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500 changed files with 15274 additions and 64035 deletions
+14 -43
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@@ -19,15 +19,9 @@ CMakeFiles/
# Clangd server cache
*.cache*
#vscode settings
/.vscode/
# Backup files
*~
# clangd index
/.cache/
# Default install location
/mfem/
@@ -85,17 +79,12 @@ examples/sol_u.*
examples/sol_p.*
examples/sol_r.*
examples/sol_i.*
examples/sol_z.*
examples/ex6p-checkpoint.*
examples/order.*
examples/ex9.mesh
examples/ex9-mesh.*
examples/ex9-init.*
examples/ex9-final.*
examples/ex41.mesh
examples/ex41-mesh.*
examples/ex41-init.*
examples/ex41-final.*
examples/deformed.*
examples/velocity.*
examples/elastic_energy.*
@@ -227,9 +216,6 @@ miniapps/electromagnetics/Joule_[0-9]*
miniapps/electromagnetics/Lorentz_[0-9]*
miniapps/electromagnetics/Lorentz.dat
miniapps/fluids/schrodinger-flow/schrodinger_flow
miniapps/fluids/schrodinger-flow/pschrodinger_flow
miniapps/gslib/field-diff
miniapps/gslib/field-interp
miniapps/gslib/findpts
@@ -237,7 +223,6 @@ miniapps/gslib/pfindpts
miniapps/gslib/schwarz_ex1
miniapps/gslib/schwarz_ex1p
miniapps/gslib/interpolated.gf
miniapps/gslib/particles_redist
miniapps/meshing/mobius-strip
miniapps/meshing/klein-bottle
@@ -284,8 +269,10 @@ miniapps/meshing/refined.mesh
miniapps/meshing/bounding-box*
miniapps/meshing/jacobian-determinant*
miniapps/mtop/ParaView/
miniapps/mtop/mtop_test_iso_elasticity
miniapps/mtop/parheat
miniapps/mtop/ParHeat/*
miniapps/mtop/seqheat
miniapps/mtop/SeqHeat/*
miniapps/autodiff/paradiff
miniapps/autodiff/seqadiff
@@ -295,26 +282,21 @@ miniapps/autodiff/seq_example
miniapps/autodiff/seq_test
miniapps/autodiff/Example/*
miniapps/fluids/navier/navier_mms
miniapps/fluids/navier/navier_kovasznay
miniapps/fluids/navier/navier_kovasznay_vs
miniapps/fluids/navier/navier_tgv
miniapps/fluids/navier/navier_shear
miniapps/fluids/navier/navier_3dfoc
miniapps/fluids/navier/navier_turbchan
miniapps/fluids/navier/navier_cht
miniapps/fluids/navier/navier_bifurcation
miniapps/fluids/navier/Navier_Bifurcation_[0-9]*
miniapps/fluids/navier/ParaView
miniapps/fluids/navier/tgv_out*.txt
miniapps/fluids/navier/*_output
miniapps/navier/navier_mms
miniapps/navier/navier_kovasznay
miniapps/navier/navier_kovasznay_vs
miniapps/navier/navier_tgv
miniapps/navier/navier_shear
miniapps/navier/navier_3dfoc
miniapps/navier/navier_turbchan
miniapps/navier/navier_cht
miniapps/navier/tgv_out*.txt
miniapps/navier/*_output
miniapps/nurbs/nurbs_ex1
miniapps/nurbs/nurbs_ex1p
miniapps/nurbs/nurbs_ex3
miniapps/nurbs/nurbs_ex5
miniapps/nurbs/nurbs_ex10
miniapps/nurbs/nurbs_ex10p
miniapps/nurbs/nurbs_ex11p
miniapps/nurbs/nurbs_ex24
miniapps/nurbs/nurbs_solenoidal
@@ -340,14 +322,7 @@ miniapps/nurbs/nurbs_naca_cmesh
miniapps/nurbs/naca-cmesh.mesh
miniapps/nurbs/glvis_naca-cmesh.mesh
miniapps/nurbs/Naca_cmesh
miniapps/nurbs/nurbs_mesh_info
miniapps/nurbs/k*_*.dat
miniapps/nurbs/*-Surface.mesh
miniapps/nurbs/*.mesh
miniapps/nurbs/*.sol
miniapps/nurbs/deformed.*
miniapps/nurbs/elastic_energy.*
miniapps/nurbs/velocity.*
miniapps/performance/ex1
miniapps/performance/ex1p
@@ -369,7 +344,6 @@ miniapps/shifted/lsf_integral
miniapps/tools/display-basis
miniapps/tools/load-dc
miniapps/tools/convert-dc
miniapps/tools/compare-dc
miniapps/tools/gridfunction-bounds
miniapps/tools/lor-transfer
miniapps/tools/plor-transfer
@@ -440,9 +414,6 @@ miniapps/tribol/contact-patch-test
miniapps/diag-smoothers/abs-l1-jacobi
miniapps/diag-smoothers/mg-abs-l1-jacobi
miniapps/contact/contact
miniapps/contact/ParaView
# Unit test binary and outputs
tests/unit/output_meshes
tests/unit/unit_tests
+70 -529
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@@ -9,550 +9,91 @@
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# DESCRIPTION:
###############################################################################
# General GitLab pipelines configurations for supercomputers and Linux clusters
# at Lawrence Livermore National Laboratory (LLNL).
# This entire pipeline is LLNL-specific
#
# Important note: This file is a template provided by llnl/radiuss-shared-ci.
# Remains to set variable values, change the reference to the radiuss-shared-ci
# repo, opt-in and out optional features. The project can then extend it with
# additional stages.
#
# In addition, each project should copy over and complete:
# - .gitlab/custom-jobs-and-variables.yml
# - .gitlab/subscribed-pipelines.yml
#
# The jobs should be specified in a file local to the project,
# - .gitlab/jobs/${CI_MACHINE}.yml
# or generated (see LLNL/Umpire for an example).
###############################################################################
# MAP OF GITLAB CI
#######################
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
# File dependencies: direct, through jobs, through variables
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
# .gitlab-ci.yml
# ├── .build-and-test [job]
# │ ├── .gitlab/custom-jobs-and-variables.yml
# │ │ ├── .custom_job [job]
# │ │ ├── .reproducer_vars [job]
# │ │ ├── .report_job_success [job]
# │ │ │ └── .gitlab/scripts/report_build_and_test [script]
# │ │ │ ├── .gitlab/scripts/safe_create_rundir [script]
# │ │ │ └── .gitlab/scripts/git_try_to_push [script]
# │ │ ├── .report_job_failure [job]
# │ │ │ └── .gitlab/scripts/report_build_and_test [script]
# │ │ │ ├── .gitlab/scripts/safe_create_rundir [script]
# │ │ │ └── .gitlab/scripts/git_try_to_push [script]
# │ │ └── JOB_CMD [var]
# │ │ └── tests/gitlab/build_and_test [script]
# │ │ └── tests/gitlab/get_mfem_uberenv [script]
# │ ├── <radiuss-shared-ci>/pipelines/matrix.yml [conditional]
# │ │ ├── .on_matrix [job]
# │ │ ├── .matrix_reproducer_init [job]
# │ │ ├── .matrix_reproducer_vars [job]
# │ │ ├── .matrix_reproducer_job [job]
# │ │ ├── .matrix_job_command [job]
# │ │ └── .job_on_matrix [job]
# │ ├── <radiuss-shared-ci>/pipelines/dane.yml [conditional]
# │ │ ├── .on_dane [job]
# │ │ ├── .dane_reproducer_init [job]
# │ │ ├── .dane_reproducer_vars [job]
# │ │ ├── .dane_reproducer_job [job]
# │ │ ├── .dane_job_command [job]
# │ │ ├── .job_on_dane [job]
# │ │ ├── allocate_resources [job]
# │ │ └── release_resources [job]
# │ ├── <radiuss-shared-ci>/pipelines/tioga.yml [conditional]
# │ │ ├── .on_tioga [job]
# │ │ ├── .tioga_reproducer_init [job]
# │ │ ├── .tioga_reproducer_vars [job]
# │ │ ├── .tioga_reproducer_job [job]
# │ │ ├── .tioga_job_command [job]
# │ │ ├── .job_on_tioga [job]
# │ │ ├── allocate_resources [job]
# │ │ └── release_resources [job]
# │ ├── <artifact>/matrix-jobs.yml [conditional, from 'generate-job-lists']
# │ │ ├── .gitlab/jobs/matrix.yml
# │ │ │ ├── .matrix_reproducer_vars [job]
# │ │ │ ├── setup [job]
# │ │ │ │ └── ./tests/gitlab/build_and_test_setup [script]
# │ │ │ ├── opt_mpi_cuda_gcc [job]
# │ │ │ └── opt_mpi_cuda_hypre_cuda_gcc [job]
# │ │ └── .gitlab/jobs/matrix-reports.yml [used conditionally]
# │ │ ├── report_job_success
# │ │ └── report_job_failure
# │ ├── <artifact>/dane-jobs.yml [conditional, from 'generate-job-lists']
# │ │ ├── .gitlab/jobs/dane.yml
# │ │ │ ├── .dane_reproducer_vars [job]
# │ │ │ ├── setup [job]
# │ │ │ │ └── ./tests/gitlab/build_and_test_setup [script]
# │ │ │ ├── debug_ser_gcc_10 [job]
# │ │ │ ├── debug_par_gcc_10 [job]
# │ │ │ ├── opt_ser_gcc_10 [job]
# │ │ │ ├── opt_par_gcc_10 [job]
# │ │ │ ├── opt_par_gcc_10_sundials [job]
# │ │ │ ├── opt_par_gcc_10_petsc [job]
# │ │ │ └── opt_par_gcc_10_pumi [job]
# │ │ └── .gitlab/jobs/dane-reports.yml [used conditionally]
# │ │ ├── report_job_success
# │ │ └── report_job_failure
# │ └── <artifact>/tioga-jobs.yml [conditional, from 'generate-job-lists']
# │ ├── .gitlab/jobs/tioga.yml
# │ │ ├── .tioga_reproducer_vars [job]
# │ │ ├── setup [job]
# │ │ │ └── ./tests/gitlab/build_and_test_setup [script]
# │ │ └── cce_16_0_1 [job]
# │ └── .gitlab/jobs/tioga-reports.yml [used conditionally]
# │ ├── report_job_success
# │ └── report_job_failure
# └── .gitlab/subscribed-pipelines.yml
# ├── .machine-check [job]
# ├── generate-job-lists [job]
# ├── dane-up-check [job]
# ├── dane-build-and-test [job]
# ├── dane-baseline [job]
# │ └── .gitlab/dane-baseline.yml
# │ ├── .on_dane [job]
# │ ├── baselinecheck_mfem_intel_dane [job]
# │ │ └── .gitlab/scripts/baseline [script]
# │ ├── cleanup [job]
# │ ├── report_baseline [job]
# │ │ ├── .gitlab/scripts/safe_create_rundir [script]
# │ │ └── .gitlab/scripts/git_try_to_push [script]
# │ ├── baselinepublish_mfem_dane [job]
# │ │ └── .gitlab/scripts/rebaseline [script]
# │ ├── .gitlab/custom-jobs-and-variables.yml
# │ │ └── <same as above: see .gitlab-ci.yml/.build-and-test>
# │ └── .gitlab/configs/setup-baseline.yml
# │ └── setup_baseline [job]
# ├── tioga-up-check [job]
# ├── tioga-build-and-test [job]
# ├── matrix-up-check [job]
# └── matrix-build-and-test [job]
#
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
# File tree hierarchy with file contents highlights
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
# In addition to the files in the MFEM repo, the Gitlab CI uses files from the
# radiuss/radiuss-shared-ci project, see below, after the <mfem-root> tree.
#
# <mfem root>
# ├── .gitlab-ci.yml [this file]
# │ ├── <jobs>
# │ │ └── .build-and-test
# │ ├── <included files>
# │ │ ├── .gitlab/subscribed-pipelines.yml
# │ │ ├── .gitlab/custom-jobs-and-variables.yml [by ".build-and-test"]
# │ │ ├── <artifact> [by ".build-and-test"]
# │ │ │ ├── artifact: '${CI_MACHINE}-jobs.yml'
# │ │ │ └── job: 'generate-job-lists'
# │ │ └── <external> [by ".build-and-test"]
# │ │ ├── project: 'radiuss/radiuss-shared-ci'
# │ │ ├── ref: 'v2025.09.1'
# │ │ └── file: 'pipelines/${CI_MACHINE}.yml'
# │ └── <defined variables>
# │ ├── CUSTOM_CI_BUILDS_DIR
# │ ├── USER_CI_TOP_DIR
# │ ├── SHARED_REPOS_DIR
# │ ├── AUTOTEST_ROOT
# │ ├── MFEM_DATA_DIR
# │ ├── AUTOTEST
# │ ├── AUTOTEST_COMMIT
# │ ├── REBASELINE
# │ ├── GITHUB_PROJECT_NAME
# │ └── GITHUB_PROJECT_ORG
# ├── .gitlab
# │ ├── configs
# │ │ └── setup-baseline.yml
# │ │ ├── <jobs>
# │ │ │ └── setup_baseline
# │ │ └── <used variables>
# │ │ ├── MACHINE_NAME
# │ │ ├── REBASELINE
# │ │ ├── AUTOTEST
# │ │ ├── AUTOTEST_COMMIT
# │ │ ├── BUILD_ROOT
# │ │ ├── TPLS_REPO
# │ │ ├── TESTS_REPO
# │ │ ├── AUTOTEST_ROOT
# │ │ └── AUTOTEST_REPO
# │ ├── jobs
# │ │ ├── matrix-reports.yml
# │ │ │ ├── <jobs>
# │ │ │ │ ├── report_job_success
# │ │ │ │ └── report_job_failure
# │ │ │ └── <used jobs>
# │ │ │ ├── .on_matrix
# │ │ │ ├── .report_job_success
# │ │ │ └── .report_job_failure
# │ │ ├── matrix.yml
# │ │ │ ├── <jobs>
# │ │ │ │ ├── .matrix_reproducer_vars
# │ │ │ │ ├── setup
# │ │ │ │ ├── opt_mpi_cuda_gcc
# │ │ │ │ └── opt_mpi_cuda_hypre_cuda_gcc
# │ │ │ ├── <used jobs>
# │ │ │ │ ├── .reproducer_vars
# │ │ │ │ ├── .on_matrix
# │ │ │ │ └── .job_on_matrix
# │ │ │ ├── <included and used files>
# │ │ │ │ └── tests/gitlab/build_and_test_setup [by "setup"]
# │ │ │ └── <defined variables>
# │ │ │ └── SPEC
# │ │ ├── dane-reports.yml
# │ │ │ ├── <jobs>
# │ │ │ │ ├── report_job_success
# │ │ │ │ └── report_job_failure
# │ │ │ └── <used jobs>
# │ │ │ ├── .on_dane
# │ │ │ ├── .report_job_success
# │ │ │ └── .report_job_failure
# │ │ ├── dane.yml
# │ │ │ ├── <jobs>
# │ │ │ │ ├── .dane_reproducer_vars
# │ │ │ │ ├── setup
# │ │ │ │ ├── debug_ser_gcc_10
# │ │ │ │ ├── debug_par_gcc_10
# │ │ │ │ ├── opt_ser_gcc_10
# │ │ │ │ ├── opt_par_gcc_10
# │ │ │ │ ├── opt_par_gcc_10_sundials
# │ │ │ │ ├── opt_par_gcc_10_petsc
# │ │ │ │ └── opt_par_gcc_10_pumi
# │ │ │ ├── <used jobs>
# │ │ │ │ ├── .reproducer_vars
# │ │ │ │ ├── .on_dane
# │ │ │ │ └── .job_on_dane
# │ │ │ ├── <included and used files>
# │ │ │ │ └── tests/gitlab/build_and_test_setup [by "setup"]
# │ │ │ └── <defined variables>
# │ │ │ ├── SPEC
# │ │ │ └── THREADS
# │ │ ├── tioga-reports.yml
# │ │ │ ├── <jobs>
# │ │ │ │ ├── report_job_success
# │ │ │ │ └── report_job_failure
# │ │ │ └── <used jobs>
# │ │ │ ├── .on_tioga
# │ │ │ ├── .report_job_success
# │ │ │ └── .report_job_failure
# │ │ └── tioga.yml
# │ │ ├── <jobs>
# │ │ │ ├── .tioga_reproducer_vars
# │ │ │ ├── setup
# │ │ │ └── opt_mpi_rocm_hypre_rocm
# │ │ ├── <used jobs>
# │ │ │ ├── .reproducer_vars
# │ │ │ ├── .on_tioga
# │ │ │ └── .job_on_tioga
# │ │ ├── <included and used files>
# │ │ │ └── tests/gitlab/build_and_test_setup [by "setup"]
# │ │ └── <defined variables>
# │ │ ├── SPEC
# │ │ └── THREADS
# │ ├── scripts
# │ │ ├── baseline
# │ │ │ └── <used variables>
# │ │ │ ├── BASELINE_TEST
# │ │ │ ├── SYS_TYPE
# │ │ │ ├── MACHINE_NAME
# │ │ │ ├── CI_PROJECT_DIR
# │ │ │ ├── ARTIFACTS_DIR
# │ │ │ ├── BUILD_ROOT
# │ │ │ └── TPLS_DIR
# │ │ ├── git_try_to_push
# │ │ ├── rebaseline
# │ │ │ └── <used variables>
# │ │ │ ├── CI_PROJECT_DIR
# │ │ │ ├── ARTIFACTS_DIR
# │ │ │ ├── SYS_TYPE
# │ │ │ ├── BUILD_ROOT
# │ │ │ ├── MACHINE_NAME
# │ │ │ └── CI_PIPELINE_ID
# │ │ ├── report_build_and_test
# │ │ │ ├── <used files>
# │ │ │ │ ├── .gitlab/scripts/safe_create_rundir
# │ │ │ │ └── .gitlab/scripts/git_try_to_push
# │ │ │ └── <used variables>
# │ │ │ ├── AUTOTEST_ROOT
# │ │ │ ├── CI_COMMIT_REF_SLUG
# │ │ │ ├── CI_PROJECT_DIR
# │ │ │ ├── CI_PIPELINE_URL
# │ │ │ ├── AUTOTEST_COMMIT
# │ │ │ └── CI_MACHINE
# │ │ └── safe_create_rundir
# │ ├── custom-jobs-and-variables.yml
# │ │ ├── <jobs>
# │ │ │ ├── .custom_job
# │ │ │ ├── .reproducer_vars
# │ │ │ ├── .report_job_success
# │ │ │ └── .report_job_failure
# │ │ ├── <used files>
# │ │ │ ├── tests/gitlab/build_and_test [in JOB_CMD]
# │ │ │ └── .gitlab/scripts/report_build_and_test [by .report_job_*]
# │ │ ├── <defined variables>
# │ │ │ ├── JOB_CMD
# │ │ │ ├── BUILD_ROOT
# │ │ │ ├── ALLOC_NAME
# │ │ │ ├── TPLS_REPO
# │ │ │ ├── TESTS_REPO
# │ │ │ ├── AUTOTEST_REPO
# │ │ │ ├── MFEM_DATA_REPO
# │ │ │ ├── ARTIFACTS_DIR: artifacts
# │ │ │ ├── SLURM_OVERLAP: 1
# │ │ │ ├── DANE_SHARED_ALLOC
# │ │ │ ├── DANE_JOB_ALLOC
# │ │ │ ├── TIOGA_SHARED_ALLOC
# │ │ │ ├── TIOGA_JOB_ALLOC
# │ │ │ └── MATRIX_JOB_ALLOC
# │ │ └── <used variables>
# │ │ ├── SPEC
# │ │ ├── BUILD_ROOT
# │ │ └── ...
# │ ├── dane-baseline.yml
# │ │ ├── <jobs>
# │ │ │ ├── .on_dane
# │ │ │ ├── baselinecheck_mfem_intel_dane
# │ │ │ ├── cleanup
# │ │ │ ├── report_baseline
# │ │ │ └── baselinepublish_mfem_dane
# │ │ ├── <included and used files>
# │ │ │ ├── .gitlab/custom-jobs-and-variables.yml
# │ │ │ ├── .gitlab/configs/setup-baseline.yml
# │ │ │ ├── .gitlab/scripts/rebaseline
# │ │ │ ├── .gitlab/scripts/baseline
# │ │ │ └── .gitlab/scripts/git_try_to_push
# │ │ ├── <defined variables>
# │ │ │ ├── BASELINE_TEST: baseline
# │ │ │ ├── MACHINE_NAME: dane
# │ │ │ ├── TPLS_DIR
# │ │ │ └── export MFEM_TEST_NP
# │ │ └── <used variables>
# │ │ ├── ON_DANE
# │ │ ├── AUTOTEST [defined by .gitlab-ci.yml]
# │ │ ├── BUILD_ROOT [defined by custom-jobs-and-variables.yml]
# │ │ ├── TPLS_DIR [defined by this file]
# │ │ ├── ARTIFACTS_DIR [defined by custom-jobs-and-variables.yml]
# │ │ ├── MACHINE_NAME [defined by this file]
# │ │ ├── AUTOTEST_COMMIT [defined by .gitlab-ci.yml]
# │ │ ├── AUTOTEST_ROOT [defined by .gitlab-ci.yml]
# │ │ ├── BASELINE_TEST [defined by this file]
# │ │ └── REBASELINE [defined by .gitlab-ci.yml]
# │ └── subscribed-pipelines.yml
# │ ├── <jobs>
# │ │ ├── .machine-check
# │ │ ├── generate-job-lists
# │ │ ├── dane-up-check
# │ │ ├── dane-build-and-test
# │ │ ├── dane-baseline
# │ │ ├── tioga-up-check
# │ │ ├── tioga-build-and-test
# │ │ ├── matrix-up-check
# │ │ └── matrix-build-and-test
# │ ├── <used jobs>
# │ │ └── .build-and-test [from ".gitlab-ci.yml"]
# │ ├── <included files>
# │ │ └── .gitlab/dane-baseline.yml [by "dane-baseline"]
# │ └── <used variables>
# │ ├── GITHUB_PROJECT_ORG
# │ ├── GITHUB_PROJECT_NAME
# │ ├── AUTOTEST
# │ ├── AUTOTEST_COMMIT
# │ └── REBASELINE
# └── tests
# ├── gitlab
# │ ├── build_and_test
# │ │ ├── <builds and tests a given MFEM spec with uberenv>
# │ │ ├── <used files>
# │ │ │ ├── tests/uberenv/uberenv.py [deps mode, cloned]
# │ │ │ └── tests/gitlab/get_mfem_uberenv [deps mode]
# │ │ └── <used variables>
# │ │ ├── SYS_TYPE
# │ │ ├── THREADS [num. parallel jobs to build MFEM]
# │ │ ├── MODULE_LIST [modules to load]
# │ │ ├── CI_JOB_ID
# │ │ ├── USE_DEV_SHM
# │ │ ├── SPACK_DEBUG
# │ │ ├── DEBUG_MODE
# │ │ ├── REGISTRY_TOKEN
# │ │ ├── CI_REGISTRY_USER (defined by Gitlab)
# │ │ ├── USER
# │ │ ├── CI_REGISTRY_IMAGE (defined by Gitlab)
# │ │ └── CI_JOB_TOKEN (defined by Gitlab)
# │ ├── build_and_test_setup
# │ │ ├── <updates MFEM_DATA_REPO and AUTOTEST_REPO using locks>
# │ │ └── <used variables>
# │ │ ├── MFEM_DATA_REPO
# │ │ ├── SHARED_REPOS_DIR
# │ │ ├── AUTOTEST_REPO
# │ │ └── AUTOTEST_ROOT
# │ └── get_mfem_uberenv
# │ ├── <github.com/mfem/mfem-uberenv.git -> tests/uberenv>
# │ └── <defines the uberenv hash to use>
# └── uberenv [cloned by tests/gitlab/get_mfem_uberenv]
# └── uberenv.py
#
# <root of radiuss/radiuss-shared-ci, ref: 'v2025.09.1'>
# └── pipelines
# ├── matrix.yml
# │ ├── <jobs>
# │ │ ├── .on_matrix
# │ │ ├── .matrix_reproducer_init
# │ │ ├── .matrix_reproducer_vars
# │ │ ├── .matrix_reproducer_job
# │ │ ├── .matrix_job_command
# │ │ └── .job_on_matrix
# │ ├── <used jobs>
# │ │ └── .custom_job [from .gitlab/custom-jobs-and-variables.yml]
# │ └── <used variables>
# │ ├── ON_MATRIX
# │ ├── ADVANCED_JOB
# │ ├── ALL_TARGETS
# │ ├── SYS_TYPE
# │ ├── LLNL_SERVICE_USER
# │ ├── USER
# │ ├── GITHUB_PROJECT_NAME
# │ ├── GITHUB_PROJECT_ORG
# │ ├── MATRIX_JOB_ALLOC
# │ └── JOB_CMD
# ├── dane.yml
# │ ├── <jobs>
# │ │ ├── .on_dane
# │ │ ├── .dane_reproducer_init
# │ │ ├── .dane_reproducer_vars
# │ │ ├── .dane_reproducer_job
# │ │ ├── .dane_job_command
# │ │ ├── .job_on_dane
# │ │ ├── allocate_resources
# │ │ └── release_resources
# │ ├── <used jobs>
# │ │ └── .custom_job [from .gitlab/custom-jobs-and-variables.yml]
# │ ├── <defined variables>
# │ │ └── export JOBID
# │ └── <used variables>
# │ ├── ON_DANE
# │ ├── ADVANCED_JOB
# │ ├── ALL_TARGETS
# │ ├── SYS_TYPE
# │ ├── LLNL_SERVICE_USER
# │ ├── USER
# │ ├── GITHUB_PROJECT_NAME
# │ ├── GITHUB_PROJECT_ORG
# │ ├── DANE_JOB_ALLOC
# │ ├── JOB_CMD
# │ ├── JOBID
# │ ├── ALLOC_NAME
# │ └── DANE_SHARED_ALLOC
# └── tioga.yml
# ├── <jobs>
# │ ├── .on_tioga
# │ ├── .tioga_reproducer_init
# │ ├── .tioga_reproducer_vars
# │ ├── .tioga_reproducer_job
# │ ├── .tioga_job_command
# │ ├── .job_on_tioga
# │ ├── allocate_resources
# │ └── release_resources
# ├── <used jobs>
# │ └── .custom_job [from .gitlab/custom-jobs-and-variables.yml]
# ├── <defined variables>
# │ └── PROXY
# └── <used variables>
# ├── ON_TIOGA
# ├── ADVANCED_JOB
# ├── ALL_TARGETS
# ├── SYS_TYPE
# ├── LLNL_SERVICE_USER
# ├── USER
# ├── GITHUB_PROJECT_NAME
# ├── GITHUB_PROJECT_ORG
# ├── TIOGA_JOB_ALLOC
# ├── JOB_CMD
# ├── PROXY
# ├── ALLOC_NAME
# └── TIOGA_SHARED_ALLOC
# at Lawrence Livermore National Laboratory (LLNL). This entire pipeline is
# LLNL-specific!
include:
- project: 'lc-templates/id_tokens'
file: 'id_tokens.yml'
# The pipeline is divided into stages. Usually, jobs in a given stage wait for
# the preceding stages to complete before to start. However, we sometimes use
# the "needs" keyword and express the DAG of jobs for more efficiency.
# - We use setup and setup_baseline phases to download content outside of mfem
# directory.
# - Allocate/Release is where Dane resource are allocated/released once for all.
# - Build and Test is where we build and MFEM for multiple toolchains.
# - Baseline_checks gathers baseline-type test suites execution
# - Baseline_publish, only available on master, allows to update baseline
# results
stages:
- sub-pipelines
###############################################################################
# We define the following GitLab pipeline variables:
variables:
##### LC GITLAB CONFIGURATION
CUSTOM_CI_BUILDS_DIR: "/usr/workspace/mfem/gitlab-runner"
##### PROJECT VARIABLES
USER_CI_TOP_DIR: "${CUSTOM_CI_BUILDS_DIR}/${GITLAB_USER_LOGIN}"
SHARED_REPOS_DIR: "${USER_CI_TOP_DIR}/repos"
AUTOTEST_ROOT: "${SHARED_REPOS_DIR}"
# MFEM_DATA_DIR is setup in '.gitlab/configs/setup-build-and-test.yml' and
# used in '.gitlab/configs/<machine>-config.yml':
MFEM_DATA_DIR: "${SHARED_REPOS_DIR}/mfem-data"
# AUTOTEST: enable (ON/YES) or disable (any other value) test reporting. See
# also AUTOTEST_COMMIT.
AUTOTEST: "OFF"
# AUTOTEST_COMMIT: used only when AUTOTEST is set to ON/YES.
# * If AUTOTEST_COMMIT is set to ON/YES, reporting jobs will commit their
# files to the MFEM/autotest repo.
# * If AUTOTEST_COMMIT is NOT set to ON/YES, reporting jobs will NOT commit
# their files to the MFEM/autotest repo. Instead they will just show the
# contents of the report files and remove them.
AUTOTEST_COMMIT: "ON"
# REBASELINE:
# Defines the default choice for updating the saved baseline results. By default
# the baseline can only be updated from the master branch. This variable offers
# the option to manually ask for rebaselining from another branch if necessary.
REBASELINE: "OFF"
REBASELINE: "NO"
AUTOTEST: "NO"
# AUTOTEST_COMMIT: used only when AUTOTEST is set to YES.
# * If AUTOTEST_COMMIT is NOT set to NO, reporting jobs will commit their
# files to the MFEM/autotest repo.
# * If AUTOTEST_COMMIT is set to NO, reporting jobs will NOT commit their
# files to the MFEM/autotest repo. Instead they will just show the contents
# of the report files and remove them.
AUTOTEST_COMMIT: "YES"
##### SHARED_CI CONFIGURATION
# Required information about GitHub repository
GITHUB_PROJECT_NAME: "mfem"
GITHUB_PROJECT_ORG: "MFEM"
# Override the pattern describing branches that will skip the "draft PR filter
# test". Add protected branches here. See default value in
# preliminary-ignore-draft-pr.yml.
# ALWAYS_RUN_PATTERN: ""
###############################################################################
##### High level stages
# We organize the test-pipelines stage with sub-pipelines. Each sub-pipeline
# corresponds to a test batch on a given machine.
stages:
- prerequisites
- test-pipelines
###############################################################################
# Template for jobs triggering a build-and-test sub-pipeline:
.build-and-test:
stage: test-pipelines
# Trigger subpipelines:
dane-build-and-test:
stage: sub-pipelines
variables:
# Explicitly pass down values that are not always propagated to child
# pipelines, e.g. when a variable is set in the "Settings -> CI" web
# interface (project variables).
# Note: in some cases, this does not work as expected, e.g. when the
# variable is not re-defined in the web interface; in such cases, the child
# pipeline gets a definition like '${AUTOTEST}', i.e. it behaves as if
# AUTOTEST is undefined, even though there is a default value in
# .gitlab-ci.yml.
# Explicitly pass down values that we want to be able to set when triggering
# pipelines manually or using scheduling
AUTOTEST: "${AUTOTEST}"
AUTOTEST_COMMIT: "${AUTOTEST_COMMIT}"
trigger:
include:
- local: '.gitlab/custom-jobs-and-variables.yml'
- project: 'radiuss/radiuss-shared-ci'
ref: 'v2025.09.1'
file: 'pipelines/${CI_MACHINE}.yml'
- artifact: '${CI_MACHINE}-jobs.yml'
job: 'generate-job-lists'
include: .gitlab/dane-build-and-test.yml
strategy: depend
forward:
pipeline_variables: true
###############################################################################
include:
# Sets ID tokens for every job using `default:`
- project: 'lc-templates/id_tokens'
file: 'id_tokens.yml'
# [Optional] checks preliminary to running the actual CI test
#- project: 'radiuss/radiuss-shared-ci'
# ref: 'v2025.09.1'
# file: 'preliminary-ignore-draft-pr.yml'
# pipelines subscribed by the project
- local: '.gitlab/subscribed-pipelines.yml'
dane-baseline:
stage: sub-pipelines
variables:
# Explicitly pass down values that we want to be able to set when triggering
# pipelines manually or using scheduling
REBASELINE: "${REBASELINE}"
AUTOTEST: "${AUTOTEST}"
AUTOTEST_COMMIT: "${AUTOTEST_COMMIT}"
trigger:
include: .gitlab/dane-baseline.yml
strategy: depend
lassen-build-and-test:
stage: sub-pipelines
variables:
# Explicitly pass down values that we want to be able to set when triggering
# pipelines manually or using scheduling
AUTOTEST: "${AUTOTEST}"
AUTOTEST_COMMIT: "${AUTOTEST_COMMIT}"
trigger:
include: .gitlab/lassen-build-and-test.yml
strategy: depend
corona-build-and-test:
stage: sub-pipelines
variables:
# Explicitly pass down values that we want to be able to set when triggering
# pipelines manually or using scheduling
AUTOTEST: "${AUTOTEST}"
AUTOTEST_COMMIT: "${AUTOTEST_COMMIT}"
trigger:
include: .gitlab/corona-build-and-test.yml
strategy: depend
+12 -34
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@@ -15,9 +15,9 @@ and nightly testing on GitLab.
## Top level
The root configuration file is `.gitlab-ci.yml` at the root of MFEM repo. This
file only defines three stages, a prerequisites one, and two main stages in
which we trigger several sub-pipelines.
The root configuration file is `.gitlab-ci.yml` at the root of MFEM repo.
This file only defines one stage, in which we trigger several
sub-pipelines.
We use sub-pipelines to isolate the test for one combination of `machine`
and `test type`.
@@ -25,8 +25,8 @@ and `test type`.
Machines typically include:
* Dane: Intel Sapphire Rapids
* Matrix: Intel Sapphire Rapids + Nvidia H100 GPU
* Tioga: AMD MI250X GPU
* Lassen: Power9 + Nvidia GPU
* Corona: AMD GPU
Test types include:
@@ -39,31 +39,9 @@ altering the scheduling, execution and displaying of the others.
## Sub-pipelines
### build-and-test
The build-and-test sub-pipelines leverage RADIUSS Shared CI to share most of
the CI implementation. RADIUSS Shared CI provides a shared CI infrastructure
vetted on most LC systems of interest and efficiently leveraging each machine
scheduler to increase CI throughput. The maintenance of RADIUSS Shared CI is
shared among several RADIUSS projects.
Jobs for the build-and-test sub-pipelines are defined in the jobs directory.
Because build-and-test jobs leverage Uberenv and Spack to build the
dependencies automatically, the jobs essentially consists in a `spack spec`
defined in the jobs files, and some scheduling parameters defined in the
`.gitlab/custom-jobs-and-variables.yml` file.
Build-and-test jobs all run the `tests/gitlab/build_and_test` script.
The build-and-test pipelines are controlled by the
`.gitlab/subscribed-pipelines.yml` which defines which machines to run on and
implements additional features like machine availability check, and job list
generation.
### baseline
Baseline sub-pipelines are described by files with names reflecting the
machine it runs on, e.g. `dane-baseline`.
Each file is this directory is the root configuration file for one
sub-pipeline. The naming reflects the corresponding couple (`machine`,
`test_type`).
Those files define the *stages* and the *jobs* for the sub-pipeline. They
also contain any configuration that cannot be shared. For the most part
@@ -85,11 +63,11 @@ usage function. This should be improved.
# More testing
## Adding a new target to a build-and-test pipeline
## Adding a new target to a build_and_test pipeline
`build-and-test` pipelines rely on Spack to install dependencies. Spack is
`build_and_test` pipelines rely on Spack to install dependencies. Spack is
driven by Uberenv which helps freezing Spack configuration: the goal being to
point to a specific commit in Spack and isolate its configuration so that it is
point to specific commit in Spack and isolate its configuration so that it is
not influenced by the user environment. More documentation about this can be
found in `tests/gitlab`.
