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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 *
from spack.pkg.builtin.boost import Boost
class Libmesh(AutotoolsPackage):
"""The libMesh library provides a framework for the numerical simulation of
partial differential equations using arbitrary unstructured
discretizations on serial and parallel platforms."""
homepage = "https://libmesh.github.io/"
url = "https://github.com/libMesh/libmesh/releases/download/v1.0.0/libmesh-1.0.0.tar.bz2"
git = "https://github.com/libMesh/libmesh.git"
license("LGPL-2.1-or-later")
version("master", branch="master", submodules=True)
version("1.4.1", sha256="67eb7d5a9c954d891ca1386b70f138333a87a141d9c44213449ca6be69a66414")
version("1.4.0", sha256="62d7fce89096c950d1b38908484856ea63df57754b64cde6582e7ac407c8c81d")
version("1.3.1", sha256="638cf30d05c249315760f16cbae4804964db8857a04d5e640f37617bef17ab0f")
version("1.3.0", sha256="a8cc2cd44f42b960989dba10fa438b04af5798c46db0b4ec3ed29591b8359786")
version("1.2.1", sha256="11c22c7d96874a17de6b8c74caa45d6745d40bf3610e88b2bd28fd3381f5ba70")
version("1.0.0", sha256="8909b0354e147fa50d176caa63ef22b02326d49250e964be23532d89432e727f")
# support for libraries that are only available through the bundled copies:
# TODO libMesh 1.2.1 gained the ability to specify a path to capnproto
variant(
"capnproto",
default=False,
description="Compile with the bundled capnproto serialization library",
)
variant(
"exodusii", default=False, description="Compile with the bundled ExodusII output library"
)
variant("vtk", default=False, description="Compile with VTK input/output library")
variant(
"fparser",
default=False,
description="Compile with the bundled fparser function parser library",
)
variant("gmv", default=False, description="Compile with the bundled gmv format IO library")
variant(
"laspack",
default=False,
description="Compile with the bundled laspack interative solver library",
)
variant(
"libhilbert",
default=False,
description="Compile with the bundled libHilbert partitioning library",
)
variant(
"metaphysicl", default=False, description="Compile with the bundled metaphysicl AD library"
)
variant("perflog", default=False, description="Compile with performance logging support")
variant("blocked", default=False, description="Compile with support for blocked storage")
variant(
"metis",
default=False,
description="Compile with the bundled METIS graph partitioning library",
)
variant(
"nanoflann", default=False, description="Compile with the bundled nanoflann graph library"
)
variant("nemesis", default=False, description="Compile with the bundled nemesis IO library")
variant("netcdf", default=False, description="Compile with the bundled NETCDF IO library")
# TODO the copy of parmetis bundled with libMesh assumes that we use the
# bundled copy of metis, but previous versions of this build script use an
# external metis installation. Be conservative and completely disable
# parmetis support to preserve the old behavior (and to prevent compiling
# with two different copies of metis).
#
# variant('parmetis', default=False,
# description='Compile with the bundled PARMETIS graph library')
variant(
"qhull",
default=False,
description="Compile with the bundled qhull mesh generation library",
)
variant(
"sfc", default=False, description="Compile with the bundled sfcurves partitioning library"
)
variant(
"tetgen",
default=False,
description="Compile with the bundled tetgen mesh generation library",
)
variant(
"triangle",
default=False,
description="Compile with the bundled Triangle mesh generation library",
)
# support for libraries that may be externally installed:
variant("boost", default=False, description="Compile with components dependent on boost")
variant("eigen", default=False, description="support for dense linear algebra with Eigen")
variant("hdf5", default=False, description="Compile with support for HDF5 files")
variant("slepc", default=False, description="Compile with support for the SLEPc eigensolver")
variant("petsc", default=False, description="Compile with support for the PETSc")
# other features:
variant("debug", default=False, description="Compile with support for debugging")
variant("mpi", default=True, description="Enables MPI parallelism")
# While it is possible to configure libMesh to use openMP with neither
# pthreads nor TBB, no openMP code can actually be reached without enabling
# pthreads as well. Hence, since enabling openMP while disabling pthreads
# is not useful, we include openMP in the same variant to make it clear
# which scheduler is ultimately used.
variant(
"threads",
default="none",
description="Enable threading support (with a particular "
"scheduler, in the case of openmp and tbb)",
values=("none", "pthreads", "tbb", "openmp"),
multi=False,
)
conflicts(
"+metaphysicl",
when="@:1.2",
msg="The interface to metaphysicl is not available in libMesh "
"versions older than 1.3.0. Please explicitly disable this "
"variant.",
)
depends_on("boost", when="+boost")
# TODO: replace this with an explicit list of components of Boost,
# for instance depends_on('boost +filesystem')
# See https://github.com/spack/spack/pull/22303 for reference
depends_on(Boost.with_default_variants, when="+boost")
depends_on("eigen", when="+eigen")
depends_on("hdf5+mpi", when="+hdf5+mpi")
depends_on("mpi", when="+mpi")
depends_on("mpi", when="+slepc")
# compilation dependencies depend on perl
depends_on("perl")
depends_on("petsc+mpi", when="+mpi")
depends_on("petsc+metis", when="+metis")
depends_on("slepc", when="+slepc")
depends_on("petsc", when="+petsc")
depends_on("tbb", when="threads=tbb")
depends_on("vtk", when="+vtk")
def configure_args(self):
options = []
# GLIBCXX debugging is not, by default, supported by other libraries,
# so unconditionally disable it for libmesh
options.append("--enable-glibcxx-debugging=no")
# All bundled dependencies are explicitly disabled, so we do not need
# to perform this check:
options.append("--disable-strict-lgpl")
# The Hinnant unique pointer implementation is incompatible with boost
# (and not necessary with C++11 support), so unconditionally disable
# it:
options.append("--disable-hinnant-unique-ptr")
