CEED 1.0 (#7423)
* ceed bundle package including OCCA, MAGMA, Nek5000, mfem, and PETSc Very preliminary, a lot of ad hoc decisions, fragile, missing functionality All packages do build on my MacOS laptop with Cuda Funded-by: ECP Project: CEED Time: 4 hours Reported-by: Tzanio Kolev <kolev1@llnl.gov> * Some adjustments in a few CEED-related packages. This is still very preliminary, but with these changes I'm able to build from scratch on a Mac laptop and a Linux desktop (RHEL7). Note that there doesn't seem to be a good way to support CUDA in Spack, so you'll have to install that manually yourself. You will also need a Fortran compiler, in particular on a Mac where you also have to make sure that it is being picked up in ~/.spack/darwin/compilers.yaml. * ceed bundle package including OCCA, MAGMA, Nek5000, mfem, and PETSc Very preliminary, a lot of ad hoc decisions, fragile, missing functionality All packages do build on my MacOS laptop with Cuda Funded-by: ECP Project: CEED Time: 4 hours Reported-by: Tzanio Kolev <kolev1@llnl.gov> * Reverting Mac-related CUDA checks in the OCCA and MAGMA packages. A much better solution is to install CUDA manually and add it to ~/.spack/darwin/packages.yaml: packages: cuda: paths: cuda@8.0.54: /usr/local/cuda * Fix flake8 warnings Funded-by: CEED Project: CEED/Spack * remove unneeded commented out code Funded-by: CEED Project: CEED/Spack * Don't have PETSc use MUMPS to speedup install time, try parallel installs for Magma Funded-by: CEED Project: CEED/Spack * Added libceed package and made changes to get the ceed metapackage up and running. * Get the ceed package up and running and added installing the .h file in the libceed package. * All packages are now pointed at specific versions (either tagged or git hashed. * Changed some of the specific versions in the CEED metapackage. * Some version updates. * Applied Cameron Smith's patch for the latest pumi. * Merge * Nek5000: Use tarball instead of git tag * Major update of the mfem package - needs more testing. Add a testing shell script for mfem, test_builds.sh, in the mfem directory. It builds a number of mfem configurations to ensure they all work. Add 'suite-sparse' variant to petsc. Add 'develop' version of libceed. Add 'metis' variant of laghos. Update the dependencies of ceed. * Changes in petsc's handling of zlib to make the latest build work on Mac. * [MFEM] When using '+libunwind', mfem needs '-ldl'. * [OCCA] Remove debug print statements. * [PETSc] Replace the check ('zlib' in spec) with ('+zlib' in spec) - the latter checks if 'zlib' variant of petsc is enabled which is incorrect; the former checks if petsc is configured to depend on 'zlib'. * [MFEM] Add conduit variant. * [libCEED] Enable testing using 'make prove'. * [MFEM] Tweak test_builds.sh - all builds pass on fedora 27. * Add a post install test * Add a post installation check for NekCEM * pumi: bump git hash, remove unused patch * Fixed testing of Laghos package * Adding variants in CEED package * Empty file for URL didn't work on LLNL/LC. Replacing with bundle-package.txt -> README.md. * [MFEM] If the spec defines the 'cxxflags' compiler flags, use that value to set the CXXFLAGS value in the mfem build system. * Disabling HDF5 by default. You can still build it with "spack install ceed+hdf5". * libceed: fix use of prefix versus DESTDIR * Added cuda variant for libCEED (off by default) * [libCEED] When building v0.1, fix ceed.pc before installing it. * [CEED] Add variants for OCCA and PUMI. Replace the hdf5 variant with a variant called quickbuild that disables variants in packages to speedup the build - currently hdf5, boost, and superlu-dist in PETSc. * [libCEED] Remove unused 'import os'. * [MAGMA] Add version 2.3.0. * [OCCA] Major update of occa/package.py. * [libCEED] Several improvements. * [CEED] Use fixed versions for occa and libceed. * [OCCA] Fix a bug in CUDA setup. * NekCEM doesn't need depends_on('python') * [OCCA,libCEED,MFEM,CEED] Update occa and libceed versions plus a few tweaks in occa and mfem. * Switching to gslib-1.0.2 to fix summitdev bug. * [Nek5000] Use the Fortran 77 compiler instead of the 'fc' compiler. Propagate any 'fflags' and 'cflags' specifications to the Nek tools. * [MFEM] Tweak for 'ppc64le'. * attempt to override fips compatibility error for md5 * Compiler option changes in libCEED to fix summitdev build. * Disable the nekcem install test until it can be fixed. * [NekCEM] Major update of the package to fix various issues. * [NekCEM] Fix formatting * zoltan: remove non-portable -g0 flag the pgi compiler does not accept it * pumi: specify dependency on cmake > 3 * [Nek5000] Add dependency on libx11 when needed. Various hacks to support IBM XL compilers. * [NekCEM] Link with the pthreads library - it is required. * [MAGMA] Add a patch for magma v2.3.0 when building with gcc <= 4.8. Add dependency on BLAS. * [CEED] Update to magma 2.3.0. When building with gcc < 4.9 constrain the used suite-sparse version to <= 5.1.0 - starting with v5.2.0, suite-sparse requires gcc >= 4.9. * Small updates * [libceed, gslib] Fix style * [Nek5000] Need 'libxt' as a dependency as well. * [MUMPS] Temporary workaround for ray. * Updating occa and libceed to laters pre-1.0.0 and pre-0.2 hashes * petsc: add pkg-config patch for variable quoting Variable definitions in pkg-config are processed more like make than a shell, so don't need quoting. Older versions of pkg-config (<= 0.28) did not remove the quotes when printing the value. Freedesktop #67904 (https://bugs.freedesktop.org/show_bug.cgi?id=67904) Reported-by: Tzanio Kolev <kolev1@llnl.gov> * petsc: add 3.8.4 and myself as co-maintainer * Updating libceed to latest pre-0.2 hash. * [PETSc] Add the 'headers' and 'libs' properties. * [MFEM] Explicitly add rpaths to link flags for external packages. This is necessary when MFEM's exported options (in config.mk) are used outside of Spack for linking against MFEM. * Unset MFEM_DIR before building MFEM * [PETSc] As observed by @jedbrown, there is no need to define the 'libs' property explicitly - the default handler works fine too. * Build MAGMA