(cmake_cache_entry("ENABLE_TESTS", "OFF"))
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# extra fun for blueos
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if on_blueos:
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# All of BlueOS compilers report clang due to nvcc,
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# override to proper compiler family
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if "xlc" in c_compiler:
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cfg.write(cmake_cache_entry("CMAKE_C_COMPILER_ID", "XL"))
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if "xlC" in cpp_compiler:
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cfg.write(cmake_cache_entry("CMAKE_CXX_COMPILER_ID", "XL"))
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if "+fortran" in spec:
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if "xlf" in f_compiler:
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cfg.write(cmake_cache_entry("CMAKE_Fortran_COMPILER_ID", "XL"))
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if (f_compiler is not None) and ("xlf" in f_compiler):
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# Fix missing std linker flag in xlc compiler
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flags = "-WF,-C! -qxlf2003=polymorphic"
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cfg.write(cmake_cache_entry("BLT_FORTRAN_FLAGS", flags))
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# Grab lib directory for the current fortran compiler
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libdir = os.path.join(os.path.dirname(os.path.dirname(f_compiler)), "lib")
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rpaths = "-Wl,-rpath,{0} -Wl,-rpath,{0}64".format(libdir)
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flags = "${BLT_EXE_LINKER_FLAGS} -lstdc++ " + rpaths
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cfg.write(cmake_cache_entry("BLT_EXE_LINKER_FLAGS", flags))
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if "+shared" in spec:
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flags = "${CMAKE_SHARED_LINKER_FLAGS} " + rpaths
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cfg.write(cmake_cache_entry("CMAKE_SHARED_LINKER_FLAGS", flags))
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#######################
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# Python
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#######################
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cfg.write("# Python Support\n")
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if "+python" in spec:
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cfg.write("# Enable python module builds\n")
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cfg.write(cmake_cache_entry("ENABLE_PYTHON", "ON"))
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cfg.write("# python from spack \n")
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cfg.write(cmake_cache_entry("PYTHON_EXECUTABLE", spec["python"].command.path))
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try:
|
|
cfg.write("# python module install dir\n")
|
|
cfg.write(cmake_cache_entry("PYTHON_MODULE_INSTALL_PREFIX", python_platlib))
|
|
except NameError:
|
|
# spack's won't exist in a subclass
|
|
pass
|
|
else:
|
|
cfg.write(cmake_cache_entry("ENABLE_PYTHON", "OFF"))
|
|
|
|
if "+doc" in spec:
|
|
if "+python" in spec:
|
|
cfg.write(cmake_cache_entry("ENABLE_DOCS", "ON"))
|
|
|
|
cfg.write("# sphinx from spack \n")
|
|
sphinx_build_exe = join_path(spec["py-sphinx"].prefix.bin, "sphinx-build")
|
|
cfg.write(cmake_cache_entry("SPHINX_EXECUTABLE", sphinx_build_exe))
|
|
if "+doxygen" in spec:
|
|
cfg.write("# doxygen from uberenv\n")
|
|
doxygen_exe = spec["doxygen"].command.path
|
|
cfg.write(cmake_cache_entry("DOXYGEN_EXECUTABLE", doxygen_exe))
|
|
else:
|
|