@@ -104,7 +82,7 @@ spack spec to use. Adding a job on Dane for example resumes to:
<job_name>:
variables:
SPEC: "<spack_spec>"
extends: .job_on_dane
extends: .build_and_test_on_dane
```
The remaining and non trivial work is to make sure this spec is working. To
+40
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@@ -0,0 +1,40 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
include:
- project: 'lc-templates/id_tokens'
file: 'id_tokens.yml'
# We define the following GitLab pipeline variables:
variables:
# The path to the shared resource between all jobs. For example, external
# repositories like 'tests' and 'tpls' are cloned here. Also, 'tpls' is built
# once for all targets, so that build happen here. The BUILD_ROOT is unique to
# the pipeline, preventing any form of concurrency with other pipelines. This
# also means that the BUILD_ROOT directory will never be cleaned.
# TODO: add a clean-up mechanism
BUILD_ROOT: ${USER_CI_TOP_DIR}/${CI_PROJECT_NAME}-${MACHINE_NAME}-pipeline-${CI_PIPELINE_ID}
# On LLNL's Dane, there is only one allocation shared among jobs in order to
# save time and resource. This allocation has to be uniquely named so that we
# are sure to retrieve it.
ALLOC_NAME: ${CI_PROJECT_NAME}_ci_${CI_PIPELINE_ID}
# Git repositories used in the pipeline
TPLS_REPO: ssh://git@mybitbucket.llnl.gov:7999/mfem/tpls.git
TESTS_REPO: ssh://git@mybitbucket.llnl.gov:7999/mfem/tests.git
AUTOTEST_REPO: ssh://git@mybitbucket.llnl.gov:7999/mfem/autotest.git
MFEM_DATA_REPO: https://github.com/mfem/data.git
# Directory used to place artifacts.
ARTIFACTS_DIR: artifacts
SLURM_OVERLAP: 1
+59
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@@ -0,0 +1,59 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# GitLab pipeline configuration for the Corona machine at LLNL
variables:
MACHINE_NAME: corona
.on_corona:
tags:
- shell
- corona
rules:
# Don't run corona jobs if...
# Note: This makes corona an "opt-in" machine. To activate builds on corona
# for a given GitLab clone of MFEM, go to Setting/CI-CD/variables, and set
# "ON_CORONA" to "ON". An LC account on for corona is required to trigger a
# pipeline there.
- if: '$CI_COMMIT_BRANCH =~ /_cnone/ || $ON_CORONA != "ON"'
when: never
# Don't run autotest update if...
- if: '$CI_JOB_NAME =~ /report/ && $AUTOTEST != "YES"'
when: never
# Report success on success status
- if: '$CI_JOB_NAME =~ /report_job_success/ && $AUTOTEST == "YES"'
when: on_success
# Report failure on failure status
- if: '$CI_JOB_NAME =~ /report_job_failure/ && $AUTOTEST == "YES"'
when: on_failure
# Always release resource
- if: '$CI_JOB_NAME =~ /release_resource/'
when: always
# Always cleanup
- if: '$CI_JOB_NAME =~ /cleanup/'
when: always
# Default is to run if previous stage succeeded
- when: on_success
# Spack helped builds
# Generic corona build job, extending build script
.build_and_test_on_corona:
extends: [.on_corona]
stage: build_and_test
script:
# THREADS is used by 'tests/gitlab/build_and_test', run below
- export THREADS=12
- echo ${ALLOC_NAME}
- export JOBID=$(squeue -h --name=${ALLOC_NAME} --format=%A)
- echo ${JOBID}
- echo ${MFEM_DATA_DIR}
- echo ${SPEC}
- srun $( [[ -n "${JOBID}" ]] && echo "--jobid=${JOBID}" ) -t 15 -N 1 tests/gitlab/build_and_test --spec "${SPEC}" --data-dir "${MFEM_DATA_DIR}" --data
+56
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@@ -0,0 +1,56 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# GitLab pipelines configurations for the Dane machine at LLNL
variables:
MACHINE_NAME: dane
.on_dane:
tags:
- shell
- dane
rules:
# Don't run dane jobs if...
- if: '$CI_COMMIT_BRANCH =~ /_qnone/ || $ON_DANE == "OFF"'
when: never
# Don't run autotest update if...
- if: '$CI_JOB_NAME =~ /report/ && $AUTOTEST != "YES"'
when: never
# Report success on success status
- if: '$CI_JOB_NAME =~ /report_job_success/ && $AUTOTEST == "YES"'
when: on_success
# Report failure on failure status
- if: '$CI_JOB_NAME =~ /report_job_failure/ && $AUTOTEST == "YES"'
when: on_failure
# Always release resource
- if: '$CI_JOB_NAME =~ /release_resource/'
when: always
# Always cleanup
- if: '$CI_JOB_NAME =~ /cleanup/'
when: always
# Default is to run if previous stage succeeded
- when: on_success
# Spack helped builds
# Generic dane build job, extending build script
.build_and_test_on_dane:
extends: [.on_dane]
stage: build_and_test
script:
# THREADS is used by 'tests/gitlab/build_and_test', run below
# Dane has 224 threads/node and we run 7 separate jobs: 224=7*32
- export THREADS=28
- echo ${ALLOC_NAME}
- export JOBID=$(squeue -h --name=${ALLOC_NAME} --format=%A)
- echo ${JOBID}
- echo ${MFEM_DATA_DIR}
- echo ${SPEC}
- srun $( [[ -n "${JOBID}" ]] && echo "--jobid=${JOBID}" ) --reservation=ci -t 60 -N 1 tests/gitlab/build_and_test --spec "${SPEC}" --data-dir "${MFEM_DATA_DIR}" --data
+48
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@@ -0,0 +1,48 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# GitLab pipelines configurations for the Lassen machine at LLNL
variables:
MACHINE_NAME: lassen
.on_lassen:
tags:
- shell
- lassen
rules:
- if: '$CI_COMMIT_BRANCH =~ /_lnone/ || $ON_LASSEN == "OFF"' #run except if ...
when: never
# Don't run autotest update if...
- if: '$CI_JOB_NAME =~ /report/ && $AUTOTEST != "YES"'
when: never
# Report success on success status
- if: '$CI_JOB_NAME =~ /report_job_success/ && $AUTOTEST == "YES"'
when: on_success
# Report failure on failure status
- if: '$CI_JOB_NAME =~ /report_job_failure/ && $AUTOTEST == "YES"'
when: on_failure
# Always cleanup
- if: '$CI_JOB_NAME =~ /cleanup/'
when: always
- when: on_success
# Lassen uses a different job scheduler (spectrum lsf) that does not allow
# pre-allocation the same way slurm does. We use the pci queue on lassen
# to speed-up the allocation.
.build_and_test_on_lassen:
extends: [.on_lassen]
stage: build_and_test
script:
- echo ${MFEM_DATA_DIR}
- echo ${SPEC}
# Next script uses 'THREADS': leaving it empty --> it uses 'make all -j'
- lalloc 1 -W 45 -q pci --atsdisable tests/gitlab/build_and_test --spec "${SPEC}" --data-dir "${MFEM_DATA_DIR}" --data
needs: [setup]
+77
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@@ -0,0 +1,77 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# Jobs report
.report_job_success:
script:
- echo ${MACHINE_NAME}
- echo ${AUTOTEST}
- echo ${AUTOTEST_COMMIT}
- echo "AUTOTEST_ROOT ${AUTOTEST_ROOT}"
- cd ${AUTOTEST_ROOT}
- |
(
date
echo "Waiting to acquire lock on '$PWD/autotest.lock' ..."
# try to get an exclusive lock on fd 9 (autotest.lock) repeating the try
# every 5 seconds; we may want to add a counter for the number of
# retries to interrupt a potential infinite loop
while ! flock -n 9; do
sleep 5
done
echo "Acquired lock on '$PWD/autotest.lock'"
date
# Report SUCCESS while holding the file lock on 'autotest.lock'.
# The next script uses the following environment variables:
# - MACHINE_NAME, AUTOTEST_ROOT, AUTOTEST_COMMIT
# - CI_COMMIT_REF_SLUG, CI_PROJECT_DIR, CI_PIPELINE_URL
# It also calls the script '.gitlab/scripts/safe_create_rundir'.
${CI_PROJECT_DIR}/.gitlab/scripts/report_build_and_test_success
err=$?
# sleep for a period to allow NFS to propagate the above changes;
# clearly, there is no guarantee that other NFS clients will see the
# changes even after the timeout
sleep 10
exit $err
) 9> autotest.lock
.report_job_failure:
script:
- echo ${MACHINE_NAME}
- echo ${AUTOTEST}
- echo ${AUTOTEST_COMMIT}
- echo "AUTOTEST_ROOT ${AUTOTEST_ROOT}"
- cd ${AUTOTEST_ROOT}
- |
(
date
echo "Waiting to acquire lock on '$PWD/autotest.lock' ..."
# try to get an exclusive lock on fd 9 (autotest.lock) repeating the try
# every 5 seconds; we may want to add a counter for the number of
# retries to interrupt a potential infinite loop
while ! flock -n 9; do
sleep 5
done
echo "Acquired lock on '$PWD/autotest.lock'"
date
# Report FAILURE while holding the file lock on 'autotest.lock'.
# The next script uses the following environment variables:
# - MACHINE_NAME, AUTOTEST_ROOT, AUTOTEST_COMMIT
# - CI_COMMIT_REF_SLUG, CI_PROJECT_DIR, CI_PIPELINE_URL
# It also calls the script '.gitlab/scripts/safe_create_rundir'.
${CI_PROJECT_DIR}/.gitlab/scripts/report_build_and_test_failure
err=$?
# sleep for a period to allow NFS to propagate the above changes;
# clearly, there is no guarantee that other NFS clients will see the
# changes even after the timeout
sleep 10
exit $err
) 9> autotest.lock
+90
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@@ -0,0 +1,90 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# Setup clones the mfem/data repo in ${SHARED_REPOS_DIR}. The build_and_test
# script then symlinks the repo to the parent directory of the MFEM source
# directory. Unit tests that depend on the mfem/data repo will then detect that
# this directory is present and be enabled.
setup:
tags:
- shell
- dane
stage: setup
variables:
GIT_STRATEGY: none
script:
#
# Setup MFEM_DATA_DIR=${SHARED_REPOS_DIR}/mfem-data, see '.gitlab-ci.yml'
# and '.gitlab/configs/<machine>-config.yml'
#
- echo "MACHINE_NAME = ${MACHINE_NAME}"
- echo "AUTOTEST = ${AUTOTEST}"
- echo "AUTOTEST_COMMIT = ${AUTOTEST_COMMIT}"
- echo "SHARED_REPOS_DIR ${SHARED_REPOS_DIR}"
- mkdir -p ${SHARED_REPOS_DIR} && cd ${SHARED_REPOS_DIR}
- command -v flock || echo "Required command 'flock' not found"
- |
(
date
echo "Waiting to acquire lock on '$PWD/mfem-data.lock' ..."
# try to get an exclusive lock on fd 9 (mfem-data.lock) repeating the
# try every 5 seconds; we may want to add a counter for the number of
# retries to interrupt a potential infinite loop
while ! flock -n 9; do
sleep 5
done
echo "Acquired lock on '$PWD/mfem-data.lock'"
date
# clone/update the mfem/data repo while holding the file lock on
# 'mfem-data.lock'
err=0
if [[ ! -d "mfem-data" ]]; then
git clone ${MFEM_DATA_REPO} "mfem-data"
else
cd "mfem-data" && git pull && cd ..
fi || err=1
# sleep for a period to allow NFS to propagate the above changes;
# clearly, there is no guarantee that other NFS clients will see the
# changes even after the timeout
sleep 10
exit $err
) 9> mfem-data.lock
#
# Setup ${AUTOTEST_ROOT}/autotest:
#
- echo "AUTOTEST_ROOT ${AUTOTEST_ROOT}"
- mkdir -p ${AUTOTEST_ROOT} && cd ${AUTOTEST_ROOT}
- |
(
date
echo "Waiting to acquire lock on '$PWD/autotest.lock' ..."
# try to get an exclusive lock on fd 9 (autotest.lock) repeating the try
# every 5 seconds; we may want to add a counter for the number of
# retries to interrupt a potential infinite loop
while ! flock -n 9; do
sleep 5
done
echo "Acquired lock on '$PWD/autotest.lock'"
date
# clone/update the autotest repo while holding the file lock on
# 'autotest.lock'
err=0
if [[ ! -d "autotest" ]]; then
git clone ${AUTOTEST_REPO}
else
cd autotest && git pull && cd ..
fi || err=1
# sleep for a period to allow NFS to propagate the above changes;
# clearly, there is no guarantee that other NFS clients will see the
# changes even after the timeout
sleep 10
exit $err
) 9> autotest.lock
+67
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@@ -0,0 +1,67 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
stages:
- setup
- allocate_resource
- build_and_test
- release_resource_and_report
# Slurm shared allocation
allocate_resource:
variables:
GIT_STRATEGY: none
extends: .on_corona
stage: allocate_resource
script:
- echo ${ALLOC_NAME}
- salloc --exclusive --nodes=1 --partition=mi60 --time=45 --no-shell --job-name=${ALLOC_NAME}
timeout: 6h
needs: [setup]
# Build and test jobs, simply provide a spec
rocm_gcc_8.3.1:
variables:
SPEC: "@develop%gcc@8.3.1+rocm amdgpu_target=gfx906"
extends: .build_and_test_on_corona
needs: [allocate_resource]
# Release slurm allocation
release_resource:
variables:
GIT_STRATEGY: none
extends: .on_corona
stage: release_resource_and_report
script:
- echo ${ALLOC_NAME}
- export JOBID=$(squeue -h --name=${ALLOC_NAME} --format=%A)
- echo ${JOBID}
- ([[ -n "${JOBID}" ]] && scancel ${JOBID})
needs: [rocm_gcc_8.3.1]
# Jobs report
report_job_success:
stage: release_resource_and_report
extends:
- .on_corona
- .report_job_success
report_job_failure:
stage: release_resource_and_report
extends:
- .on_corona
- .report_job_failure
include:
- local: .gitlab/configs/common.yml
- local: .gitlab/configs/corona-config.yml
- local: .gitlab/configs/setup-build-and-test.yml
- local: .gitlab/configs/report-build-and-test.yml
-132
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@@ -1,132 +0,0 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
include:
- project: 'lc-templates/id_tokens'
file: 'id_tokens.yml'
# We define the following GitLab pipeline variables:
variables:
# Set the build-and-test command.
# Nested variables are allowed and useful to customize the job command. We
# protect variables with quotes so that their value may remain a string even if
# they contain whitespaces.
JOB_CMD:
value: tests/gitlab/build_and_test --spec \"${SPEC}\" --data-dir ${MFEM_DATA_DIR} --data
# The path to the shared resource between all jobs in the 'dane-baseline'
# pipeline. For example, external repositories like 'tests' and 'tpls' are
# cloned here. Also, 'tpls' is built once for all targets, so that build happens
# here. The BUILD_ROOT is unique to the pipeline, preventing any form of
# concurrency with other pipelines. This directory is removed by the 'cleanup'
# stage in the 'dane-baseline' pipeline.
BUILD_ROOT: ${USER_CI_TOP_DIR}/${CI_PROJECT_NAME}-${CI_MACHINE}-pipeline-${CI_PIPELINE_ID}
# On LLNL's dane and tioga, the 'build-and-test' pipelines creates only one
# allocation shared among jobs in the pipeline in order to save time and
# resources. This allocation has to be uniquely named so that we are sure to
# retrieve it and avoid collisions.
ALLOC_NAME: ${CI_PROJECT_NAME}_ci_${CI_PIPELINE_ID}
# Git repositories used in the pipelines:
# - TPLS_REPO and TESTS_REPO are used only by the 'dane-baseline' pipeline
# - AUTOTEST_REPO is used by all pipelines
# - MFEM_DATA_REPO is used only by the 'build-and-test' pipelines
TPLS_REPO: ssh://git@mybitbucket.llnl.gov:7999/mfem/tpls.git
TESTS_REPO: ssh://git@mybitbucket.llnl.gov:7999/mfem/tests.git
AUTOTEST_REPO: ssh://git@mybitbucket.llnl.gov:7999/mfem/autotest.git
MFEM_DATA_REPO: https://github.com/mfem/data.git
# Directory used to place artifacts:
# - ARTIFACTS_DIR is only used by the 'dane-baseline' pipeline
ARTIFACTS_DIR: artifacts
SLURM_OVERLAP: 1
# Dane
# Arguments for top level allocation
DANE_SHARED_ALLOC: "--exclusive --reservation=ci --time=60 --nodes=1"
# Arguments for job level allocation
# Note: We repeat the reservation, necessary when jobs are manually re-triggered.
DANE_JOB_ALLOC: "--reservation=ci --overlap --nodes=1"
# Tioga
# Arguments for top level allocation
TIOGA_SHARED_ALLOC: "--queue=pci --exclusive --time-limit=45m --nodes=1"
# Arguments for job level allocation
TIOGA_JOB_ALLOC: "--nodes=1 --begin-time=+5s"
# Matrix
# Arguments for top level allocation
MATRIX_SHARED_ALLOC: "-p pdebug --exclusive --time=45 --nodes=1 -G 4"
# Arguments for job level allocation
# Note: We repeat the reservation, necessary when jobs are manually re-triggered.
MATRIX_JOB_ALLOC: "--overlap --nodes=1"
# Configuration shared by build and test jobs specific to this project.
# Not all configuration can be shared. Here projects can fine tune the
# CI behavior.
# See Umpire for an example (export junit test reports).
.custom_job:
artifacts:
reports:
# Note: this part is not used by the 'dane-baseline' pipeline.
# FIXME: BUILD_ROOT, TPLS_REPO, TESTS_REPO are not needed here.
# Also, the definition of SHARED_REPOS_DIR is wrong.
.reproducer_vars:
script:
- |
echo -e "
# Variables \n
export SPEC=\"${SPEC//\"/\\\"}\" \n
# Directories \n
export BUILD_ROOT=\"\${working_dir}\" \n
export SHARED_REPOS_DIR=\"\${BUILD_ROOT}/..\" \n
export MFEM_DATA_DIR=\"\${SHARED_REPOS_DIR}/mfem-data\" \n
# Repositories \n
export TPLS_REPO=\"${TPLS_REPO//\"/\\\"}\" \n
export TESTS_REPO=\"${TESTS_REPO//\"/\\\"}\" \n
export AUTOTEST_REPO=\"${AUTOTEST_REPO//\"/\\\"}\" \n
export MFEM_DATA_REPO=\"${MFEM_DATA_REPO//\"/\\\"}\" \n
# Setup directories \n
./tests/gitlab/build_and_test_setup \n
# Using the CI build cache is optional and requires a token. Set it like so: \n
# export REGISTRY_TOKEN=\"<your token here>\" \n"
#
# Jobs report
.report_job_success:
script:
- ${CI_PROJECT_DIR}/.gitlab/scripts/report_build_and_test SUCCESS
rules:
- when: on_success
.report_job_failure:
script:
- ${CI_PROJECT_DIR}/.gitlab/scripts/report_build_and_test FAILURE
rules:
- when: on_failure
# Keep the following for debugging purposes: renaming this job from
# '.show_variables' to 'show_variables' will insert this debug job at the
# beginning of all child pipelines.
.show_variables:
tags: [shell, oslic]
variables:
GIT_STRATEGY: none
stage: .pre
script:
- |
echo "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~"
echo "AUTOTEST=${AUTOTEST}"
echo "AUTOTEST_COMMIT=${AUTOTEST_COMMIT}"
echo "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~"
# Fail the job on purpose to prevent the rest of the pipeline from running
false
+5 -33
View File
@@ -11,7 +11,6 @@
variables:
BASELINE_TEST: baseline
MACHINE_NAME: dane
stages:
- setup
@@ -20,25 +19,6 @@ stages:
- cleanup
- baseline_publish
.on_dane:
tags:
- shell
- dane
rules:
# Don't run dane jobs if...
- if: '$ON_DANE == "OFF"'