# libMesh does not allow for us to specify an installation location for
# zlib, an undocumented dependency of gzstreams: hence we must
# unconditionally disable gzstreams.
options.append("--enable-gzstreams=no")
# Similarly, since we cannot specify a location for bzip2 or xz, so
# disable them to avoid picking up system installations:
options.append("--disable-bzip2")
options.append("--disable-xz")
# TODO enable GDB backtracing. Disable for now to avoid picking up the
# system gdb installation:
options.append("--without-gdb-command")
# TODO add X11 as a dependency to get tecplot working
options.append("--enable-tecio=no")
options.append("--enable-tecplot=no")
# handle the bundled libraries that are not themselves dependencies of
# other bundled libaries:
for bundled_library in [
"capnproto",
"exodusii",
"fparser",
"gmv",
"laspack",
"libHilbert",
"metaphysicl",
"nanoflann",
"nemesis",
"parmetis",
"qhull",
"sfc",
"tetgen",
"triangle",
]:
if "+" + bundled_library.lower() in self.spec:
options.append("--enable-" + bundled_library + "=yes")
else:
options.append("--enable-" + bundled_library + "=no")
# and the ones which are dependencies of other bundled libraries:
if "+exodusii" in self.spec or "+netcdf" in self.spec:
options.append("--enable-netcdf=yes")
else:
options.append("--enable-netcdf=no")
if "+vtk" in self.spec:
options.append("--enable-vtk")
options.append("--with-vtk=%s" % self.spec["vtk"].prefix)
else:
options.append("--disable-vtk")
# handle external library dependencies:
if "+boost" in self.spec:
options.append("--with-boost=%s" % self.spec["boost"].prefix)
else:
options.append("--enable-boost=no")
if "+eigen" in self.spec:
options.append("--with-eigen=%s" % self.spec["eigen"].prefix)
else:
options.append("--enable-eigen=no")
if "+metaphysicl" in self.spec:
options.append("--enable-metaphysicl")
else:
options.append("--disable-metaphysicl")
if "+perflog" in self.spec:
options.append("--enable-perflog")
else:
options.append("--disable-perflog")
if "+blocked" in self.spec:
options.append("--enable-blocked-storage")
else:
options.append("--disable-blocked-storage")
if "+hdf5" in self.spec:
options.append("--with-hdf5=%s" % self.spec["hdf5"].prefix)
else:
options.append("--enable-hdf5=no")
# This is necessary with libMesh 1.2.1 to prevent a configure
# error:
if "+netcdf" not in self.spec:
options.append("--disable-netcdf-4")
if "+metis" in self.spec:
options.append("--enable-metis")
options.append("--enable-parmetis")
if "+petsc" in self.spec:
options.append("--with-metis=PETSc")
options.append("--with-parmetis=PETSc")
if "+petsc" in self.spec or "+slepc" in self.spec:
options.append("--enable-petsc=yes")
options.append("PETSC_DIR=%s" % self.spec["petsc"].prefix)
else:
options.append("--enable-petsc=no")
if "+slepc" in self.spec:
options.append("--enable-slepc=yes")
options.append("SLEPC_DIR=%s" % self.spec["slepc"].prefix)
else:
options.append("--enable-slepc=no")
# and, finally, other things:
if "+debug" in self.spec:
options.append("--with-methods=dbg")
else:
options.append("--with-methods=opt")
if "+mpi" in self.spec:
options.append("CC=%s" % self.spec["mpi"].mpicc)
options.append("CXX=%s" % self.spec["mpi"].mpicxx)
options.append("--with-mpi=%s" % self.spec["mpi"].prefix)
else:
options.append("--disable-mpi")
# libMesh will try to link with the system MPI library unless we
# provide explicit overrides
options.append("CC=%s" % self.compiler.cc)
options.append("CXX=%s" % self.compiler.cxx)
if "threads=openmp" in self.spec:
# OpenMP cannot be used if pthreads is not available: see
# parallel/threads_pthread.h and parallel/threads.h
options.append("--enable-openmp=yes")
options.append("--with-thread-model=pthread")
options.append("--enable-pthreads=yes")
else:
options.append("--enable-openmp=no")
if "threads=pthreads" in self.spec:
options.append("--with-thread-model=pthread")
options.append("--enable-pthreads=yes")
else:
if "threads=openmp" not in self.spec:
options.append("--enable-pthreads=no")
if "threads=tbb" in self.spec:
options.append("--with-thread-model=tbb")
options.append("--enable-tbb=yes")
options.append("--with-tbb=%s" % self.spec["tbb"].prefix)
else:
options.append("--enable-tbb=no")
return options
def setup_dependent_build_environment(self, env, dependent_spec):
env.append_flags("PERL", self.spec["perl"].command.path)
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