cfg.write(cmake_cache_entry("ENABLE_DOCS", "OFF"))
|
|
|
|
#######################
|
|
# MPI
|
|
#######################
|
|
|
|
cfg.write("# MPI Support\n")
|
|
|
|
if "+mpi" in spec:
|
|
mpicc_path = spec["mpi"].mpicc
|
|
mpicxx_path = spec["mpi"].mpicxx
|
|
mpifc_path = spec["mpi"].mpifc if "+fortran" in spec else None
|
|
# if we are using compiler wrappers on cray systems
|
|
# use those for mpi wrappers, b/c spec['mpi'].mpicxx
|
|
# etc make return the spack compiler wrappers
|
|
# which can trip up mpi detection in CMake 3.14
|
|
if spec["mpi"].mpicc == spack_cc:
|
|
mpicc_path = c_compiler
|
|
mpicxx_path = cpp_compiler
|
|
mpifc_path = f_compiler
|
|
cfg.write(cmake_cache_entry("ENABLE_MPI", "ON"))
|
|
cfg.write(cmake_cache_entry("MPI_C_COMPILER", mpicc_path))
|
|
cfg.write(cmake_cache_entry("MPI_CXX_COMPILER", mpicxx_path))
|
|
if "+blt_find_mpi" in spec:
|
|
cfg.write(cmake_cache_entry("ENABLE_FIND_MPI", "ON"))
|
|
else:
|
|
cfg.write(cmake_cache_entry("ENABLE_FIND_MPI", "OFF"))
|
|
if "+fortran" in spec:
|
|
cfg.write(cmake_cache_entry("MPI_Fortran_COMPILER", mpifc_path))
|
|
|
|
mpiexe_bin = join_path(spec["mpi"].prefix.bin, "mpiexec")
|
|
if os.path.isfile(mpiexe_bin):
|
|
# starting with cmake 3.10, FindMPI expects MPIEXEC_EXECUTABLE
|
|
# vs the older versions which expect MPIEXEC
|
|
if self.spec["cmake"].satisfies("@3.10:"):
|
|
cfg.write(cmake_cache_entry("MPIEXEC_EXECUTABLE", mpiexe_bin))
|
|
else:
|
|
cfg.write(cmake_cache_entry("MPIEXEC", mpiexe_bin))
|
|
else:
|
|
cfg.write(cmake_cache_entry("ENABLE_MPI", "OFF"))
|
|
|
|
#######################
|
|
# ZFP
|
|
#######################
|
|
cfg.write("# zfp from spack \n")
|
|
if "+zfp" in spec:
|
|
cfg.write(cmake_cache_entry("ZFP_DIR", spec["zfp"].prefix))
|
|
else:
|
|
cfg.write("# zfp not built by spack \n")
|
|
|
|
#######################################################################
|
|
# I/O Packages
|
|
#######################################################################
|
|
|
|
cfg.write("# I/O Packages\n\n")
|
|
|
|
#######################
|
|
# HDF5
|
|
#######################
|
|
|
|
cfg.write("# hdf5 from spack \n")
|
|
|
|
if "+hdf5" in spec:
|
|
cfg.write(cmake_cache_entry("HDF5_DIR", spec["hdf5"].prefix))
|
|
if "zlib" in spec:
|
|
# HDF5 depends on zlib
|
|
cfg.write(cmake_cache_entry("ZLIB_DIR", spec["zlib"].prefix))
|
|
else:
|
|
cfg.write("# hdf5 not built by spack \n")
|
|
|
|
#######################
|
|
# h5z-zfp
|
|
#######################
|
|
|
|
cfg.write("# h5z-zfp from spack \n")
|
|
|
|
if "+hdf5+zfp" in spec:
|
|
cfg.write(cmake_cache_entry("H5ZZFP_DIR", spec["h5z-zfp"].prefix))
|
|
else:
|
|
cfg.write("# h5z-zfp not built by spack \n")
|
|
|
|
#######################
|
|
# Silo
|
|
#######################
|
|
|
|
cfg.write("# silo from spack \n")
|
|
|
|
if "+silo" in spec:
|
|
cfg.write(cmake_cache_entry("SILO_DIR", spec["silo"].prefix))
|
|
else:
|
|
cfg.write("# silo not built by spack \n")
|
|
|
|
#######################
|
|
# ADIOS
|
|
#######################
|
|
|
|
cfg.write("# ADIOS from spack \n")
|
|
|
|
if "+adios" in spec:
|
|
cfg.write(cmake_cache_entry("ADIOS_DIR", spec["adios"].prefix))
|
|
else:
|
|
cfg.write("# adios not built by spack \n")
|
|
|
|
#######################
|
|
# Parmetis
|
|
#######################
|
|
|
|
cfg.write("# parmetis from spack \n")
|
|
|
|
if "+parmetis" in spec:
|
|
cfg.write(cmake_cache_entry("METIS_DIR", spec["metis"].prefix))
|
|
cfg.write(cmake_cache_entry("PARMETIS_DIR", spec["parmetis"].prefix))
|
|
else:
|
|
cfg.write("# parmetis not built by spack \n")
|
|
|
|
#######################
|
|
# Finish host-config
|
|
#######################
|
|
cfg.write("##################################\n")
|
|
cfg.write("# end spack generated host-config\n")
|
|
cfg.write("##################################\n")
|
|
cfg.close()
|
|
|
|
host_cfg_fname = os.path.abspath(host_cfg_fname)
|
|
tty.info("spack generated conduit host-config file: " + host_cfg_fname)
|