when: never
# Don't run autotest update if...
# Note: in some cases, the content of AUTOTEST can be '${AUTOTEST}', so we
# need to treat that value as the default value of 'OFF'.
- if: '$CI_JOB_NAME =~ /report/ && $AUTOTEST != "ON" && $AUTOTEST != "YES"'
when: never
# Always cleanup
- if: '$CI_JOB_NAME =~ /cleanup/'
when: always
# Default is to run if previous stage succeeded
- when: on_success
baselinecheck_mfem_intel_dane:
extends: [.on_dane]
stage: baseline_check
@@ -49,9 +29,6 @@ baselinecheck_mfem_intel_dane:
# .gitlab/configs/setup-baseline.yml.
TPLS_DIR: ${BUILD_ROOT}/tpls
script:
- echo "AUTOTEST=$AUTOTEST"
- echo "AUTOTEST_COMMIT=$AUTOTEST_COMMIT"
- echo "AUTOTEST_ROOT=$AUTOTEST_ROOT"
- echo ${BUILD_ROOT}
- echo ${TPLS_DIR}
# Used by the tests in MFEM/tests, dane has 224 threads/node:
@@ -112,13 +89,7 @@ report_baseline:
cp ${rundir}/pipeline.txt ${rundir}/autotest-email.html
fi
msg="GitLab CI log for ${BASELINE_TEST} on ${MACHINE_NAME} ($(date +%Y-%m-%d))"
# Note: in some cases, the content of AUTOTEST_COMMIT can be
# '${AUTOTEST_COMMIT}', so we need to treat that value as the default
# value of 'ON'.
if [[ "$AUTOTEST_COMMIT" == '${AUTOTEST_COMMIT}' ]]; then
AUTOTEST_COMMIT="ON"
fi
if [[ "$AUTOTEST_COMMIT" == "ON" || "$AUTOTEST_COMMIT" == "YES" ]]; then
if [[ "$AUTOTEST_COMMIT" != "NO" ]]; then
git pull && \
git add ${rundir} && \
git commit -m "${msg}" && \
@@ -146,8 +117,8 @@ baselinepublish_mfem_dane:
extends: [.on_dane]
stage: baseline_publish
rules:
# - if: '$CI_COMMIT_BRANCH == "master" || $REBASELINE == "ON"'
- if: '$REBASELINE == "ON"'
# - if: '$CI_COMMIT_BRANCH == "master" || $REBASELINE == "YES"'
- if: '$REBASELINE == "YES"'
when: manual
script:
- echo ${BUILD_ROOT}
@@ -157,5 +128,6 @@ baselinepublish_mfem_dane:
- .gitlab/scripts/rebaseline
include:
- local: .gitlab/custom-jobs-and-variables.yml
- local: .gitlab/configs/common.yml
- local: .gitlab/configs/dane-config.yml
- local: .gitlab/configs/setup-baseline.yml
+94
View File
@@ -0,0 +1,94 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
stages:
- setup
- allocate_resource
- build_and_test
- release_resource_and_report
# Allocate
allocate_resource:
variables:
GIT_STRATEGY: none
extends: .on_dane
stage: allocate_resource
script:
- echo ${ALLOC_NAME}
- salloc --exclusive --nodes=1 --reservation=ci --time=60 --no-shell --job-name=${ALLOC_NAME}
timeout: 6h
# GitLab jobs for the Dane machine at LLNL
debug_ser_gcc_10:
variables:
SPEC: "%gcc@10.3.1 +debug~mpi"
extends: .build_and_test_on_dane
debug_par_gcc_10:
variables:
SPEC: "%gcc@10.3.1 +debug+mpi"
extends: .build_and_test_on_dane
opt_ser_gcc_10:
variables:
SPEC: "%gcc@10.3.1 ~mpi"
extends: .build_and_test_on_dane
opt_par_gcc_10:
variables:
SPEC: "%gcc@10.3.1"
extends: .build_and_test_on_dane
opt_par_gcc_10_sundials:
variables:
SPEC: "%gcc@10.3.1 +sundials"
extends: .build_and_test_on_dane
opt_par_gcc_10_petsc:
variables:
SPEC: "%gcc@10.3.1 +petsc ^petsc+mumps~superlu-dist"
extends: .build_and_test_on_dane
opt_par_gcc_10_pumi:
variables:
SPEC: "%gcc@10.3.1 +pumi"
extends: .build_and_test_on_dane
# Release
release_resource:
variables:
GIT_STRATEGY: none
extends: .on_dane
stage: release_resource_and_report
script:
- echo ${ALLOC_NAME}
- export JOBID=$(squeue -h --name=${ALLOC_NAME} --format=%A)
- echo ${JOBID}
- ([[ -n "${JOBID}" ]] && scancel ${JOBID})
# Jobs report
report_job_success:
stage: release_resource_and_report
extends:
- .on_dane
- .report_job_success
report_job_failure:
stage: release_resource_and_report
extends:
- .on_dane
- .report_job_failure
include:
- local: .gitlab/configs/common.yml
- local: .gitlab/configs/dane-config.yml
- local: .gitlab/configs/setup-build-and-test.yml
- local: .gitlab/configs/report-build-and-test.yml
-19
View File
@@ -1,19 +0,0 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# Jobs report
report_job_success:
extends: [.on_dane, .report_job_success]
stage: jobs-stage-3
report_job_failure:
extends: [.on_dane, .report_job_failure]
stage: jobs-stage-3
-87
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@@ -1,87 +0,0 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# Override reproducer section to define MFEM specific variables.
.dane_reproducer_vars:
script:
- !reference [.reproducer_vars, script]
# TODO: Setup script should be defined as a bash script (but then GIT_STRATEGY
# cannot be "none" anymore).
# Setup clones the mfem/data repo in ${SHARED_REPOS_DIR}. The build_and_test
# script then symlinks the repo to the parent directory of the MFEM source
# directory. Unit tests that depend on the mfem/data repo will then detect that
# this directory is present and be enabled.
setup:
extends: .on_dane
stage: jobs-stage-1
script:
- ./tests/gitlab/build_and_test_setup
########################
# Overridden shared jobs
########################
# When using shared jobs, we can duplicate them here to override description and
# add necessary changes.
# We keep ${PROJECT_<MACHINE>_VARIANTS} and ${PROJECT_<MACHINE>_DEPS} So that
# the comparison with the original job is easier.
############
# Extra jobs
############
# We do not recommend using ${PROJECT_<MACHINE>_VARIANTS} and
# ${PROJECT_<MACHINE>_DEPS} in the extra jobs. There is not reason not to fully
# describe the spec here.
.mfem_job_on_dane:
extends: .job_on_dane
stage: jobs-stage-2
variables:
# Dane has 224 threads/node and we run 7 separate jobs: 224=7*32
THREADS: 28
debug_ser_gcc_10:
extends: .mfem_job_on_dane
variables:
SPEC: "%gcc@10.3.1 +debug~mpi"
debug_par_gcc_10:
extends: .mfem_job_on_dane
variables:
SPEC: "%gcc@10.3.1 +debug+mpi"
opt_ser_gcc_10:
extends: .mfem_job_on_dane
variables:
SPEC: "%gcc@10.3.1 ~mpi"
opt_par_gcc_10:
extends: .mfem_job_on_dane
variables:
SPEC: "%gcc@10.3.1"
opt_par_gcc_10_sundials:
extends: .mfem_job_on_dane
variables:
SPEC: "%gcc@10.3.1 +sundials"
opt_par_gcc_10_petsc:
extends: .mfem_job_on_dane
variables:
SPEC: "%gcc@10.3.1 +petsc ^petsc+mumps~superlu-dist"
opt_par_gcc_10_pumi:
extends: .mfem_job_on_dane
variables:
SPEC: "%gcc@10.3.1 +pumi"
-19
View File
@@ -1,19 +0,0 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# Jobs report
report_job_success:
extends: [.on_matrix, .report_job_success]
stage: jobs-stage-3
report_job_failure:
extends: [.on_matrix, .report_job_failure]
stage: jobs-stage-3
-65
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@@ -1,65 +0,0 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# Override reproducer section to define UMPIRE specific variables.
.matrix_reproducer_vars:
script:
- !reference [.reproducer_vars, script]
#TODO: Setup script should be defined as a bash script (but then GIT_STRATEGY cannot be "none" anymore).
# Setup clones the mfem/data repo in ${SHARED_REPOS_DIR}. The build_and_test
# script then symlinks the repo to the parent directory of the MFEM source
# directory. Unit tests that depend on the mfem/data repo will then detect that
# this directory is present and be enabled.
setup:
extends: .on_matrix
stage: jobs-stage-1
script:
- ./tests/gitlab/build_and_test_setup
########################
# Overridden shared jobs
########################
# When using shared jobs , we can duplicate them here to override description and add necessary changes.
# We keep ${PROJECT_<MACHINE>_VARIANTS} and ${PROJECT_<MACHINE>_DEPS} So that
# the comparison with the original job is easier.
############
# Extra jobs
############
# We do not recommend using ${PROJECT_<MACHINE>_VARIANTS} and
# ${PROJECT_<MACHINE>_DEPS} in the extra jobs. There is not reason not to fully
# describe the spec here.
.mfem_job_on_matrix:
extends: .job_on_matrix
stage: jobs-stage-2
variables:
# We run 2 jobs on 1 node that has 112 threads
THREADS: 48
# These modules need to be consistent with the uberenv configurations:
MODULE_LIST: "gcc/10.3.1-magic cuda/12.9.1"
allocate_resources:
timeout: 4h
opt_mpi_cuda_gcc:
extends: .mfem_job_on_matrix
variables:
SPEC: "%gcc@10.3.1 +mpi +cuda cuda_arch=90"
opt_mpi_cuda_hypre_cuda_gcc:
extends: .mfem_job_on_matrix
variables:
SPEC: "%gcc@10.3.1 +mpi +cuda cuda_arch=90 ^hypre+cuda"
-20
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@@ -1,20 +0,0 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# Jobs report
report_job_success:
extends: [.on_tioga, .report_job_success]
stage: jobs-stage-3
report_job_failure:
extends: [.on_tioga, .report_job_failure]
stage: jobs-stage-3
-70
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@@ -1,70 +0,0 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# Override reproducer section to define UMPIRE specific variables.
.tioga_reproducer_vars:
script:
- !reference [.reproducer_vars, script]
#TODO: Setup script should be defined as a bash script (but then GIT_STRATEGY cannot be "none" anymore).
# Setup clones the mfem/data repo in ${SHARED_REPOS_DIR}. The build_and_test
# script then symlinks the repo to the parent directory of the MFEM source
# directory. Unit tests that depend on the mfem/data repo will then detect that
# this directory is present and be enabled.
setup:
extends: .on_tioga
stage: jobs-stage-1
script:
- ./tests/gitlab/build_and_test_setup
########################
# Overridden shared jobs
########################
# When using shared jobs , we can duplicate them here to override description and add necessary changes.
# We keep ${PROJECT_<MACHINE>_VARIANTS} and ${PROJECT_<MACHINE>_DEPS} So that
# the comparison with the original job is easier.
############
# Extra jobs
############
# We do not recommend using ${PROJECT_<MACHINE>_VARIANTS} and
# ${PROJECT_<MACHINE>_DEPS} in the extra jobs. There is not reason not to fully
# describe the spec here.
# Build and test jobs, simply provide a spec
#.tioga_job_command:
# script:
# - echo PROXY="${PROXY}"
# - echo TIOGA_JOB_ALLOC="${TIOGA_JOB_ALLOC}"
# - "printf '#!/bin/bash\n%s\n' \"${JOB_CMD}\" > flux_script.sh"
# - cat flux_script.sh
# - ${PROXY} flux watch $( ${PROXY} flux batch -o output.stdout.type=kvs ${TIOGA_JOB_ALLOC} flux_script.sh )
# - rm -f flux_script.sh
.mfem_job_on_tioga:
extends: .job_on_tioga
stage: jobs-stage-2
variables:
# We run 1 job on 1 node that has 64 threads
THREADS: 64
opt_mpi_rocm_hypre_rocm:
extends: .mfem_job_on_tioga
variables:
SPEC: "%rocmcc@=6.3.1 +rocm amdgpu_target=gfx90a ^hypre+rocm"
# cce_16_0_1:
# extends: .mfem_job_on_tioga
# variables:
# SPEC: "%cce@=16.0.1"
+44
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@@ -0,0 +1,44 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
stages:
- setup
- build_and_test
- report
opt_mpi_cuda_gcc:
variables:
SPEC: "%gcc@8.3.1 +mpi +cuda cuda_arch=70"
extends: .build_and_test_on_lassen
opt_mpi_cuda_hypre_cuda_gcc:
variables:
SPEC: "%gcc@8.3.1 +mpi +cuda cuda_arch=70 ^hypre+cuda~shared cuda_arch=70"
extends: .build_and_test_on_lassen
# Jobs report
report_job_success:
stage: report
extends:
- .on_lassen
- .report_job_success
report_job_failure:
stage: report
extends:
- .on_lassen
- .report_job_failure
include:
- local: .gitlab/configs/common.yml
- local: .gitlab/configs/lassen-config.yml
- local: .gitlab/configs/setup-build-and-test.yml
- local: .gitlab/configs/report-build-and-test.yml
+3 -1
View File
@@ -32,9 +32,11 @@ mkdir _${BASELINE_TEST} && cd _${BASELINE_TEST}
# run
if [[ "${MACHINE_NAME}" == "dane" ]]; then
salloc --nodes=1 -t 60 --exclusive --reservation=ci ../runtest ../../mfem "${BASELINE_TEST} ${TPLS_DIR}"
salloc --nodes=1 --exclusive --reservation=ci ../runtest ../../mfem "${BASELINE_TEST} ${TPLS_DIR}"
elif [[ ${MACHINE_NAME} == "corona" ]]; then
salloc --nodes=1 -t 60 -p pbatch ../runtest ../../mfem "${BASELINE_TEST} ${TPLS_DIR}"
elif [[ ${MACHINE_NAME} == "lassen" ]]; then
lalloc 1 -q pci ../runtest ../../mfem "${BASELINE_TEST} ${TPLS_DIR}"
else
echo "Unknown machine: MACHINE_NAME=$MACHINE_NAME"
exit 1
-118
View File
@@ -1,118 +0,0 @@
#!/bin/bash
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
function info_msg ()
{
echo "[Information:] ${1}"
}
function error_msg ()
{
echo "[Error:] ${1}"
}
# Perform a report while holding a lock file to prevent concurrency on
# the destination.
# Usage:
# locked_clone <report_function> <lock_name>
function locked_report ()
{
if ! command -v flock
then
error_msg "Required command 'flock' not found"
exit 1
fi
info_msg "Will report ${1} while holding a lock in ${2}"
( date; info_msg "Waiting to acquire lock on '${PWD}/${2}.lock' ..."
# try to get an exclusive lock on fd 9 (mfem-data.lock) repeating the
# try every 5 seconds; we may want to add a counter for the number of
# retries to interrupt a potential infinite loop
while ! flock -n 9; do sleep 5; done
date; info_msg "Acquired lock on '${PWD}/${2}.lock'"
report ${1}
err=$?
# sleep for a period to allow NFS to propagate the above changes;
# clearly, there is no guarantee that other NFS clients will see the
# changes even after the timeout
sleep 10
exit $err
) 9> ${2}.lock
}
function report ()
{
if [[ "${1}" == "SUCCESS" ]]
then
info_msg "All the ${MACHINE_NAME} jobs passed"
status_msg="The 'build-and-test' jobs on ${MACHINE_NAME} were SUCCESSFUL."
elif [[ "${1}" == "FAILURE" ]]
then
info_msg "At least one failure on ${MACHINE_NAME}"
status_msg="Some 'build-and-test' jobs on ${MACHINE_NAME} FAILED."
else
error_msg "Unknown status: ${1} ... aborting"
exit 1
fi
cd ${AUTOTEST_ROOT}/autotest || \
{ error_msg "Invalid 'autotest' dir: ${AUTOTEST_ROOT}/autotest"; exit 1; }
mkdir -p ${MACHINE_NAME}
rundir="${MACHINE_NAME}/$(date +%Y-%m-%d)-gitlab-ci-${CI_COMMIT_REF_SLUG}"
rundir=$(${CI_PROJECT_DIR}/.gitlab/scripts/safe_create_rundir $rundir)
printf "%s\n" "${status_msg}" \
"Pipeline URL:" "$CI_PIPELINE_URL" > ${rundir}/gitlab.err
msg="GitLab CI log for build-and-test on ${MACHINE_NAME} ($(date +%Y-%m-%d))"
if [[ "${1}" == "FAILURE" ]]
then
# Create 'autotest-email.html' to indicate failure:
cp ${rundir}/gitlab.err ${rundir}/autotest-email.html
fi
# Note: in some cases, the content of AUTOTEST_COMMIT can be
# '${AUTOTEST_COMMIT}', so we need to treat that value as the default
# value of 'ON'.
if [[ "$AUTOTEST_COMMIT" == '${AUTOTEST_COMMIT}' ]]; then
AUTOTEST_COMMIT="ON"
fi
if [[ "$AUTOTEST_COMMIT" == "ON" || "$AUTOTEST_COMMIT" == "YES" ]]; then
git pull && \
git add ${rundir} && \
git commit -m "${msg}" && \
${CI_PROJECT_DIR}/.gitlab/scripts/git_try_to_push
else
for file in ${rundir}/*; do
echo "------------------------------"
echo "Content of '$file'"
echo "******************************"
cat $file
echo "******************************"
done
rm -rf ${rundir} || true
fi
}
export MACHINE_NAME=${CI_MACHINE}
info_msg "MACHINE_NAME is ${MACHINE_NAME}"
info_msg "AUTOTEST_ROOT is ${AUTOTEST_ROOT}"
info_msg "AUTOTEST=$AUTOTEST"
info_msg "AUTOTEST_COMMIT=$AUTOTEST_COMMIT"
cd ${AUTOTEST_ROOT} && locked_report ${1} autotest
+45
View File
@@ -0,0 +1,45 @@
#!/bin/bash
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
echo "Runs if there was at least one failure on ${MACHINE_NAME}"
cd ${AUTOTEST_ROOT}/autotest || \
{ echo "Invalid 'autotest' dir: ${AUTOTEST_ROOT}/autotest"; exit 1; }
mkdir -p ${MACHINE_NAME}
rundir="${MACHINE_NAME}/$(date +%Y-%m-%d)-gitlab-ci-${CI_COMMIT_REF_SLUG}"
rundir=$(${CI_PROJECT_DIR}/.gitlab/scripts/safe_create_rundir $rundir)
printf "%s\n" "Some 'build-and-test' jobs on ${MACHINE_NAME} FAILED." \
"Pipeline URL:" "$CI_PIPELINE_URL" > ${rundir}/gitlab.err
msg="GitLab CI log for build-and-test on ${MACHINE_NAME} ($(date +%Y-%m-%d))"
# Create 'autotest-email.html' to indicate failure:
cp ${rundir}/gitlab.err ${rundir}/autotest-email.html
if [[ "$AUTOTEST_COMMIT" != "NO" ]]; then
git pull && \
git add ${rundir} && \
git commit -m "${msg}" && \
${CI_PROJECT_DIR}/.gitlab/scripts/git_try_to_push
else
for file in ${rundir}/*; do
echo "------------------------------"
echo "Content of '$file'"
echo "******************************"
cat $file
echo "******************************"
done
rm -rf ${rundir} || true
fi
+42
View File
@@ -0,0 +1,42 @@
#!/bin/bash
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
echo "Can only run if all the ${MACHINE_NAME} jobs passed"
cd ${AUTOTEST_ROOT}/autotest || \
{ echo "Invalid 'autotest' dir: ${AUTOTEST_ROOT}/autotest"; exit 1; }
mkdir -p ${MACHINE_NAME}
rundir="${MACHINE_NAME}/$(date +%Y-%m-%d)-gitlab-ci-${CI_COMMIT_REF_SLUG}"
rundir=$(${CI_PROJECT_DIR}/.gitlab/scripts/safe_create_rundir $rundir)
printf "%s\n" "The 'build-and-test' jobs on ${MACHINE_NAME} were SUCCESSFUL." \
"Pipeline URL:" "$CI_PIPELINE_URL" > ${rundir}/gitlab.out
msg="GitLab CI log for build-and-test on ${MACHINE_NAME} ($(date +%Y-%m-%d))"
if [[ "$AUTOTEST_COMMIT" != "NO" ]]; then
git pull && \
git add ${rundir} && \
git commit -m "${msg}" && \
${CI_PROJECT_DIR}/.gitlab/scripts/git_try_to_push
else
for file in ${rundir}/*; do
echo "------------------------------"
echo "Content of '$file'"
echo "******************************"
cat $file
echo "******************************"
done
rm -rf ${rundir} || true
fi
-130
View File
@@ -1,130 +0,0 @@
# Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
# at the Lawrence Livermore National Laboratory. All Rights reserved. See files
# LICENSE and NOTICE for details. LLNL-CODE-806117.
#
# This file is part of the MFEM library. For more information and source code
# availability visit https://mfem.org.
#
# MFEM is free software; you can redistribute it and/or modify it under the
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# The template job to test whether a machine is up.