shared by default, install a few additional headers * Forgot a self * Switching to OCCA tag v1.0.0-alpha.4. Adding urls for OCCA and libCEED ('spack uninstall' complains otherwise). * Removed FIXMEs for OCCA tag * [occa] Cleaned up tagged versions * [libceed] Updated occa to v1.0.0-alpha.5 * [ceed] Updated occa to v1.0.0-alpha.5 * [libCEED] Always define the 'NDEBUG' makefile option based on the 'debug' variant setting - this should always work regardless of the default setting inside the libceed makefile. * [MUMPS] Revert a temporary workaround. * [CEED, libCEED] Minor tweaks. * libCEED v0.2 release * [CEED] Use version 0.2 of libCEED. * [HPGMG] Remove duplicate version. * [CEED] Update the hpgmg version * hpgmg: use tarball for 0.3 The Git repository contains somewhat heavy documentation so the tarballs are much faster. * hpgmg: +fe was default for the 0.3 release * hpgmg: explicitly name build directory to avoid use of ambient PETSC_ARCH * [HPGMG] Fix flake8 formatting * libceed@0.2: work around occaFree issue
This commit is contained in:
Aaron Fisher
committed by
Veselin Dobrev
Veselin Dobrev
parent
b3f6015e32
commit
b62ed20f3f
@@ -22,22 +22,31 @@
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# License along with this program; if not, write to the Free Software
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# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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##############################################################################
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import re
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from spack import *
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import os
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import shutil
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class Mfem(Package):
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"""Free, lightweight, scalable C++ library for finite element methods."""
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tags = ['FEM', 'finite elements', 'high-order', 'AMR', 'HPC']
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homepage = 'http://www.mfem.org'
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url = 'https://github.com/mfem/mfem'
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maintainers = ['goxberry', 'tzanio', 'markcmiller86', 'acfisher',
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'v-dobrev']
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# Recommended mfem builds to test when updating this file: see the shell
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# script 'test_builds.sh' in the same directory as this file.
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# mfem is downloaded from a URL shortener at request of upstream
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# author Tzanio Kolev <tzanio@llnl.gov>. See here:
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# https://github.com/mfem/mfem/issues/53
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#
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# The following procedure should be used to verify security when a
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# new verison is added:
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# new version is added:
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#
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# 1. Verify that no checksums on old versions have changed.
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#
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@@ -51,6 +60,11 @@ class Mfem(Package):
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# If this quick verification procedure fails, additional discussion
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# will be required to verify the new version.
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# 'develop' is a special version that is always larger (or newer) than any
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# other version.
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version('develop',
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git='https://github.com/mfem/mfem', branch='master')
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version('3.3.2',
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'01a762a5d0a2bc59ce4e2f59009045a4',
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url='https://goo.gl/Kd7Jk8', extension='.tar.gz',
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@@ -71,8 +85,19 @@ class Mfem(Package):
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'841ea5cf58de6fae4de0f553b0e01ebaab9cd9c67fa821e8a715666ecf18fc57',
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url='http://goo.gl/xrScXn', extension='.tar.gz')
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variant('static', default=True,
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description='Build static library')
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variant('shared', default=False,
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description='Build shared library')
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variant('mpi', default=True,
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description='Enable MPI parallelism')
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# Can we make the default value for 'metis' to depend on the 'mpi' value?
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variant('metis', default=True,
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description='Enable METIS support')
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# TODO: The 'hypre' variant is the same as 'mpi', we may want to remove it.
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# For now, keep the 'hypre' variant while ignoring its setting. This
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# is done to preserve compatibility with other packages that refer to
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# it, e.g. xSDK.
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variant('hypre', default=True,
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description='Required for MPI parallelism')
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variant('openmp', default=False,
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@@ -83,10 +108,13 @@ class Mfem(Package):
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' May cause minor performance issues.'))
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variant('superlu-dist', default=False,
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description='Enable MPI parallel, sparse direct solvers')
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# Placeholder for STRUMPACK, support added in mfem v3.3.2:
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# variant('strumpack', default=False,
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# description='Enable support for STRUMPACK')
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variant('suite-sparse', default=False,
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description='Enable serial, sparse direct solvers')
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variant('petsc', default=False,
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description='Enable PETSc solvers, preconditioners, etc..')
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description='Enable PETSc solvers, preconditioners, etc.')
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variant('sundials', default=False,
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description='Enable Sundials time integrators')
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variant('mpfr', default=False,
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@@ -97,43 +125,77 @@ class Mfem(Package):
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description='Build debug instead of optimized version')
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variant('netcdf', default=False,
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description='Enable Cubit/Genesis reader')
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variant('conduit', default=False,
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description='Enable binary data I/O using Conduit')
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variant('gzstream', default=True,
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description='Support zip\'d streams for I/O')
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variant('gnutls', default=False,
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description='Enable secure sockets using GnuTLS')
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variant('libunwind', default=False,
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description='Enable backtrace on error support using Libunwind')
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variant('timer', default='auto',
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values=('auto', 'std', 'posix', 'mac', 'mpi'),
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description='Timing functions to use in mfem::StopWatch')
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variant('examples', default=False,
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description='Build and install examples')
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variant('miniapps', default=False,
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description='Build and install miniapps')
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conflicts('+mpi', when='~hypre')
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conflicts('+suite-sparse', when='~lapack')
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conflicts('+superlu-dist', when='@:3.1')
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conflicts('+netcdf', when='@:3.1')
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conflicts('+shared', when='@:3.3.2')
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conflicts('~static~shared')
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conflicts('~threadsafe', when='+openmp')
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depends_on('hypre', when='+hypre')
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depends_on('blas', when='+lapack')
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depends_on('blas', when='+suite-sparse')
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depends_on('lapack', when='+lapack')
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depends_on('lapack', when='+suite-sparse')
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conflicts('+netcdf', when='@:3.1')
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conflicts('+superlu-dist', when='@:3.1')
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conflicts('+gnutls', when='@:3.1')
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conflicts('+gzstream', when='@:3.2')
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conflicts('+mpfr', when='@:3.2')
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conflicts('+petsc', when='@:3.2')
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conflicts('+sundials', when='@:3.2')
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conflicts('timer=mac', when='@:3.3.0')
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conflicts('timer=mpi', when='@:3.3.0')
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conflicts('~metis+mpi', when='@:3.3.0')
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conflicts('+metis~mpi', when='@:3.3.0')
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conflicts('+conduit', when='@:3.3.2')
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conflicts('+superlu-dist', when='~mpi')
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conflicts('+petsc', when='~mpi')
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conflicts('timer=mpi', when='~mpi')
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depends_on('mpi', when='+mpi')
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depends_on('metis')
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depends_on('parmetis', when='+superlu-dist')
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depends_on('metis@5:', when='+superlu-dist')
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depends_on('metis@5:', when='+suite-sparse ^suite-sparse@4.5:')
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depends_on('hypre', when='+mpi')
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depends_on('metis', when='+metis')
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depends_on('blas', when='+lapack')
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depends_on('lapack', when='+lapack')
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depends_on('sundials@2.7:+hypre', when='+sundials')
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depends_on('sundials@2.7.0', when='@:3.3.0+sundials~mpi')
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depends_on('sundials@2.7.0+mpi+hypre', when='@:3.3.0+sundials+mpi')
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depends_on('sundials@2.7.0:', when='@3.3.2:+sundials~mpi')
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depends_on('sundials@2.7.0:+mpi+hypre', when='@3.3.2:+sundials+mpi')
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depends_on('suite-sparse', when='+suite-sparse')
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depends_on('superlu-dist', when='@3.2: +superlu-dist')
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depends_on('petsc@3.8:', when='+petsc')
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depends_on('superlu-dist', when='+superlu-dist')
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# The PETSc tests in MFEM will fail if PETSc is not configured with
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# SuiteSparse and MUMPS. On the other hand, if we require the variants
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# '+suite-sparse+mumps' of PETSc, the xsdk package concretization fails.