# Expects CI_MACHINE defined to machine name.
.machine-check:
stage: prerequisites
tags: [shell, oslic]
variables:
GIT_STRATEGY: none
script:
- |
if [[ $(jq '.[env.CI_MACHINE].total_nodes_up' /usr/global/tools/lorenz/data/loginnodeStatus) == 0 ]]
then
echo -e "\e[31mNo node available on ${CI_MACHINE}\e[0m"
false && \
curl --url "https://api.github.com/repos/${GITHUB_PROJECT_ORG}/${GITHUB_PROJECT_NAME}/statuses/${CI_COMMIT_SHA}" \
--header 'Content-Type: application/json' \
--header "authorization: Bearer ${GITHUB_TOKEN}" \
--data "{ \"state\": \"failure\", \"target_url\": \"${CI_PIPELINE_URL}\", \"description\": \"GitLab ${CI_MACHINE} down\", \"context\": \"ci/gitlab/${CI_MACHINE}\" }"
exit 1
fi
###
# Trigger a build-and-test pipeline for a machine.
# Comment the jobs for machines you dont need.
###
# One job to generate the job list for all the subpipelines
generate-job-lists:
stage: prerequisites
tags: [shell, oslic]
variables:
LOCAL_JOBS_PATH: ".gitlab/jobs"
script:
- |
echo "AUTOTEST=$AUTOTEST"
echo "AUTOTEST_COMMIT=$AUTOTEST_COMMIT"
echo "AUTOTEST_ROOT=$AUTOTEST_ROOT"
- |
cat ${LOCAL_JOBS_PATH}/dane.yml > dane-jobs.yml
if [[ ${AUTOTEST} == "ON" || ${AUTOTEST} == "YES" ]]
then
cat ${LOCAL_JOBS_PATH}/dane-reports.yml >> dane-jobs.yml
fi
- |
cat ${LOCAL_JOBS_PATH}/matrix.yml > matrix-jobs.yml
if [[ ${AUTOTEST} == "ON" || ${AUTOTEST} == "YES" ]]
then
cat ${LOCAL_JOBS_PATH}/matrix-reports.yml >> matrix-jobs.yml
fi
- |
cat ${LOCAL_JOBS_PATH}/tioga.yml > tioga-jobs.yml
if [[ ${AUTOTEST} == "ON" || ${AUTOTEST} == "YES" ]]
then
cat ${LOCAL_JOBS_PATH}/tioga-reports.yml >> tioga-jobs.yml
fi
artifacts:
paths:
- dane-jobs.yml
- matrix-jobs.yml
- tioga-jobs.yml
# DANE
dane-up-check:
variables:
CI_MACHINE: "dane"
extends: [.machine-check]
dane-build-and-test:
variables:
CI_MACHINE: "dane"
needs: [dane-up-check, generate-job-lists]
extends: [.build-and-test]
# DANE, MFEM Specific
dane-baseline:
stage: test-pipelines
variables:
# Explicitly pass down values that are not always propagated to child
# pipelines, e.g. when a variable is set in the "Settings -> CI" web
# interface (project variables).
# Note: in some cases, this does not work as expected, e.g. when the
# variable is not re-defined in the web interface; in such cases, the child
# pipeline gets a definition like '${AUTOTEST}', i.e. it behaves as if
# AUTOTEST is undefined, even though there is a default value in
# .gitlab-ci.yml.
AUTOTEST: "${AUTOTEST}"
AUTOTEST_COMMIT: "${AUTOTEST_COMMIT}"
trigger:
include: .gitlab/dane-baseline.yml
strategy: depend
forward:
pipeline_variables: true
needs: [dane-up-check]
# TIOGA
tioga-up-check:
variables:
CI_MACHINE: "tioga"
extends: [.machine-check]
tioga-build-and-test:
variables:
CI_MACHINE: "tioga"
needs: [tioga-up-check, generate-job-lists]
extends: [.build-and-test]
# Matrix
matrix-up-check:
variables:
CI_MACHINE: "matrix"
extends: [.machine-check]
matrix-build-and-test:
variables:
CI_MACHINE: "matrix"
needs: [matrix-up-check, generate-job-lists]
extends: [.build-and-test]
+60 -170
View File
@@ -8,32 +8,9 @@
https://mfem.org
Version 4.9.1 (development)
Version 4.8.1 (development)
===========================
Discretization improvements
---------------------------
- Improved the gridfunction projection routines. Projections work for Scalar,
Vector and VectorFE, also NURBS versions. Optionally different types of
projections can be selected, default behaviour has not changed.
- Added methods to estimate function extremum using piecewise linear bounds +
recursive subdivision.
Meshing improvements
--------------------
- Improved support for 1D NURBS meshes with variable order, including using
the patches construct for 1D NURBS meshes.
New and updated examples and miniapps
-------------------------------------
- Electromagnetics/lorentz miniapp has been updated to leverage the ParticleSet
capability.
Version 4.9, released on Dec 11, 2025
=====================================
Starting with this version, MFEM requires a C++17 compiler.
Discretization improvements
@@ -42,149 +19,70 @@ Discretization improvements
nonlinear finite element operators, based on Enzyme or dual numbers AD at
quadrature points. These features are part of the new mfem::future namespace
and some of the API can change in the future. See the new dFEM minimal surface
miniapp in the miniapps/dfem/ directory for illustration of dFEM's use. Using
Enzyme for AD in MFEM is tested with clang v19 and requires clang/LLVM built
with plugin support. See INSTALL for more details.
miniapp in the miniapps/dfem/ directory for illustration of dFEM's use.
- Introduced initial support for particle methods in MFEM with new classes
Particle, ParticleSet and ParticleVector.
* Particle is a convenient interface for individual particle data.
* ParticleSet manages and stores particle data in a struct-of-arrays form,
carrying particle coordinates and IDs along with an arbitrary number of
Vector and integer data for each particle.
* ParticleVector is a Vector-derived container that stores vector data for an
arbitrary number of particles contiguously based on specified vdim/ordering.
See the new particle miniapps in miniapps/gslib/ and miniapps/fluids/navier/.
- Added a new miniapp and specialized AMG solver (AMGF) for optimization-based
contact mechanics. The miniapp solves large-scale frictionless contact using a
self-contained Interior Point (IP) solver, mortar-based contact constraints
provided by Tribol. The resulting linear systems are solved with the new AMGF
solver (see below). Benchmark examples include the two-block, ironing, and
beam-sphere problems. See the miniapps/contact/ directory.
- Added support for boundary integration to the hyperbolic framework. Two new
classes BdrHyperbolicDirichletIntegrator and BoundaryHyperbolicFlowIntegrator
have been introduced for implementation of weak Dirichlet boundary conditions
with a general flux or for the linear case respectively.
- Added a method to compute piecewise linear bounds on high-order functions on
tensor-product elements.
- Added support for interior face integration enabling DG methods in
ParMixedBilinearForm, ParNonlinearForm and ParBlockNonlinearForm.
- Using Enzyme for AD in MFEM is tested with clang v19 and requires clang/LLVM
built with plugin support. See INSTALL for more details.
- In the ParMoonolith integration, added support for variational resampling of
H1 vector fields.
- Introduced IMEX ODE solvers based on a split-operator framework. Added
examples ex41 and ex41p demonstrating IMEX DG/CG discretizations of the
convectiondiffusion equation, with ex41p using DG LOR preconditioning.
- Added support for boundary integration to the hyperbolic framework. In this
regard, new classes `BdrHyperbolicDirichletIntegrator` and
`BoundaryHyperbolicFlowIntegrator` have been introduced for implementation
of weak Dirichlet boundary conditions with a general flux or for the linear
case respectively.
- Added method to compute piecewise linear bounds on high-order functions on
tensor-product elements.
- Parallel anisotropic refinement of hexahedral meshes is now supported,
provided that neighboring hexahedra are not refined in conflicting directions.
A new ParMesh method is added to check for such conflicts, before refinement.
Meshing improvements
--------------------
- The TMOP kernel hierarchy has been restructured to reduce compilation time.
Most large kernels have been split into smaller specific kernels for each
metric. The directory structure has been updated with assemble, metrics, mult
and tools subdirectories. New kernel dispatch and specialization system has
also been integrated. Unit tests have been revised to ensure --all tests pass.
- Introduced NC-patch NURBS meshes, which are conforming element-wise but allow
for nonconforming patch topology. This new mesh format supports element
spacing formulas for refinement, as well as local refinement factors for a
subset of knot vectors.
- Added support for higher order meshes in Mesh::MakeSimplicial and
ParMesh::MakeSimplicial.
- Added a new miniapp for interpolating a surface grid of points in 3D using a
smooth NURBS surface, that can then be sampled at arbitrary resolution while
staying close to the original geometry. See miniapps/nurbs/nurbs_surface.
- Parallel anisotropic refinement of hexahedral meshes is now supported,
provided that neighboring hexahedra are not refined in conflicting directions.
A new ParMesh method is added to check for such conflicts, before refinement.
- Added support for higher order meshes in (Par)Mesh::MakeSimplicial.
Linear and nonlinear solvers
----------------------------
- Added FilteredSolver: a base class for solvers with filtering. It handles
cases where a solver performs well except in small subspaces, by adding a
filtering step formulated as a subspace correction.
- Added AMGFSolver: a derived class of FilteredSolver, specialized for AMG with
Filtering (AMGF), providing robust preconditioning for linear systems arising
in constrained optimization problems such as frictionless contact.
Added 'GetResiduals' and 'GetFinalAbsResidualNorm' to 'HyprePCG',
'HypreGMRES', and 'HypreFGMRES' to get 'r' and '|r|_p'. Note that the latter
computes '|r|_p' from 'r' instead of returning a cached value like the
relative 'GetFinalResidualNorm'. These require Hypre >= 2.15.0.
Changed the default solver parameters for 'HyprePCG' to 'tol=1e-6' and
'max_iter=1000'. This matches the default parameters in Hypre 3.0.
Added various helper functions for querying/modifying Hypre solvers:
'HypreSmoother::GetType', 'HypreSmoother::GetSOROptions',
'HypreSmoother::GetPolyOptions', 'HypreSmoother::GetWindowParameters',
'HypreSmoother::IsOperatorSymmetric', 'HyprePCG::GetTol',
'HyprePCG::GetAbsTol', 'HyprePCG::GetMaxIter', 'HyprePCG::SetUseTwoNorm',
'HypreGMRES::GetTol', 'HypreGMRES::GetAbsTol', 'HypreGMRES::GetMaxIter',
'HypreGMRES::GetKDim', 'HypreFGMRES::GetTol', 'HypreFGMRES::GetMaxIter',
'HypreFGMRES::GetKDim', and 'HypreBoomerAMG::GetMaxIter'.
GPU computing
-------------
- Added the 'gpu', 'raja-gpu', and 'ceed-gpu' backend aliases/shortcuts which
automatically select between CUDA or HIP.
- Added the option to enable GPU-aware MPI in MFEM using the environment
variable 'MFEM_GPU_AWARE_MPI' set to any value. Setting this environment
variable is an alternative to calling 'Device::SetGPUAwareMPI(true)'.
- Implemented a GPU-accelerated matrix-free AMR derefinement GridFunction update
operator. This supports mixed geometry meshes and variable order spaces, and
is the default derefinement operator constructed by FiniteElementSpace::Update
and ParFiniteElementSpace::Update. The operator requires the finite element
space to be nonconforming.
- The function Vector::SetSubVector(const Array<int> &, const real_t) now
executes on device if either the vector or the array have the device flag
set. This is most often used for setting constant essential boundary
conditions. A new function Vector::SetSubVectorHost has been added in cases
where host execution is always needed (e.g. when the DOFs array is small).
- Introduced MFEM_FOREACH_THREAD_DIRECT, which directly maps loop tasks to GPU
threads, assigning one task per thread.
- The function Vector::SetSubVector(const Array<int> &, const real_t) now
executes on device if either the vector or the array have the device flag
set. This is most often used for setting constant essential BCs. A new method,
SetSubVectorHost, has been added for cases where host execution is always
needed (e.g. when the DOFs array is small).
- Added GPU support in GradientGridFunction and InnerProduct Coefficient classes
by implementing their Project methods.
- Implemented a GPU-accelerated matrix-free AMR derefinement `GridFunction`
update operator. This supports mixed geometry meshes and variable order
spaces, and is the default derefinement operator constructed by
`FiniteElementSpace::Update` and `ParFiniteElementSpace::Update`.
The operator requires `FiniteElementSpace::Nonconforming() == true`.
- Added new method: GridFunction::GetGradients, with GPU support, for computing
the gradients of a GridFunction on all elements.
- The CUDA-specific names used by some of the unit tests like 'cunit_tests' and
'pcunit_tests' were replaced by names using 'gpu' instead of 'c' (short for
CUDA) or 'cuda'. These tests automatically run the CUDA/HIP tests based on the
MFEM build configuration.
- Added GPU support in GradientGridFunctionCoefficient and
InnerProductCoefficient by implementing their Project methods.
New and updated examples and miniapps
-------------------------------------
- Added the miniapps/fluids directory and moved the previous Navier and the new
incompressible Schrödinger flow miniapps into it.
- Introduced the new Incompressible Schrödinger Flow (ISF) miniapp, which models
inviscid fluid dynamics by solving the linear Schrödinger equation, leveraging
the hydrodynamical analogy to quantum mechanics.
- New particle-related miniapps:
* New transient Navier-Stokes fluid-particles solver NavierParticles in
miniapps/fluids/navier/navier_particles, for modeling tracer particles in
fluid flow, demonstrating use of the new ParticleSet class.
* New Navier miniapp, miniapps/fluids/navier/navier_bifurcation, showing the
use of NavierParticles in a 2D bifurcating channel flow.
* New FindPointsGSLIB miniapp, miniapps/gslib/particles_redist, showing
parallel-redistribution of particle data between MPI ranks.
* Particle visualization features in common/particles_extras for viewing
particle locations and trajectories (ParticleTrajectories) using GLVis.
- Added miniapps to demonstrate an implementation of the absolute-value
L(1)-Jacobi preconditioners in partially assembled operators. This includes
Multigrid wrapper to demonstrate the effectiveness of these Jacobi-type
operators as smoothers.
These miniapps can be found in `miniapps/diag-smoothers`.
- Added a new miniapp (meshing/mesh-bounding-boxes) that computes the bounding
boxes for each element of a given mesh, and the bounds on the determinant of
@@ -197,44 +95,36 @@ New and updated examples and miniapps
of a charged particle, subject to Lorentz forces, in electrostatic and/or
magnetostatic fields as computed by the volta or tesla miniapps.
- Added miniapps to demonstrate an implementation of the absolute-value
l1-Jacobi preconditioners in partially assembled operators. This includes
Multigrid wrapper to demonstrate the effectiveness of these Jacobi-type
operators as smoothers. See the miniapps/diag-smoothers/ directory.
- Updated the mtop miniapp with a GPU enabled forward and adjoint solver for
isotropic linear elasticity.
Miscellaneous
-------------
- Introduced MFEM_FETCH_TPLS CMake option to enable downloading, configuring,
and building of TPLs alongside MFEM (currently supported TPLs are hypre,
METIS, and GSLIB).
- Added quadrature function support to the VisIt and Conduit data collections.
- Added access to the internal parallel matrix in Par(Mixed)BilinearForm and
related utility methods for elimination of BCs.
- FindPointsGSLIB has a new constructor that accepts the mesh object and
internally calls the Setup() method so users do not have to. The FreeData()
method has also been moved to the destructor so users do not need to manually
free-up the memory if the destructor is called before MPI_Finalize().
- Added parallel Address Sanitizer, serial and parallel Undefined Behavior
Sanitizer and serial Memory Sanitizer GitHub actions tests on Ubuntu.
API changes
API changes:
-----------
- mfem::internal::tensor and mfem::internal::dual have been moved to
mfem::future::tensor and mfem::future::dual.
- API addition: in class Operator, added virtual functions: AbsMult, and
AbsMultTranspose; in class Vector, added Abs and Pow.
- API addition: in class `Operator`, added virtual functions: `AbsMult`, and
`AbsMultTranspose`; in class `Vector`, added `Abs` and `Pow`.
- ParBilinearForm::EliminateEssentialVDofsInRhs() has been deprecated in favor
of ParallelEliminateEssentialTDofsInRhs().
Miscellaneous
-------------
- Added the "gpu", "raja-gpu", and "ceed-gpu" backend aliases/shortcuts which
automatically select between CUDA or HIP.
- The CUDA-specific names used by some of the unit tests like 'cunit_tests' and
'pcunit_tests' were replaced by names using 'gpu' instead of 'c' (short for
CUDA) or 'cuda'. These tests automatically run the CUDA/HIP tests based on the
MFEM build configuration.
- Added the option to enable GPU-aware MPI in MFEM using the environment
variable 'MFEM_GPU_AWARE_MPI' set to any value. Setting this environment
variable is an alternative to calling 'Device::SetGPUAwareMPI(true)'.