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depends_on('petsc@3.8:+mpi+double+hypre', when='+petsc')
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# Recommended when building outside of xsdk:
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# depends_on('petsc@3.8:+mpi+double+hypre+suite-sparse+mumps',
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# when='+petsc')
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depends_on('mpfr', when='+mpfr')
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depends_on('netcdf', when='@3.2: +netcdf')
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depends_on('zlib', when='@3.2: +netcdf')
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depends_on('hdf5', when='@3.2: +netcdf')
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depends_on('libunwind', when='+debug')
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depends_on('netcdf', when='+netcdf')
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depends_on('libunwind', when='+libunwind')
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depends_on('zlib', when='+gzstream')
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depends_on('gnutls', when='+gnutls')
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depends_on('conduit@0.3.1:', when='+conduit')
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depends_on('conduit+mpi', when='+conduit+mpi')
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patch('mfem_ppc_build.patch', when='@3.2:3.3 arch=ppc64le')
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patch('mfem_ppc_build.patch', when='@3.2:3.3.0 arch=ppc64le')
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phases = ['configure', 'build', 'install']
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def setup_environment(self, spack_env, run_env):
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spack_env.unset('MFEM_DIR')
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spack_env.unset('MFEM_BUILD_DIR')
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#
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# Note: Although MFEM does support CMake configuration, MFEM
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@@ -142,30 +204,42 @@ class Mfem(Package):
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# likely to be up to date in supporting *all* of MFEM's
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# configuration options. So, don't use CMake
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#
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def install(self, spec, prefix):
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def configure(self, spec, prefix):
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def yes_no(varstr):
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return 'YES' if varstr in self.spec else 'NO'
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metis5_str = 'NO'
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if '+superlu-dist' in spec or \
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spec.satisfies('+suite-sparse ^suite-sparse@4.5:') or \
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spec['metis'].satisfies('@5:'):
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metis5_str = 'YES'
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# We need to add rpaths explicitly to allow proper export of link flags
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# from within MFEM.
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threadsafe_str = 'NO'
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if '+openmp' in spec or '+threadsafe' in spec:
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threadsafe_str = 'YES'
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# Similar to spec[pkg].libs.ld_flags but prepends rpath flags too.
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def ld_flags_from_LibraryList(libs_list):
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flags = ['-Wl,-rpath,%s' % dir for dir in libs_list.directories]
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flags += [libs_list.ld_flags]
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return ' '.join(flags)
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def ld_flags_from_dirs(pkg_dirs_list, pkg_libs_list):
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flags = ['-Wl,-rpath,%s' % dir for dir in pkg_dirs_list]
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flags += ['-L%s' % dir for dir in pkg_dirs_list]
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flags += ['-l%s' % lib for lib in pkg_libs_list]
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return ' '.join(flags)
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metis5_str = 'NO'
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if ('+metis' in spec) and spec['metis'].satisfies('@5:'):
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metis5_str = 'YES'
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options = [
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'PREFIX=%s' % prefix,
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'MFEM_USE_MEMALLOC=YES',
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'MFEM_DEBUG=%s' % yes_no('+debug'),
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# NOTE: env['CXX'] is the spack c++ compiler wrapper. The real
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# compiler is defined by env['SPACK_CXX'].
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'CXX=%s' % env['CXX'],
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'MFEM_USE_LIBUNWIND=%s' % yes_no('+debug'),
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'MFEM_USE_LIBUNWIND=%s' % yes_no('+libunwind'),
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'MFEM_USE_GZSTREAM=%s' % yes_no('+gzstream'),
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'MFEM_USE_METIS=%s' % yes_no('+metis'),
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'MFEM_USE_METIS_5=%s' % metis5_str,
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'MFEM_THREAD_SAFE=%s' % threadsafe_str,
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'MFEM_THREAD_SAFE=%s' % yes_no('+threadsafe'),
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'MFEM_USE_MPI=%s' % yes_no('+mpi'),
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'MFEM_USE_LAPACK=%s' % yes_no('+lapack'),
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'MFEM_USE_SUPERLU=%s' % yes_no('+superlu-dist'),
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@@ -174,115 +248,175 @@ def yes_no(varstr):
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'MFEM_USE_PETSC=%s' % yes_no('+petsc'),
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'MFEM_USE_NETCDF=%s' % yes_no('+netcdf'),
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'MFEM_USE_MPFR=%s' % yes_no('+mpfr'),
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'MFEM_USE_OPENMP=%s' % yes_no('+openmp')]
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'MFEM_USE_GNUTLS=%s' % yes_no('+gnutls'),
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'MFEM_USE_OPENMP=%s' % yes_no('+openmp'),
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'MFEM_USE_CONDUIT=%s' % yes_no('+conduit')]
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cxxflags = spec.compiler_flags['cxxflags']
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if cxxflags:
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# The cxxflags are set by the spack c++ compiler wrapper. We also
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# set CXXFLAGS explicitly, for clarity, and to properly export the
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# cxxflags in the variable MFEM_CXXFLAGS in config.mk.
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options += ['CXXFLAGS=%s' % ' '.join(cxxflags)]
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if '~static' in spec:
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options += ['STATIC=NO']
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if '+shared' in spec:
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options += ['SHARED=YES', 'PICFLAG=%s' % self.compiler.pic_flag]
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if '+mpi' in spec:
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options += ['MPICXX=%s' % spec['mpi'].mpicxx]
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if '+hypre' in spec:
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hypre = spec['hypre']
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hypre_flag_list = (hypre.libs +
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hypre['lapack'].libs +
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hypre['blas'].libs)
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options += ['HYPRE_DIR=%s' % hypre.prefix,
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'HYPRE_OPT=-I%s' % hypre.prefix.include,
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'HYPRE_LIB=%s' % hypre_flag_list.ld_flags]
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# The hypre package always links with 'blas' and 'lapack'.