- Added parallel Address Sanitizer, serial and parallel Undefined Behavior
Sanitizer and serial Memory Sanitizer GitHub actions tests on Ubuntu.
- FindPointsGSLIB has a new constructor that accepts the mesh object and
internally calls the Setup() method so that the user does not have to.
The FreeData() method has also been moved to the destructor so the user does
not need to manually free-up the memory if the destructor is called before
MPI_Finalize().
Version 4.8, released on Apr 9, 2025
====================================
+31 -74
View File
@@ -59,7 +59,7 @@ project(mfem NONE)
# Current version of MFEM, see also `makefile`.
# mfem_VERSION = (string)
# MFEM_VERSION = (int) [automatically derived from mfem_VERSION]
set(${PROJECT_NAME}_VERSION 4.9.1)
set(${PROJECT_NAME}_VERSION 4.8.1)
# Prohibit in-source build
if (${PROJECT_SOURCE_DIR} STREQUAL ${PROJECT_BINARY_DIR})
@@ -133,49 +133,33 @@ if (MFEM_USE_CUDA)
if (NOT CMAKE_CUDA_HOST_COMPILER)
set(CMAKE_CUDA_HOST_COMPILER ${CMAKE_CXX_COMPILER})
endif()
if (NOT CMAKE_CUDA_ARCHITECTURES)
# make CUDA_ARCH resemble the same form as CMAKE_CUDA_ARCHITECTURES
string(REPLACE "sm_" "" CUDA_ARCH_TMP "${CUDA_ARCH}")
string(REPLACE "," ";" CUDA_ARCH "${CUDA_ARCH_TMP}")
set(CMAKE_CUDA_ARCHITECTURES "${CUDA_ARCH}")
if (CMAKE_VERSION VERSION_LESS 3.18.0)
set(CUDA_FLAGS "-arch=${CUDA_ARCH} ${CUDA_FLAGS}")
elseif (NOT CMAKE_CUDA_ARCHITECTURES)
string(REGEX REPLACE "^sm_" "" ARCH_NUMBER "${CUDA_ARCH}")
if ("${CUDA_ARCH}" STREQUAL "sm_${ARCH_NUMBER}")
set(CMAKE_CUDA_ARCHITECTURES "${ARCH_NUMBER}")
else()
message(FATAL_ERROR "Unknown CUDA_ARCH: ${CUDA_ARCH}")
endif()
else()
set(CUDA_ARCH "CMAKE_CUDA_ARCHITECTURES: ${CMAKE_CUDA_ARCHITECTURES}")
endif()
message(STATUS "Using CUDA architecture: ${CUDA_ARCH}")
enable_language(CUDA)
if (CMAKE_VERSION VERSION_LESS 3.18.0)
# backup try to detect if this is clang or nvcc
if(CMAKE_CUDA_COMPILER MATCHES "nvcc$")
# nvcc
set(MFEM_CUDA_COMPILER_IS_NVCC ON)
set(CUDA_FLAGS "${CUDA_FLAGS} --expt-extended-lambda --expt-relaxed-constexpr")
if ("all" STREQUAL "${CMAKE_CUDA_ARCHITECTURES}"
OR "native" STREQUAL "${CMAKE_CUDA_ARCHITECTURES}"
OR "all-major" STREQUAL "${CMAKE_CUDA_ARCHITECTURES}")
set(CUDA_FLAGS "-arch=${CMAKE_CUDA_ARCHITECTURES} ${CUDA_FLAGS}")
else()
# build -gencode sequence for multiple architectures
foreach(ENTRY IN LISTS CMAKE_CUDA_ARCHITECTURES)
set(CUDA_FLAGS
"-gencode arch=compute_${ENTRY},code=sm_${ENTRY} ${CUDA_FLAGS}")
endforeach()
endif()
else()
# build cuda-gpu-arch sequence for multiple architectures
# does not support all/all-major/native
foreach(ENTRY IN LISTS CMAKE_CUDA_ARCHITECTURES)
set(CUDA_FLAGS "-cuda-gpu-arch=sm_${ENTRY} ${CUDA_FLAGS}")
endforeach()
endif()
# backup try to detect if this is clang or nvcc
if(CMAKE_CUDA_COMPILER MATCHES "nvcc$")
# nvcc
set(MFEM_CUDA_COMPILER_IS_NVCC ON)
set(CUDA_FLAGS "${CUDA_FLAGS} --expt-extended-lambda --expt-relaxed-constexpr")
endif()
else()
# TODO: all, native, all-major require CMake 3.24+
# backport support for CMake 3.18 to 3.24
if (CMAKE_CUDA_COMPILER_ID STREQUAL "NVIDIA")
# nvcc
set(MFEM_CUDA_COMPILER_IS_NVCC ON)
set(CUDA_FLAGS
"${CUDA_FLAGS} --expt-extended-lambda --expt-relaxed-constexpr")
endif()
if (CMAKE_CUDA_COMPILER_ID STREQUAL "NVIDIA")
# nvcc
set(MFEM_CUDA_COMPILER_IS_NVCC ON)
set(CUDA_FLAGS "${CUDA_FLAGS} --expt-extended-lambda --expt-relaxed-constexpr")
endif()
endif()
set(CMAKE_CUDA_STANDARD ${CMAKE_CXX_STANDARD} CACHE STRING
"CUDA standard to use.")
@@ -258,16 +242,10 @@ endif()
# AMD HIP
if (MFEM_USE_HIP)
if (NOT CMAKE_HIP_ARCHITECTURES)
if (HIP_ARCH)
set(CMAKE_HIP_ARCHITECTURES CACHE STRING "HIP targets to compile for" "${HIP_ARCH}")
set(GPU_TARGETS "${HIP_ARCH}" CACHE STRING "HIP targets to compile for" FORCE)
endif()
else()
set(HIP_ARCH CACHE STRING "HIP targets to compile for" "${CMAKE_HIP_ARCHITECTURES}")
set(GPU_TARGETS "${CMAKE_HIP_ARCHITECTURES}" CACHE STRING "HIP targets to compile for" FORCE)
if (HIP_ARCH)
message(STATUS "Using HIP architecture: ${HIP_ARCH}")
set(GPU_TARGETS "${HIP_ARCH}" CACHE STRING "HIP targets to compile for")
endif()
message(STATUS "Using HIP architecture: ${CMAKE_HIP_ARCHITECTURES}")
if (ROCM_PATH)
list(INSERT CMAKE_PREFIX_PATH 0 ${ROCM_PATH})
endif()
@@ -300,19 +278,8 @@ if (MFEM_USE_OPENMP OR MFEM_USE_LEGACY_OPENMP)
endif()
endif()
# Warn user if deprecated FETCH_TPLS is provided
if (DEFINED FETCH_TPLS)
message(STATUS "Setting MFEM_FETCH_TPLS to user-provided value of FETCH_TPLS (i.e., MFEM_FETCH_TPLS=${FETCH_TPLS})")
set (MFEM_FETCH_TPLS FETCH_TPLS)
message(DEPRECATION "The use of FETCH_TPLS is deprecated and will be removed in future verison. Please use MFEM_FETCH_TPLS instead.")
endif()
# Umpire (must be included before hypre, so hypre can use it if needed)
# Umpire (must be included before hypre, so hypre can use it if needed)
if (MFEM_USE_UMPIRE)
# umpire uses FindCUDA, which needs CMP0146=OLD in CMake >= 3.27
if (CMAKE_VERSION VERSION_GREATER_EQUAL 3.27.0)
cmake_policy(SET CMP0146 OLD)
endif()
find_package(UMPIRE REQUIRED)
endif()
@@ -652,8 +619,6 @@ foreach(TPL IN LISTS MFEM_TPLS)
endif()
endforeach(TPL)
# reverse to remove the first instance of entries in TPL_LIBRARIES
# so later duplicates are kept (for dependency ordering)
list(REVERSE TPL_LIBRARIES)
list(REMOVE_DUPLICATES TPL_LIBRARIES)
list(REVERSE TPL_LIBRARIES)
@@ -725,7 +690,6 @@ set(MFEM_INSTALL_DIR ${CMAKE_INSTALL_PREFIX})
# Declaring the library
mfem_add_library(mfem ${SOURCES} ${HEADERS} ${MASTER_HEADERS})
target_compile_features(mfem PUBLIC cxx_std_${CMAKE_CXX_STANDARD})
# message(STATUS "TPL_LIBRARIES = ${TPL_LIBRARIES}")
target_link_libraries(mfem PUBLIC ${TPL_LIBRARIES} ${TPL_TARGETS})
if (TPL_TARGETS)
@@ -872,12 +836,11 @@ add_dependencies(exec
# - https://cmake.org/Bug/view.php?id=8438
# Add a target to copy the mfem data directory to the build directory
# Implementable as a single copy_directory_if_different command w/ CMake >= 3.26
file(GLOB DATA_FILES CONFIGURE_DEPENDS ${PROJECT_SOURCE_DIR}/data/*)
add_custom_target(copy_data
COMMAND ${CMAKE_COMMAND} -E make_directory data
COMMAND ${CMAKE_COMMAND} -E copy_if_different ${DATA_FILES} data
COMMENT "Syncing the data directory ...")
add_custom_command(OUTPUT data_is_copied
COMMAND ${CMAKE_COMMAND} -E copy_directory ${PROJECT_SOURCE_DIR}/data data
COMMAND ${CMAKE_COMMAND} -E touch data_is_copied
COMMENT "Copying the data directory ...")
add_custom_target(copy_data DEPENDS data_is_copied)
# Add 'copy_data' as a prerequisite for all executables, if the source and the
# build directories are not the same.
if (NOT ("${PROJECT_SOURCE_DIR}" STREQUAL "${PROJECT_BINARY_DIR}"))
@@ -1009,15 +972,9 @@ install(FILES
install(EXPORT ${PROJECT_NAME_UC}Targets
DESTINATION ${INSTALL_CMAKE_DIR})
# Install the data directory if present, i.e. if the copy_data target is built
install(DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/data
DESTINATION ${MFEM_INSTALL_DIR} OPTIONAL)
#-------------------------------------------------------------------------------
# Create 'config.mk' from 'config.mk.in' for the build and install locations and
# define install rules for 'config.mk' and 'test.mk'
#-------------------------------------------------------------------------------
if (MFEM_USE_CUDA OR MFEM_USE_HIP)
option(MFEM_EXPORT_GPU_CONFIG "Export config.mk for GPU-enabled downstream packages" ON)
endif()
mfem_export_mk_files()
+1 -8
View File
@@ -129,10 +129,6 @@ The MFEM source code has the following structure:
│ ├── moonolith
│ ├── qinterp
│ └── tmop
│ | ├── assemble
│ | ├── metrics
│ | ├── mult
│ | └── tools
├── general
├── linalg
│ ├── batched
@@ -143,19 +139,16 @@ The MFEM source code has the following structure:
│ ├── adjoint
│ ├── autodiff
│ ├── common
│ ├── contact
│ ├── dfem
│ ├── dpg
│ ├── electromagnetics
│ ├── fluids
│ │ ├── navier
│ │ └── schrodinger-flow
│ ├── gslib
│ ├── hdiv-linear-solver
│ ├── hooke
│ ├── meshing
│ ├── mtop
│ ├── multidomain
│ ├── navier
│ ├── nurbs
│ ├── parelag
│ ├── performance
+5 -9
View File
@@ -123,7 +123,7 @@ Parallel build:
Parallel build with fetching of hypre and METIS:
mkdir <mfem-buil-dir> ; cd <mfem-build-dir>
cmake <mfem-source-dir> -DMFEM_USE_MPI=YES -DMFEM_FETCH_TPLS=YES
cmake <mfem-source-dir> -DMFEM_USE_MPI=YES -DFETCH_TPLS=YES
make -j 4
CUDA build:
@@ -725,9 +725,7 @@ The specific libraries and their options are:
URL: https://ginkgo-project.github.io
Options: GINKGO_OPT, GINKGO_LIB, GINKGO_DIR, GINKGO_BUILD_TYPE (Release or
Debug).
Versions: Ginkgo >= 1.9.0. When building Ginkgo with distributed support, a
recent version of the "develop" branch is required (1.11 as defined
in include/ginkgo/config.hpp).
Versions: Ginkgo >= 1.9.0.
- AmgX (optional), used when MFEM_USE_AMGX = YES.
URL: https://github.com/NVIDIA/AMGX
@@ -1083,10 +1081,9 @@ The following options are CMake specific:
MFEM_ENABLE_TESTING - Enable the ctest framework for testing.
MFEM_ENABLE_EXAMPLES - Build all of the examples by default.
MFEM_ENABLE_MINIAPPS - Build all of the miniapps by default.
MFEM_FETCH_TPLS - Enable fetching of all supported third-party libraries.
MFEM_FETCH_GSLIB - Enable fetching of gslib.
MFEM_FETCH_HYPRE - Enable fetching of hypre.
MFEM_FETCH_METIS - Enable fetching of metis.
FETCH_TPLS - Enable fetching of all supported third-party libraries.
HYPRE_FETCH - Enable fetching of hypre.
METIS_FETCH - Enable fetching of metis.
External libraries (CMake):
---------------------------
@@ -1152,7 +1149,6 @@ The MFEM CMake build system also provides fetching (automated building) for the
packages/libraries listed below. Note that when fetching is enabled, any related
auto-detection functionality is disabled.
- GSLIB
- HYPRE
- METIS
+1 -38
View File
@@ -9,47 +9,10 @@
# terms of the BSD-3 license. We welcome feedback and contributions, see file
# CONTRIBUTING.md for details.
# Defines the following variables if fetching of TPLs is disabled (default):
# Defines the following variables:
# - GSLIB_FOUND
# - GSLIB_LIBRARIES
# - GSLIB_INCLUDE_DIRS
# otherwise, the following are defined:
# - GSLIB (imported library target)
if (MFEM_FETCH_GSLIB OR MFEM_FETCH_TPLS)
enable_language(C)
string(TOUPPER "${CMAKE_BUILD_TYPE}" BUILD_TYPE)
set(GSLIB_FETCH_VERSION 1.0.9)
set(GSLIB_C_FLAGS ${CMAKE_C_FLAGS_${BUILD_TYPE}})
if (CMAKE_C_FLAGS)
set(GSLIB_C_FLAGS "${CMAKE_C_FLAGS} ${CMAKE_C_FLAGS_${BUILD_TYPE}}")
endif()
if (BUILD_SHARED_LIBS)
set(GSLIB_C_FLAGS "${GSLIB_C_FLAGS} -fPIC")
endif()
add_library(GSLIB STATIC IMPORTED)
# define external project and create future include directory so it is present
# to pass CMake checks at end of MFEM configuration step
message(STATUS "Will fetch GSLIB ${GSLIB_FETCH_VERSION} to be built with ${GSLIB_C_FLAGS}")
set(PREFIX ${CMAKE_BINARY_DIR}/fetch/gslib)
include(ExternalProject)
ExternalProject_Add(gslib
GIT_REPOSITORY https://github.com/Nek5000/gslib
GIT_TAG v${GSLIB_FETCH_VERSION}
GIT_SHALLOW TRUE
UPDATE_DISCONNECTED TRUE
PREFIX ${PREFIX}
CONFIGURE_COMMAND ""
BUILD_COMMAND cd ${PREFIX}/src/gslib && $(MAKE) clean && $(MAKE) DESTDIR=${PREFIX} MPI=$<BOOL:${MFEM_USE_MPI}> "CFLAGS= ${GSLIB_C_FLAGS}"
INSTALL_COMMAND "")
file(MAKE_DIRECTORY ${PREFIX}/include)
# set imported library target properties
add_dependencies(GSLIB gslib)
set_target_properties(GSLIB PROPERTIES
IMPORTED_LOCATION ${PREFIX}/lib/libgs.a
INTERFACE_INCLUDE_DIRECTORIES ${PREFIX}/include)
return()
endif()
include(MfemCmakeUtilities)
mfem_find_package(GSLIB GSLIB GSLIB_DIR "include" gslib.h "lib" gs
+8 -8
View File
@@ -37,21 +37,21 @@ if (HYPRE_FOUND OR TARGET HYPRE)
endif()
endif()
if (MFEM_FETCH_HYPRE OR MFEM_FETCH_TPLS)
set(HYPRE_FETCH_VERSION 2.33.0)
set(HYPRE_FETCH_TAG "v${HYPRE_FETCH_VERSION}" CACHE STRING "Tag, branch, or commit for HYPRE")
add_library(HYPRE STATIC IMPORTED)
# set options and associated dependencies
if (HYPRE_FETCH OR FETCH_TPLS)
# Collect all HYPRE_ENABLE variables and pass them to hypre, assuming they are BOOL.
set(HYPRE_CMAKE_OPTIONS "")
list(APPEND HYPRE_CMAKE_OPTIONS -DCMAKE_BUILD_TYPE:STRING=${CMAKE_BUILD_TYPE})
# collect all HYPRE_ENABLE variables and pass them to hypre, assuming they are BOOL.
get_cmake_property(all_vars VARIABLES)
foreach(var ${all_vars})
if(var MATCHES "^HYPRE_ENABLE")
list(APPEND HYPRE_CMAKE_OPTIONS "-D${var}:BOOL=${${var}}")
endif()
endforeach()
# process all MFEM_USE variables that impact hypre
set(HYPRE_FETCH_VERSION 2.33.0)
set(HYPRE_FETCH_TAG "v${HYPRE_FETCH_VERSION}" CACHE STRING "Tag, branch, or commit for HYPRE")
add_library(HYPRE STATIC IMPORTED)
# set options and associated dependencies
list(APPEND HYPRE_CMAKE_OPTIONS -DCMAKE_BUILD_TYPE:STRING=${CMAKE_BUILD_TYPE})
if (MFEM_USE_CUDA)
list(APPEND HYPRE_CMAKE_OPTIONS -DHYPRE_ENABLE_CUDA:BOOL=ON -DCMAKE_CUDA_ARCHITECTURES:STRING=${CMAKE_CUDA_ARCHITECTURES})
find_package(CUDAToolkit REQUIRED)
+1 -1
View File
@@ -18,7 +18,7 @@
# - METIS (imported library target)
# - METIS_VERSION_5 (cache variable)
if (MFEM_FETCH_METIS OR MFEM_FETCH_TPLS)
if (METIS_FETCH OR FETCH_TPLS)
set(METIS_FETCH_VERSION 4.0.3)
add_library(METIS STATIC IMPORTED)
# define external project
+17 -89
View File
@@ -701,6 +701,7 @@ endfunction(mfem_find_library)
# Extract compile and link options needed by the given target.
#
function(mfem_get_target_options Target CompileOptsVar LinkOptsVar)
if (NOT TARGET ${Target})
return()
endif()
@@ -798,12 +799,7 @@ function(mfem_get_target_options Target CompileOptsVar LinkOptsVar)
# message(STATUS "Lib = ${Lib}")
# Filter-out generator expressions
if (NOT ("${Lib}" MATCHES "^\\$"))
if(NOT ("${Lib}" STREQUAL "dl"))
list(APPEND LinkOpts "${Lib}")
else()
# for some reason libdl doesn't include the "-l"
list(APPEND LinkOpts "-ldl")
endif()
list(APPEND LinkOpts "${Lib}")
endif()
else()
mfem_get_target_options(${Lib} COpts LOpts)
@@ -892,18 +888,9 @@ function(mfem_export_mk_files)
set(${var} NO)
endif()
endforeach()
if (MFEM_USE_CUDA AND MFEM_EXPORT_GPU_CONFIG)
set(MFEM_CXX ${CMAKE_CUDA_COMPILER})
if(MFEM_CUDA_COMPILER_IS_NVCC)
set(MFEM_HOST_CXX ${CMAKE_CUDA_HOST_COMPILER})
else()
set(MFEM_HOST_CXX ${CMAKE_CXX_COMPILER})
endif()
else()
# mfem doesn't use enable_language(HIP)
set(MFEM_CXX ${CMAKE_CXX_COMPILER})
set(MFEM_HOST_CXX ${CMAKE_CXX_COMPILER})
endif()
# TODO: Add support for MFEM_USE_CUDA=YES
set(MFEM_CXX ${CMAKE_CXX_COMPILER})
set(MFEM_HOST_CXX ${MFEM_CXX})
set(MFEM_CPPFLAGS "")
get_target_property(cxx_std mfem CXX_STANDARD)
# For now, we ignore the setting of the CXX_EXTENSIONS property. If this
@@ -913,50 +900,6 @@ function(mfem_export_mk_files)
string(STRIP
"${cxx_std_flag} ${CMAKE_CXX_FLAGS_${BUILD_TYPE}} ${CMAKE_CXX_FLAGS}"
MFEM_CXXFLAGS)
if(MFEM_EXPORT_GPU_CONFIG)
if (MFEM_USE_CUDA)
set(MFEM_CXXFLAGS "${MFEM_CXXFLAGS} ${CMAKE_CUDA_FLAGS}")
if (MFEM_CUDA_COMPILER_IS_NVCC)
set(MFEM_CXXFLAGS "-x=cu ${MFEM_CXXFLAGS} -ccbin ${CMAKE_CXX_COMPILER} --forward-unknown-to-host-compiler")
# The following intentionally hides CUDA deprecation warnings
foreach(ENTRY IN LISTS CUDAToolkit_INCLUDE_DIRS)
set(MFEM_CXXFLAGS "${MFEM_CXXFLAGS} -isystem ${ENTRY}")
endforeach()
if (CMAKE_VERSION VERSION_GREATER_EQUAL 3.18.0)
# architecture flags not part of CMAKE_CUDA_FLAGS
if ("all" STREQUAL "${CMAKE_CUDA_ARCHITECTURES}"
OR "native" STREQUAL "${CMAKE_CUDA_ARCHITECTURES}"
OR "all-major" STREQUAL "${CMAKE_CUDA_ARCHITECTURES}")
set(MFEM_CXXFLAGS "${MFEM_CXXFLAGS} -arch=${CMAKE_CUDA_ARCHITECTURES}")
else()
foreach (ENTRY IN LISTS CMAKE_CUDA_ARCHITECTURES)
set(MFEM_CXXFLAGS
"${MFEM_CXXFLAGS} -gencode arch=compute_${ENTRY},code=sm_${ENTRY}")
endforeach()
endif()
endif()
else()
set(MFEM_CXXFLAGS "${MFEM_CXXFLAGS} -xcuda --cuda-path=${CUDAToolkit_LIBRARY_ROOT}")
if (CMAKE_VERSION VERSION_GREATER_EQUAL 3.18.0)
# architecture flags not part of CMAKE_CUDA_FLAGS
if ("all" STREQUAL "${CMAKE_CUDA_ARCHITECTURES}"
OR "native" STREQUAL "${CMAKE_CUDA_ARCHITECTURES}"
OR "all-major" STREQUAL "${CMAKE_CUDA_ARCHITECTURES}")
# TODO: not supported
else()
foreach(ENTRY IN LISTS CMAKE_CUDA_ARCHITECTURES)
set(MFEM_CXXFLAGS "-cuda-gpu-arch=sm_${ENTRY} ${MFEM_CXXFLAGS}")
endforeach()
endif()
endif()
endif()
elseif (MFEM_USE_HIP)
set(MFEM_CXXFLAGS "${MFEM_CXXFLAGS} -xhip")
foreach(ENTRY IN LISTS CMAKE_HIP_ARCHITECTURES)
set(MFEM_CXXFLAGS "--offload-arch=${ENTRY} ${MFEM_CXXFLAGS}")
endforeach()
endif()
endif()
set(MFEM_TPLFLAGS "")
foreach(dir ${TPL_INCLUDE_DIRS})
set(MFEM_TPLFLAGS "${MFEM_TPLFLAGS} -I${dir}")
@@ -987,9 +930,6 @@ function(mfem_export_mk_files)
set(MFEM_SHARED NO)
set(MFEM_STATIC YES)
endif()
if (MFEM_USE_CUDA)
set(MFEM_EXT_LIBS "${MFEM_EXT_LIBS} -lcudart")
endif()
set(MFEM_BUILD_TAG "${CMAKE_SYSTEM}")
set(MFEM_PREFIX "${CMAKE_INSTALL_PREFIX}")
# For the next 4 variables, these are the values for the build-tree version of
@@ -998,15 +938,8 @@ function(mfem_export_mk_files)
set(MFEM_LIB_DIR "${PROJECT_BINARY_DIR}")
set(MFEM_TEST_MK "${PROJECT_SOURCE_DIR}/config/test.mk")
set(MFEM_CONFIG_EXTRA "MFEM_BUILD_DIR ?= ${PROJECT_BINARY_DIR}")
if (MFEM_USE_CUDA AND MFEM_EXPORT_GPU_CONFIG)
if (MFEM_CUDA_COMPILER_IS_NVCC)
set(MFEM_XLINKER "-Xlinker=")
else()
set(MFEM_XLINKER "${CMAKE_CUDA_LINKER_WRAPPER_FLAG}")
endif()
else()
set(MFEM_XLINKER "${CMAKE_CXX_LINKER_WRAPPER_FLAG}")
endif()
# TODO: CUDA/HIP support:
set(MFEM_XLINKER "${CMAKE_CXX_LINKER_WRAPPER_FLAG}")
set(MFEM_MPIEXEC ${MPIEXEC})
if (NOT MFEM_MPIEXEC)
set(MFEM_MPIEXEC "mpirun")
@@ -1054,21 +987,16 @@ function(mfem_export_mk_files)
# handle interfaces (e.g., SCOREC::apf)
if ("${lib}" MATCHES "SCOREC::.*" OR "${lib}" MATCHES "Ginkgo::.*" OR "${lib}" MATCHES "ParMoonolith::.*")
elseif (TARGET "${lib}")
mfem_get_target_options(${lib} CompileOpts2 LinkOpts2)
# remove generator expressions
string(GENEX_STRIP "${CompileOpts2}" CompileOpts)
string(GENEX_STRIP "${LinkOpts2}" LinkOpts)
mfem_get_target_options(${lib} CompileOpts LinkOpts)
# Removing duplicates may lead to issues:
# list(REMOVE_DUPLICATES CompileOpts)
# list(REMOVE_DUPLICATES LinkOpts)
# message(WARNING "${lib}[LinkOpts]: ${LinkOpts}")
# message(WARNING "${lib}[CompileOpts]: ${CompileOpts}")
foreach(LOpt IN LISTS LinkOpts)
set(MFEM_EXT_LIBS "${MFEM_EXT_LIBS} ${LOpt}")
endforeach()
foreach(COpt IN LISTS CompileOpts)
set(MFEM_TPLFLAGS "${MFEM_TPLFLAGS} ${COpt}")
endforeach()
string(REPLACE ";" " " COpts "${CompileOpts}")
string(REPLACE ";" " " LOpts "${LinkOpts}")
# message(STATUS "${lib}[COpts]: '${COpts}'")
# message(STATUS "${lib}[LOpts]: '${LOpts}'")
set(MFEM_TPLFLAGS "${MFEM_TPLFLAGS} ${COpts}")
set(MFEM_EXT_LIBS "${MFEM_EXT_LIBS} ${LOpts}")
# message(FATAL_ERROR "***** interface lib found ... exiting *****")
# handle static and shared libs
elseif ("${suffix}" STREQUAL "${CMAKE_SHARED_LIBRARY_SUFFIX}")
@@ -1076,7 +1004,7 @@ function(mfem_export_mk_files)
get_filename_component(fullLibName ${lib} NAME_WE)
string(REGEX REPLACE "^lib" "" libname ${fullLibName})
set(MFEM_EXT_LIBS
"${MFEM_EXT_LIBS} ${shared_link_flag}${dir} -L${dir} -l${libname}")
"${MFEM_EXT_LIBS} ${shared_link_flag}${dir} -L${dir} -l${libname}")
else()
set(MFEM_EXT_LIBS "${MFEM_EXT_LIBS} ${lib}")
endif()
@@ -1085,7 +1013,7 @@ function(mfem_export_mk_files)
# Create the build-tree version of 'config.mk'
configure_file(
"${PROJECT_SOURCE_DIR}/config/config.mk.in"
"${PROJECT_BINARY_DIR}/config/config.mk" @ONLY)
"${PROJECT_BINARY_DIR}/config/config.mk")
# Copy 'test.mk' from the source-tree to the build-tree
configure_file(
"${PROJECT_SOURCE_DIR}/config/test.mk"
@@ -1103,7 +1031,7 @@ function(mfem_export_mk_files)
# Create the install-tree version of 'config.mk'
configure_file(
"${PROJECT_SOURCE_DIR}/config/config.mk.in"
"${PROJECT_BINARY_DIR}/config/config-install.mk" @ONLY)
"${PROJECT_BINARY_DIR}/config/config-install.mk")
# Install rules for 'config.mk' and 'test.mk'
install(FILES ${PROJECT_SOURCE_DIR}/config/test.mk
+3 -4
View File
@@ -91,10 +91,9 @@ option(MFEM_ENABLE_BENCHMARKS "Build all of the benchmarks" OFF)
# Allow a user to specify fetching of certain third-party libraries instead of
# searching for existing installations.
option(MFEM_FETCH_TPLS "Enable fetching of all supported third-party libraries" OFF)
option(MFEM_FETCH_GSLIB "Enable fetching of GSLIB" OFF)
option(MFEM_FETCH_HYPRE "Enable fetching of hypre" OFF)
option(MFEM_FETCH_METIS "Enable fetching of METIS" OFF)
option(FETCH_TPLS "Enable fetching of all supported third-party libraries" OFF)
option(HYPRE_FETCH "Enable fetching of hypre" OFF)
option(METIS_FETCH "Enable fetching of METIS" OFF)
# Setting CXX/MPICXX on the command line or in user.cmake will overwrite the
# autodetected C++ compiler.
+1 -2
View File
@@ -18,7 +18,6 @@
# Some choices below are based on the OS type:
NOTMAC := $(subst Darwin,,$(shell uname -s))
ASTYLE_BIN = astyle
ETAGS_BIN = $(shell command -v etags 2> /dev/null)
EGREP_BIN = $(shell command -v egrep 2> /dev/null)
@@ -408,7 +407,7 @@ AMGX_LIB = -L$(AMGX_DIR)/lib -lamgx -lcusparse -lcusolver -lcublas -lnvToolsExt
# MAGMA library configuration
MAGMA_DIR = @MFEM_DIR@/../magma
MAGMA_OPT = -I$(MAGMA_DIR)/include
MAGMA_LIB = -L$(MAGMA_DIR)/lib -l:libmagma.a $(LAPACK_LIB)
MAGMA_LIB = -L$(MAGMA_DIR)/lib -l:libmagma.a -lcublas -lcusparse $(LAPACK_LIB)
# GnuTLS library configuration
GNUTLS_OPT =
+1 -1
View File
@@ -101,7 +101,7 @@ $ cd ../miniapps
$ ls
CMakeLists.txt common meshing nurbs shifted toys
adjoint electromagnetics mtop parelag solvers
autodiff gslib fluids performance tools
autodiff gslib navier performance tools
```
And an example in "toys"
+2 -14
View File
@@ -85,10 +85,6 @@ groups_serial=(
"DPG miniapps:"
"miniapps/dpg"
"{acoustics,convection-diffusion,diffusion,maxwell}.cpp"'
'"isf"
"Schrodinger flow miniapps:"
"miniapps/fluids/schrodinger-flow"
"schrodinger_flow.cpp"'
'"gslib"
"GSLIB miniapps:"
"miniapps/gslib"
@@ -170,10 +166,6 @@ groups_parallel=(
"miniapps/electromagnetics"
"joule.cpp"'
# "{joule,maxwell,tesla,volta}.cpp"' # todo: multiline sample runs
'"isf"
"Schrodinger flow miniapps:"
"miniapps/fluids/schrodinger-flow"
"pschrodinger_flow.cpp"'
'"adjoint"
"Adjoint miniapps:"
"miniapps/adjoint"
@@ -199,7 +191,7 @@ groups_parallel=(
# todo: miniapps/multidomain
'"navier"
"Navier miniapps:"
"miniapps/fluids/navier"
"miniapps/navier"
"navier_cht.cpp"'
# todo: add other navier miniapps
'"nurbs"
@@ -289,10 +281,6 @@ groups_all=(
"miniapps/electromagnetics"
"joule.cpp"'
# "{joule,maxwell,tesla,volta}.cpp"' # todo: multiline sample runs
'"isf"
"Schrodinger flow miniapps:"
"miniapps/fluids/schrodinger-flow"
"{,p}schrodinger_flow.cpp"'
'"adjoint"
"Adjoint miniapps:"
"miniapps/adjoint"
@@ -320,7 +308,7 @@ groups_all=(
# todo: miniapps/multidomain
'"navier"
"Navier miniapps:"
"miniapps/fluids/navier"
"miniapps/navier"
"navier_cht.cpp"'
# todo: add other navier miniapps
'"nurbs"