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all_hypre_libs = hypre.libs + hypre['lapack'].libs + \
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hypre['blas'].libs
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options += [
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'HYPRE_OPT=-I%s' % hypre.prefix.include,
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'HYPRE_LIB=%s' % ld_flags_from_LibraryList(all_hypre_libs)]
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if '+metis' in spec:
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options += [
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'METIS_OPT=-I%s' % spec['metis'].prefix.include,
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'METIS_LIB=%s' %
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ld_flags_from_dirs([spec['metis'].prefix.lib], ['metis'])]
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|
||||
if '+lapack' in spec:
|
||||
lapack_lib = (spec['lapack'].libs + spec['blas'].libs).ld_flags # NOQA: ignore=E501
|
||||
lapack_blas = spec['lapack'].libs + spec['blas'].libs
|
||||
options += [
|
||||
'LAPACK_OPT=-I%s' % spec['lapack'].prefix.include,
|
||||
'LAPACK_LIB=%s' % lapack_lib]
|
||||
# LAPACK_OPT is not used
|
||||
'LAPACK_LIB=%s' % ld_flags_from_LibraryList(lapack_blas)]
|
||||
|
||||
if '+superlu-dist' in spec:
|
||||
metis_lib = '-L%s -lparmetis -lmetis' % spec['parmetis'].prefix.lib
|
||||
options += [
|
||||
'METIS_DIR=%s' % spec['parmetis'].prefix,
|
||||
'METIS_OPT=-I%s' % spec['parmetis'].prefix.include,
|
||||
'METIS_LIB=%s' % metis_lib]
|
||||
superlu_lib = '-L%s' % spec['superlu-dist'].prefix.lib
|
||||
superlu_lib += ' -lsuperlu_dist'
|
||||
options += [
|
||||
'SUPERLU_DIR=%s' % spec['superlu-dist'].prefix,
|
||||
'SUPERLU_OPT=-I%s' % spec['superlu-dist'].prefix.include,
|
||||
'SUPERLU_LIB=%s' % superlu_lib]
|
||||
else:
|
||||
metis_lib = '-L%s -lmetis' % spec['metis'].prefix.lib
|
||||
options += [
|
||||
'METIS_DIR=%s' % spec['metis'].prefix,
|
||||
'METIS_OPT=-I%s' % spec['metis'].prefix.include,
|
||||
'METIS_LIB=%s' % metis_lib]
|
||||
'SUPERLU_OPT=-I%s -I%s' %
|
||||
(spec['superlu-dist'].prefix.include,
|
||||
spec['parmetis'].prefix.include),
|
||||
'SUPERLU_LIB=-L%s -L%s -lsuperlu_dist -lparmetis' %
|
||||
(spec['superlu-dist'].prefix.lib,
|
||||
spec['parmetis'].prefix.lib)]
|
||||
|
||||
if '+suite-sparse' in spec:
|
||||
ssp = spec['suite-sparse'].prefix
|
||||
ss_lib = '-L%s' % ssp.lib
|
||||
if '@3.2:' in spec:
|
||||
ss_lib += ' -lklu -lbtf'
|
||||
ss_lib += (' -lumfpack -lcholmod -lcolamd' +
|
||||
' -lamd -lcamd -lccolamd -lsuitesparseconfig')
|
||||
no_rt = spec.satisfies('platform=darwin')
|
||||
if not no_rt:
|
||||
ss_lib += ' -lrt'
|
||||
ss_lib += (' ' + metis_lib + ' ' + lapack_lib)
|
||||
ss_spec = 'suite-sparse:' + self.suitesparse_components
|
||||
options += [
|
||||
'SUITESPARSE_DIR=%s' % ssp,
|
||||
'SUITESPARSE_OPT=-I%s' % ssp.include,
|
||||
'SUITESPARSE_LIB=%s' % ss_lib]
|
||||
'SUITESPARSE_OPT=-I%s' % spec[ss_spec].prefix.include,
|
||||
'SUITESPARSE_LIB=%s' %
|
||||
ld_flags_from_LibraryList(spec[ss_spec].libs)]
|
||||
|
||||
if '+sundials' in spec:
|
||||
sundials_libs = (
|
||||
'-lsundials_arkode -lsundials_cvode'
|
||||
' -lsundials_nvecserial -lsundials_kinsol')
|
||||
if '+mpi' in spec:
|
||||
sundials_libs += (
|
||||
' -lsundials_nvecparhyp -lsundials_nvecparallel')
|
||||
sun_spec = 'sundials:' + self.sundials_components
|
||||
options += [
|
||||
'SUNDIALS_DIR=%s' % spec['sundials'].prefix,
|
||||
'SUNDIALS_OPT=-I%s' % spec['sundials'].prefix.include,
|
||||
'SUNDIALS_LIB=-L%s %s' % (spec['sundials'].prefix.lib,
|
||||
sundials_libs)]
|
||||
'SUNDIALS_OPT=%s' % spec[sun_spec].headers.cpp_flags,
|
||||
'SUNDIALS_LIB=%s' %
|
||||
ld_flags_from_LibraryList(spec[sun_spec].libs)]
|
||||
|
||||
if '+petsc' in spec:
|
||||
f = open('%s/lib/pkgconfig/PETSc.pc' % spec['petsc'].prefix, 'r')
|
||||
for line in f:
|
||||
if re.search('^\s*Cflags: ', line):
|
||||
petsc_opts = re.sub('^\s*Cflags: (.*)', '\\1', line)
|
||||
elif re.search('^\s*Libs.*: ', line):
|
||||
petsc_libs = re.sub('^\s*Libs.*: (.*)', '\\1', line)
|
||||
f.close()
|
||||
# options += ['PETSC_DIR=%s' % spec['petsc'].prefix]
|
||||
options += [
|
||||
'PETSC_DIR=%s' % spec['petsc'].prefix,
|
||||
'PETSC_OPT=%s' % petsc_opts,
|
||||
'PETSC_LIB=-L%s -lpetsc %s' %
|
||||
(spec['petsc'].prefix.lib, petsc_libs)]
|
||||
'PETSC_OPT=%s' % spec['petsc'].headers.cpp_flags,
|
||||
'PETSC_LIB=%s' %
|
||||
ld_flags_from_LibraryList(spec['petsc'].libs)]
|
||||
|
||||
if '+netcdf' in spec:
|
||||
np = spec['netcdf'].prefix
|
||||
zp = spec['zlib'].prefix
|
||||
h5p = spec['hdf5'].prefix
|
||||
nlib = '-L%s -lnetcdf ' % np.lib
|
||||
nlib += '-L%s -lhdf5_hl -lhdf5 ' % h5p.lib
|
||||
nlib += '-L%s -lz' % zp.lib
|
||||
options += [
|
||||
'NETCDF_DIR=%s' % np,
|
||||
'HDF5_DIR=%s' % h5p,
|
||||
'ZLIB_DIR=%s' % zp,
|
||||
'NETCDF_OPT=-I%s' % np.include,
|
||||
'NETCDF_LIB=%s' % nlib]
|
||||
'NETCDF_OPT=-I%s' % spec['netcdf'].prefix.include,
|
||||
'NETCDF_LIB=%s' %
|
||||
ld_flags_from_dirs([spec['netcdf'].prefix.lib], ['netcdf'])]
|
||||
|
||||
if '+gzstream' in spec:
|
||||
if "@:3.3.2" in spec:
|
||||
options += ['ZLIB_DIR=%s' % spec['zlib'].prefix]
|
||||
else:
|
||||
options += [
|
||||
'ZLIB_OPT=-I%s' % spec['zlib'].prefix.include,
|
||||
'ZLIB_LIB=%s' %
|
||||
ld_flags_from_LibraryList(spec['zlib'].libs)]
|
||||
|
||||
if '+mpfr' in spec:
|
||||
options += ['MPFR_LIB=-L%s -lmpfr' % spec['mpfr'].prefix.lib]
|
||||
options += [
|
||||
'MPFR_OPT=-I%s' % spec['mpfr'].prefix.include,
|
||||
'MPFR_LIB=%s' %
|
||||
ld_flags_from_dirs([spec['mpfr'].prefix.lib], ['mpfr'])]
|
||||
|
||||
if '+gnutls' in spec:
|
||||
options += [
|
||||
'GNUTLS_OPT=-I%s' % spec['gnutls'].prefix.include,
|
||||
'GNUTLS_LIB=%s' %
|
||||
ld_flags_from_dirs([spec['gnutls'].prefix.lib], ['gnutls'])]
|
||||
|
||||
if '+libunwind' in spec:
|
||||
libunwind = spec['libunwind']
|
||||
headers = find_headers('libunwind', libunwind.prefix.include)
|
||||
headers.add_macro('-g')
|
||||
libs = find_libraries('libunwind', libunwind.prefix.lib,
|
||||
shared=True, recursive=True)
|
||||
if not libs:
|
||||
libs = find_libraries('libunwind', libunwind.prefix.lib,
|
||||
shared=False, recursive=True)
|
||||
# When mfem uses libunwind, it also needs 'libdl'.
|
||||
libs += LibraryList(find_system_libraries('libdl'))
|
||||
options += [
|
||||
'LIBUNWIND_OPT=%s' % headers.cpp_flags,
|
||||
'LIBUNWIND_LIB=%s' % ld_flags_from_LibraryList(libs)]
|
||||
|
||||
if '+openmp' in spec:
|
||||
options += ['OPENMP_OPT = %s' % self.compiler.openmp_flag]
|
||||
options += ['OPENMP_OPT=%s' % self.compiler.openmp_flag]
|
||||
|
||||
make('config', *options)
|
||||
timer_ids = {'std': '0', 'posix': '2', 'mac': '4', 'mpi': '6'}
|
||||
timer = spec.variants['timer'].value
|
||||
if timer != 'auto':
|
||||
options += ['MFEM_TIMER_TYPE=%s' % timer_ids[timer]]
|
||||
|
||||
if '+conduit' in spec:
|
||||
conduit = spec['conduit']
|
||||
headers = HeaderList(find(conduit.prefix.include, 'conduit.hpp',
|
||||
recursive=True))
|
||||
conduit_libs = ['libconduit', 'libconduit_relay',
|
||||
'libconduit_blueprint']
|
||||
libs = find_libraries(conduit_libs, conduit.prefix.lib,
|
||||
shared=('+shared' in conduit))
|
||||
libs += LibraryList(find_system_libraries('libdl'))
|
||||
if '+hdf5' in conduit:
|
||||
hdf5 = conduit['hdf5']
|
||||
headers += find_headers('hdf5', hdf5.prefix.include)
|
||||
libs += hdf5.libs
|
||||
options += [
|
||||
'CONDUIT_OPT=%s' % headers.cpp_flags,
|
||||
'CONDUIT_LIB=%s' % ld_flags_from_LibraryList(libs)]
|
||||
|
||||
make('config', *options, parallel=False)
|
||||
make('info', parallel=False)
|
||||
|
||||
def build(self, spec, prefix):
|
||||
make('lib')
|
||||
|
||||
if self.run_tests:
|
||||
make('check')
|
||||
@run_after('build')
|
||||
def check_or_test(self):
|
||||
# Running 'make check' or 'make test' may fail if MFEM_MPIEXEC or
|
||||
# MFEM_MPIEXEC_NP are not set appropriately.
|
||||
if not self.run_tests:
|
||||
# check we can build ex1 (~mpi) or ex1p (+mpi).
|
||||
make('-C', 'examples', 'ex1p' if ('+mpi' in self.spec) else 'ex1',
|
||||
parallel=False)
|
||||
# make('check', parallel=False)
|
||||
else:
|
||||
make('all')
|
||||
make('test', parallel=False)
|
||||
|
||||
make('install')
|
||||
def install(self, spec, prefix):
|
||||
make('install', parallel=False)
|
||||
|
||||
# TODO: The way the examples and miniapps are being installed is not
|
||||
# perfect. For example, the makefiles do not work.
|
||||
|
||||
install_em = ('+examples' in spec) or ('+miniapps' in spec)
|
||||
if install_em and ('+shared' in spec):
|
||||
make('examples/clean', 'miniapps/clean')
|
||||
# This is a hack to get the examples and miniapps to link with the
|
||||
# installed shared mfem library:
|
||||
with working_dir('config'):
|
||||
os.rename('config.mk', 'config.mk.orig')
|
||||
shutil.copyfile(str(self.config_mk), 'config.mk')
|
||||
shutil.copystat('config.mk.orig', 'config.mk')
|
||||
|
||||
if '+examples' in spec:
|
||||
make('examples')
|
||||
@@ -291,3 +425,64 @@ def yes_no(varstr):
|
||||
if '+miniapps' in spec:
|
||||
make('miniapps')
|
||||
install_tree('miniapps', join_path(prefix, 'miniapps'))
|
||||
|
||||
if install_em:
|
||||
install_tree('data', join_path(prefix, 'data'))
|
||||
|
||||
@property
|
||||
def suitesparse_components(self):
|
||||
"""Return the SuiteSparse components needed by MFEM."""
|
||||
ss_comps = 'umfpack,cholmod,colamd,amd,camd,ccolamd,suitesparseconfig'
|
||||
if self.spec.satisfies('@3.2:'):
|
||||
ss_comps = 'klu,btf,' + ss_comps
|
||||
return ss_comps
|
||||
|
||||
@property
|
||||
def sundials_components(self):
|
||||
"""Return the SUNDIALS components needed by MFEM."""
|
||||
sun_comps = 'arkode,cvode,nvecserial,kinsol'
|
||||
if '+mpi' in self.spec:
|
||||
sun_comps += ',nvecparhyp,nvecparallel'
|
||||
return sun_comps
|
||||
|
||||
@property
|
||||
def headers(self):
|
||||
"""Export the main mfem header, mfem.hpp.
|
||||
"""
|
||||
hdrs = HeaderList(find(self.prefix.include, 'mfem.hpp',
|
||||
recursive=False))
|
||||
return hdrs or None
|
||||
|
||||
@property
|
||||
def libs(self):
|
||||
"""Export the mfem library file.
|
||||
"""
|
||||
libs = find_libraries('libmfem', root=self.prefix.lib,
|
||||
shared=('+shared' in self.spec), recursive=False)
|
||||
return libs or None
|
||||
|
||||
@property
|
||||
def config_mk(self):
|
||||
"""Export the location of the config.mk file.
|
||||
This property can be accessed using spec['mfem'].package.config_mk
|
||||
"""
|
||||
dirs = [self.prefix, self.prefix.share.mfem]
|
||||
for d in dirs:
|
||||
f = join_path(d, 'config.mk')
|
||||
if os.access(f, os.R_OK):
|
||||
return FileList(f)
|
||||
return FileList(find(self.prefix, 'config.mk', recursive=True))
|
||||
|
||||
@property
|
||||
def test_mk(self):
|
||||
"""Export the location of the test.mk file.
|
||||
This property can be accessed using spec['mfem'].package.test_mk.
|
||||
In version 3.3.2 and newer, the location of test.mk is also defined
|
||||
inside config.mk, variable MFEM_TEST_MK.
|
||||
"""
|
||||
dirs = [self.prefix, self.prefix.share.mfem]
|
||||
for d in dirs:
|
||||
f = join_path(d, 'test.mk')
|
||||
if os.access(f, os.R_OK):
|
||||
return FileList(f)
|
||||
return FileList(find(self.prefix, 'test.mk', recursive=True))
|
||||
|
||||
72
var/spack/repos/builtin/packages/mfem/test_builds.sh
Executable file
72
var/spack/repos/builtin/packages/mfem/test_builds.sh
Executable file
@@ -0,0 +1,72 @@
|
||||
#!/bin/bash
|
||||
|
||||
builds=(
|
||||
# preferred version:
|
||||
'mfem'
|
||||
'mfem~mpi~metis~gzstream'
|
||||
'mfem+mpi+superlu-dist+suite-sparse+petsc \
|
||||
+sundials+mpfr+netcdf+gzstream+gnutls+libunwind \
|
||||
^hypre~internal-superlu ^petsc~boost+suite-sparse+mumps'
|
||||
'mfem~mpi+suite-sparse+sundials+mpfr+netcdf \
|
||||
+gzstream+gnutls+libunwind'
|
||||
# develop version:
|
||||
'mfem@develop+shared~static'
|
||||
'mfem@develop+shared~static~mpi~metis~gzstream'
|
||||
# TODO: Replace '^conduit~python~hdf5' with '^conduit~python' when conduit
|
||||
# is fixed to accept '^hdf5+mpi'.
|
||||
'mfem@develop+shared~static+mpi \
|
||||
+superlu-dist+suite-sparse+petsc+sundials+mpfr+netcdf+gzstream \
|
||||
+gnutls+libunwind+conduit ^hypre~internal-superlu \
|
||||
^petsc~boost+suite-sparse+mumps ^conduit~python~hdf5'
|
||||
# TODO: The options '^netcdf~mpi ^hdf5@1.8.19~mpi' are added just to make
|
||||
# conduit happy.
|
||||
'mfem@develop+shared~static~mpi \
|
||||
+suite-sparse+sundials+mpfr+netcdf+gzstream+gnutls+libunwind \
|
||||
+conduit ^conduit~python ^netcdf~mpi ^hdf5@1.8.19~mpi'
|
||||
)
|
||||
|
||||
builds2=(
|
||||
# preferred version
|
||||
'mfem+superlu-dist'
|
||||
'mfem+suite-sparse~mpi'
|
||||
'mfem+suite-sparse'
|
||||
'mfem+sundials~mpi'
|
||||
'mfem+sundials'
|
||||
'mfem+netcdf~mpi'
|
||||
'mfem+netcdf'
|
||||
'mfem+mpfr'
|
||||
'mfem+gnutls'
|
||||
'mfem+petsc+mpi ^hypre~internal-superlu ^petsc~boost+suite-sparse+mumps'
|
||||
# develop version
|
||||
'mfem@develop+superlu-dist'
|
||||
'mfem@develop+suite-sparse~mpi'
|
||||
'mfem@develop+suite-sparse'
|
||||
'mfem@develop+sundials~mpi'
|
||||
'mfem@develop+sundials'
|
||||
'mfem@develop+netcdf~mpi'
|
||||
'mfem@develop+netcdf'
|
||||
'mfem@develop+mpfr'
|
||||
'mfem@develop+gnutls'
|
||||
'mfem@develop+conduit~mpi ^conduit~python'
|
||||
'mfem@develop+conduit ^conduit~python'
|
||||
'mfem@develop+petsc+mpi ^hypre~internal-superlu \
|
||||
^petsc~boost+suite-sparse+mumps'
|
||||
)
|
||||
|
||||
trap 'printf "\nScript interrupted.\n"; exit 33' INT
|
||||
|
||||
SEP='=========================================================================='
|
||||
sep='--------------------------------------------------------------------------'
|
||||
|
||||
for bld in "${builds[@]}" "${builds2[@]}"; do
|
||||
printf "\n%s\n" "${SEP}"
|
||||
printf " %s\n" "${bld}"
|
||||
printf "%s\n" "${SEP}"
|
||||
eval bbb="\"${bld}\""
|
||||
spack spec -I $bbb || exit 1
|
||||
printf "%s\n" "${sep}"
|
||||
spack install --test=root $bbb || exit 2
|
||||
done
|
||||
|
||||
# Uninstall all mfem builds:
|
||||
# spack uninstall --all mfem
|
||||
Reference in New Issue
Block a user