-156
View File
@@ -1,156 +0,0 @@
MFEM mesh v1.0
#
# MFEM Geometry Types (see fem/geom.hpp):
#
# POINT = 0
# SEGMENT = 1
# TRIANGLE = 2
# SQUARE = 3
# TETRAHEDRON = 4
# CUBE = 5
# PRISM = 6
# PYRAMID = 7
#
dimension
2
elements
25
3 3 0 1 2 3
3 3 1 4 5 2
3 3 4 6 7 5
3 3 6 8 9 7
3 3 8 10 11 9
3 3 10 12 13 11
3 3 12 14 15 13
3 3 14 16 17 15
3 3 16 18 19 17
3 3 18 20 21 19
3 3 20 22 23 21
3 3 22 24 25 23
3 3 24 26 27 25
3 3 26 28 29 27
3 3 28 30 31 29
3 3 30 32 33 31
3 3 32 34 35 33
3 3 17 19 36 37
3 3 37 36 38 39
3 3 39 38 40 41
3 3 41 40 42 43
3 3 43 42 44 45
3 3 45 44 46 47
3 3 47 46 48 49
3 3 49 48 50 51
boundary
52
2 1 0 1
2 1 2 3
1 1 3 0
2 1 1 4
2 1 5 2
2 1 4 6
2 1 7 5
2 1 6 8
2 1 9 7
2 1 8 10
2 1 11 9
2 1 10 12
2 1 13 11
2 1 12 14
2 1 15 13
2 1 14 16
2 1 17 15
2 1 16 18
2 1 18 20
2 1 21 19
2 1 20 22
2 1 23 21
2 1 22 24
2 1 25 23
2 1 24 26
2 1 27 25
2 1 26 28
2 1 29 27
2 1 28 30
2 1 31 29
2 1 30 32
2 1 33 31
2 1 32 34
3 1 34 35
2 1 35 33
2 1 19 36
2 1 37 17
2 1 36 38
2 1 39 37
2 1 38 40
2 1 41 39
2 1 40 42
2 1 43 41
2 1 42 44
2 1 45 43
2 1 44 46
2 1 47 45
2 1 46 48
2 1 49 47
2 1 48 50
4 1 50 51
2 1 51 49
vertices
52
2
0 0
1 0
1 1
0 1
2 0
2 1
3 0
3 1
4 0
4 1
5 0
5 1
6 0
6 1
7 0
7 1
8 0
8 1
9 0
9 1
10 0
10 1
11 0
11 1
12 0
12 1
13 0
13 1
14 0
14 1
15 0
15 1
16 0
16 1
17 0
17 1
9 2
8 2
9 3
8 3
9 4
8 4
9 5
8 5
9 6
8 6
9 7
8 7
9 8
8 8
9 9
8 9
@@ -1,86 +0,0 @@
MFEM NURBS mesh v1.0
dimension
1
# Four segments with different NURBS orders, described via patches.
elements
4
1 1 0 1
2 1 2 3
3 1 4 5
4 1 6 7
boundary
0
edges
4
0 0 1
1 2 3
2 4 5
3 6 7
vertices
8
patches
# Patch 0: linear (order 1, 3 spans)
knotvectors
1
1 4 0 0 .4 .6 1 1
dimension
2
controlpoints
0.0 0.0 1.0
0.6 0.4 1.0
0.4 0.6 1.0
1.0 1.0 1.0
# Patch 1: quadratic (order 2, 2 spans)
knotvectors
1
2 4 0 0 0 .5 1 1 1
dimension
2
controlpoints
1.0 0.0 1.0
1.9 0.0 1.21
2.0 0.9 1.22
2.0 1.0 1.0
# Patch 2: cubic (order 3, 3 spans)
knotvectors
1
3 6 0 0 0 0 .33 .66 1 1 1 1
dimension
2
controlpoints
2.0 0.0 1.0
2.1 0.2 1.31
3.5 0.4 1.32
2.5 0.6 1.33
2.9 1.0 1.34
3.0 1.0 1.0
# Patch 3: quartic (order 4, 1 span)
knotvectors
1
4 5 0 0 0 0 0 1 1 1 1 1
dimension
2
controlpoints
3.0 0.0 1.0
3.45 0.5 1.41
3.50 1.0 1.42
3.75 0.8 1.43
4.0 0.0 1.0
-79
View File
@@ -1,79 +0,0 @@
MFEM NURBS mesh v1.0
#
# MFEM Geometry Types (see fem/geom.hpp):
#
# SEGMENT = 1
# SQUARE = 3
# CUBE = 5
#
dimension
1
# Three segments with different NURBS orders, described via patches.
elements
3
1 1 0 1
2 1 2 3
3 1 4 5
boundary
6
1 0 0
1 0 1
1 0 2
1 0 3
1 0 4
1 0 5
edges
3
0 0 1
1 2 3
2 4 5
vertices
6
patches
# Patch 0: linear (order 1, 2 control points)
knotvectors
1
1 2 0 0 1 1
dimension
2
controlpoints
0.0 0.0 1.0
1.0 1.0 1.0
# Patch 1: quadratic (order 2, 3 control points)
knotvectors
1
2 3 0 0 0 1 1 1
dimension
2
controlpoints
1.0 0.0 1.0
1.02 1.02 1.2
2.0 1.0 1.0
# Patch 2: cubic (order 3, 4 control points)
knotvectors
1
3 4 0 0 0 0 1 1 1 1
dimension
2
controlpoints
2.0 0.0 1.0
2.03 0.83 1.31
2.33 1.03 1.32
3.0 1.0 1.0
-72
View File
@@ -1,72 +0,0 @@
MFEM NURBS mesh v1.0
#
# MFEM Geometry Types (see fem/geom.hpp):
#
# SEGMENT = 1
# SQUARE = 3
# CUBE = 5
#
dimension
1
elements
3
1 1 0 1
2 1 2 3
3 1 4 5
boundary
6
1 0 0
1 0 1
1 0 2
1 0 3
1 0 4
1 0 5
edges
3
0 0 1
1 2 3
2 4 5
vertices
6
# Edge 0: linear (order 1, 2 control points)
# Edge 1: quadratic (order 2, 3 control points)
# Edge 2: cubic (order 3, 4 control points)
knotvectors
3
1 2 0 0 1 1
2 3 0 0 0 1 1 1
3 4 0 0 0 0 1 1 1 1
# One weight per control point, in the same order as the control points; (2 + 3 + 4) = 9 weights total
weights
1
1
1
1
1
1
1.2
1.31
1.32
FiniteElementSpace
FiniteElementCollection: NURBS
VDim: 2
Ordering: 1
0.0 0.0
1.0 1.0
1.0 0.0
2.0 1.0
2.0 0.0
3.0 1.0
1.02 1.02
2.03 0.83
2.33 1.03
-79
View File
@@ -1,79 +0,0 @@
MFEM NURBS mesh v1.0
#
# MFEM Geometry Types (see fem/geom.hpp):
#
# SEGMENT = 1
# SQUARE = 3
# CUBE = 5
#
dimension
1
# Three segments with different NURBS orders, described via patches.
elements
3
1 1 0 1
2 1 2 3
3 1 4 5
boundary
6
1 0 0
1 0 1
1 0 2
1 0 3
1 0 4
1 0 5
edges
3
0 0 1
1 2 3
2 4 5
vertices
6
patches
# Patch 0: linear (order 1, 2 control points)
knotvectors
1
1 2 0 0 1 1
dimension
3
controlpoints
0.0 0.0 0.01 1.0
1.0 1.0 1.01 1.0
# Patch 1: quadratic (order 2, 3 control points)
knotvectors
1
2 3 0 0 0 1 1 1
dimension
3
controlpoints
1.0 0.0 0.02 1.0
1.02 1.02 0.52 1.2
2.0 1.0 1.02 1.0
# Patch 2: cubic (order 3, 4 control points)
knotvectors
1
3 4 0 0 0 0 1 1 1 1
dimension
3
controlpoints
2.0 0.0 0.03 1.0
2.03 0.83 0.33 1.31
2.33 1.03 0.63 1.32
3.0 1.0 1.03 1.0
-72
View File
@@ -1,72 +0,0 @@
MFEM NURBS mesh v1.0
#
# MFEM Geometry Types (see fem/geom.hpp):
#
# SEGMENT = 1
# SQUARE = 3
# CUBE = 5
#
dimension
1
elements
3
1 1 0 1
2 1 2 3
3 1 4 5
boundary
6
1 0 0
1 0 1
1 0 2
1 0 3
1 0 4
1 0 5
edges
3
0 0 1
1 2 3
2 4 5
vertices
6
# Edge 0: linear (order 1, 2 control points)
# Edge 1: quadratic (order 2, 3 control points)
# Edge 2: cubic (order 3, 4 control points)
knotvectors
3
1 2 0 0 1 1
2 3 0 0 0 1 1 1
3 4 0 0 0 0 1 1 1 1
# One weight per control point, in the same order as the control points; (2 + 3 + 4) = 9 weights total
weights
1
1
1
1
1
1
1.2
1.31
1.32
FiniteElementSpace
FiniteElementCollection: NURBS
VDim: 3
Ordering: 1
0.0 0.0 0.01
1.0 1.0 1.01
1.0 0.0 0.02
2.0 1.0 1.02
2.0 0.0 0.03
3.0 1.0 1.03
1.02 1.02 0.52
2.03 0.83 0.33
2.33 1.03 0.63
+2 -4
View File
@@ -48,7 +48,7 @@ PROJECT_NAME = MFEM
# could be handy for archiving the generated documentation or if some version
# control system is used.
PROJECT_NUMBER = v4.9.1
PROJECT_NUMBER = v4.8.1
# Using the PROJECT_BRIEF tag one can provide an optional one line description
# for a project that appears at the top of each page and should give viewer a
@@ -973,13 +973,10 @@ INPUT = @MFEM_SOURCE_DIR@/doc/CodeDocumentation.dox \
@MFEM_SOURCE_DIR@/miniapps/adjoint \
@MFEM_SOURCE_DIR@/miniapps/autodiff \
@MFEM_SOURCE_DIR@/miniapps/common \
@MFEM_SOURCE_DIR@/miniapps/contact \
@MFEM_SOURCE_DIR@/miniapps/dfem \
@MFEM_SOURCE_DIR@/miniapps/dpg \
@MFEM_SOURCE_DIR@/miniapps/dpg/util \
@MFEM_SOURCE_DIR@/miniapps/electromagnetics \
@MFEM_SOURCE_DIR@/miniapps/fluids/navier \
@MFEM_SOURCE_DIR@/miniapps/fluids/schrodinger-flow \
@MFEM_SOURCE_DIR@/miniapps/gslib \
@MFEM_SOURCE_DIR@/miniapps/hdiv-linear-solver \
@MFEM_SOURCE_DIR@/miniapps/hooke \
@@ -990,6 +987,7 @@ INPUT = @MFEM_SOURCE_DIR@/doc/CodeDocumentation.dox \
@MFEM_SOURCE_DIR@/miniapps/meshing \
@MFEM_SOURCE_DIR@/miniapps/mtop \
@MFEM_SOURCE_DIR@/miniapps/multidomain \
@MFEM_SOURCE_DIR@/miniapps/navier \
@MFEM_SOURCE_DIR@/miniapps/nurbs \
@MFEM_SOURCE_DIR@/miniapps/parelag \
@MFEM_SOURCE_DIR@/miniapps/performance \
+1 -7
View File
@@ -117,8 +117,6 @@ namespace mfem {
* - <a class="el" href="ex39p_8cpp_source.html">Example 39p</a>: parallel named mesh attributes
* - <a class="el" href="ex40_8cpp_source.html">Example 40</a>: eikonal equation
* - <a class="el" href="ex40p_8cpp_source.html">Example 40p</a>: parallel eikonal equation
* - <a class="el" href="ex41_8cpp_source.html">Example 41</a>: DG/CG IMEX time-dependent advection-diffusion
* - <a class="el" href="ex41p_8cpp_source.html">Example 41p</a>: parallel DG/CG IMEX time-dependent advection-diffusion
*
* <H4>AmgX Examples</H4>
* - Variants of Examples
@@ -190,8 +188,6 @@ namespace mfem {
* <a class="el" href="nurbs__ex1p_8cpp_source.html">1p</a>,
* <a class="el" href="nurbs__ex3_8cpp_source.html">3</a>,
* <a class="el" href="nurbs__ex5_8cpp_source.html">5</a>,
* <a class="el" href="nurbs__ex10_8cpp_source.html">10</a>,
* <a class="el" href="nurbs__ex10p_8cpp_source.html">10p</a>,
* <a class="el" href="nurbs__ex11p_8cpp_source.html">11p</a>, and
* <a class="el" href="nurbs__ex24_8cpp_source.html">24</a>,
* demonstrating howto perform NURBS-based Isogeometric Analysis.
@@ -200,7 +196,6 @@ namespace mfem {
* - <a class="el" href="nurbs__curveint_8cpp_source.html">NURBS Interpolation</a>: NURBS interpolation of given geometry
* - <a class="el" href="nurbs__naca__cmesh_8cpp_source.html">NURBS NACA Mesher</a>: generate NURBS based mesh around a NACA foil
* - <a class="el" href="nurbs__printfunc_8cpp_source.html">NURBS Printer</a>: print the NURBS-basis
* - <a class="el" href="nurbs__mesh_info_8cpp_source.html">NURBS Mesh info</a>: print the info of a NURBS mesh
*
* <H3>Miniapps</H3>
* - <a class="el" href="volta_8cpp_source.html">Volta</a>: simple electrostatics simulation code
@@ -239,8 +234,7 @@ namespace mfem {
* - <a class="el" href="miniapps_2performance_2ex1_8cpp_source.html">HPC Example 1</a>: high-performance nodal H1 FEM for the Poisson problem
* - <a class="el" href="miniapps_2performance_2ex1p_8cpp_source.html">HPC Example 1p</a>: high-performance parallel nodal H1 FEM for the Poisson problem
* - <a class="el" href="generate__random__field_8cpp_source.html">SPDE Solvers</a>: SPDE solver random field generation
* - <a class="el" href="contact-patch-test_8cpp_source.html">Tribol</a>: mortar contact patch test for elasticity
* - <a class="el" href="contact_8cpp_source.html">Contact</a>: Frictionless contact examples using <a class="el" href="classmfem_1_1IPSolver.html#details">IP optimization</a> and the <a class="el" href="classmfem_1_1AMGFSolver.html#details">AMGF solver</a>
* - <a class="el" href="contact-patch-test_8cpp_source.html">Contact</a>: mortar contact patch test for elasticity
* - <a class="el" href="multidomain_8cpp_source.html">Multidomain miniapp</a>: Multidomain and Submesh demonstration miniapp
* - <a class="el" href="pdiffusion_8cpp_source.html">DPG Diffusion example</a>: DPG formulation for the diffusion problem
* - <a class="el" href="pmaxwell_8cpp_source.html">DPG Maxwell example</a>: DPG formulation for the indefinite Maxwell problem
-4
View File
@@ -46,7 +46,6 @@ list(APPEND ALL_EXE_SRCS
ex38.cpp
ex39.cpp
ex40.cpp
ex41.cpp
)
if (MFEM_USE_MPI)
@@ -90,7 +89,6 @@ if (MFEM_USE_MPI)
ex37p.cpp
ex39p.cpp
ex40p.cpp
ex41p.cpp
)
endif()
@@ -133,8 +131,6 @@ if (MFEM_ENABLE_TESTING)
list(APPEND THIS_TEST_OPTIONS "-dg")
elseif(${TEST_NAME} MATCHES "ex37p*")
list(APPEND THIS_TEST_OPTIONS "-mi" "3")
elseif(${TEST_NAME} MATCHES "ex41p*")
list(APPEND THIS_TEST_OPTIONS "-tf" "1.0")
endif()
if (NOT (${TEST_NAME} MATCHES ".*p$"))
+6 -29
View File
@@ -105,7 +105,6 @@ int main(int argc, char *argv[])
bool visualization = true;
bool visit = false;
int vis_steps = 5;
bool solve_implicit_state = false;
int precision = 8;
cout.precision(precision);
@@ -127,9 +126,6 @@ int main(int argc, char *argv[])
"Alpha coefficient.");
args.AddOption(&kappa, "-k", "--kappa",
"Kappa coefficient offset.");
args.AddOption(&solve_implicit_state, "-imp-state", "--implicit-state",
"-imp-slope", "--implicit-slope",
"Implicitly solve for stage state or slope.");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
@@ -183,11 +179,6 @@ int main(int argc, char *argv[])
// 7. Initialize the conduction operator and the visualization.
ConductionOperator oper(fespace, alpha, kappa, u);
using ImplicitVariableType = ConductionOperator::ImplicitVariableType;
ImplicitVariableType imp_var = solve_implicit_state ?
ImplicitVariableType::STATE
: ImplicitVariableType::SLOPE;
oper.SetImplicitVariableType(imp_var);
u_gf.SetFromTrueDofs(u);
{
@@ -325,14 +316,11 @@ void ConductionOperator::Mult(const Vector &u, Vector &du_dt) const
}
void ConductionOperator::ImplicitSolve(const real_t dt,
const Vector &u, Vector &k)
const Vector &u, Vector &du_dt)
{
// Solve the equation:
// M*k = -K(u + dt*k) for k = du/dt, if solving for stage-slope
// or
// M*k = -dt*K(k) + M*u for k = u_s, if solving for stage-state
// where K is linearized by using u from the previous timestep, and
// the stage-state and slope relation: du/dt = (u_s - u)/dt.
// du_dt = M^{-1}*[-K(u + dt*du_dt)]
// for du_dt, where K is linearized by using u from the previous timestep
if (!T)
{
T = Add(1.0, Mmat, dt, Kmat);
@@ -340,20 +328,9 @@ void ConductionOperator::ImplicitSolve(const real_t dt,
T_solver.SetOperator(*T);
}
MFEM_VERIFY(dt == current_dt, ""); // SDIRK methods use the same dt
// Construct current right-hand side for stage state vs. slope solve
if (ImplicitVarTypeIsState())
{
// k, on return, is the stage value u_s
Mmat.Mult(u, z);
}
else
{
// k, on return, is the stage slope du/dt
Kmat.Mult(u, z);
z.Neg();
}
T_solver.Mult(z, k);
Kmat.Mult(u, z);
z.Neg();
T_solver.Mult(z, du_dt);
}
void ConductionOperator::SetParameters(const Vector &u)
+6 -29
View File
@@ -115,7 +115,6 @@ int main(int argc, char *argv[])
bool visit = false;
int vis_steps = 5;
bool adios2 = false;
bool solve_implicit_state = false;
int precision = 8;
cout.precision(precision);
@@ -139,9 +138,6 @@ int main(int argc, char *argv[])
"Alpha coefficient.");
args.AddOption(&kappa, "-k", "--kappa",
"Kappa coefficient offset.");
args.AddOption(&solve_implicit_state, "-imp-state", "--implicit-state",
"-imp-slope", "--implicit-slope",
"Implicitly solve for stage state or slope.");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
@@ -216,11 +212,6 @@ int main(int argc, char *argv[])
// 9. Initialize the conduction operator and the VisIt visualization.
ConductionOperator oper(fespace, alpha, kappa, u);
using ImplicitVariableType = ConductionOperator::ImplicitVariableType;
ImplicitVariableType imp_var = solve_implicit_state ?
ImplicitVariableType::STATE
: ImplicitVariableType::SLOPE;
oper.SetImplicitVariableType(imp_var);
u_gf.SetFromTrueDofs(u);
{
@@ -416,14 +407,11 @@ void ConductionOperator::Mult(const Vector &u, Vector &du_dt) const
}
void ConductionOperator::ImplicitSolve(const real_t dt,
const Vector &u, Vector &k)
const Vector &u, Vector &du_dt)
{
// Solve the equation:
// M*k = -K(u + dt*k) for k = du/dt, if solving for stage-slope
// or
// M*k = -dt*K(k) + M*u for k = u_s, if solving for stage-state
// where K is linearized by using u from the previous timestep, and
// the stage-state and slope relation: du/dt = (u_s - u)/dt.
// du_dt = M^{-1}*[-K(u + dt*du_dt)]
// for du_dt, where K is linearized by using u from the previous timestep
if (!T)
{
T = Add(1.0, Mmat, dt, Kmat);
@@ -431,20 +419,9 @@ void ConductionOperator::ImplicitSolve(const real_t dt,
T_solver.SetOperator(*T);
}
MFEM_VERIFY(dt == current_dt, ""); // SDIRK methods use the same dt
// Construct current right-hand side for stage state vs. slope solve
if (ImplicitVarTypeIsState())
{
// k, on return, is the stage value u
Mmat.Mult(u, z);
}
else
{
// k, on return, is the stage slope du/dt
Kmat.Mult(u, z);
z.Neg();
}
T_solver.Mult(z, k);
Kmat.Mult(u, z);
z.Neg();
T_solver.Mult(z, du_dt);
}
void ConductionOperator::SetParameters(const Vector &u)
+1 -1
View File
@@ -119,7 +119,7 @@ int main(int argc, char *argv[])
}
LinearForm b(&fespace);
b.AddBoundaryIntegrator(new VectorBoundaryLFIntegrator(f));
b.AddDomainIntegrator(new VectorBoundaryLFIntegrator(f));
// 6. Set up the bilinear form a(.,.) on the finite element space
// corresponding to the linear elasticity integrator with piece-wise
+1 -1
View File
@@ -140,7 +140,7 @@ int main(int argc, char *argv[])
}
ParLinearForm b(&fespace);
b.AddBoundaryIntegrator(new VectorBoundaryLFIntegrator(f));
b.AddDomainIntegrator(new VectorBoundaryLFIntegrator(f));
// 6. Set up the bilinear form a(.,.) on the finite element space
// corresponding to the linear elasticity integrator with piece-wise
-3
View File
@@ -471,13 +471,10 @@ int main(int argc, char *argv[])
ofstream sol_r_ofs("sol_r.gf");
ofstream sol_i_ofs("sol_i.gf");
ofstream sol_z_ofs("sol_z.gf");
sol_r_ofs.precision(8);
sol_i_ofs.precision(8);
sol_z_ofs.precision(8);
u.real().Save(sol_r_ofs);
u.imag().Save(sol_i_ofs);
u.Save(sol_z_ofs);
}
// 14. Send the solution by socket to a GLVis server.
+1 -5
View File
@@ -507,11 +507,10 @@ int main(int argc, char *argv[])
// 15. Save the refined mesh and the solution in parallel. This output can be
// viewed later using GLVis: "glvis -np <np> -m mesh -g sol".
{
ostringstream mesh_name, sol_r_name, sol_i_name, sol_z_name;
ostringstream mesh_name, sol_r_name, sol_i_name;
mesh_name << "mesh." << setfill('0') << setw(6) << myid;
sol_r_name << "sol_r." << setfill('0') << setw(6) << myid;
sol_i_name << "sol_i." << setfill('0') << setw(6) << myid;
sol_z_name << "sol_z." << setfill('0') << setw(6) << myid;
ofstream mesh_ofs(mesh_name.str().c_str());
mesh_ofs.precision(8);
@@ -519,13 +518,10 @@ int main(int argc, char *argv[])
ofstream sol_r_ofs(sol_r_name.str().c_str());
ofstream sol_i_ofs(sol_i_name.str().c_str());
ofstream sol_z_ofs(sol_z_name.str().c_str());
sol_r_ofs.precision(8);
sol_i_ofs.precision(8);
sol_z_ofs.precision(8);
u.real().Save(sol_r_ofs);
u.imag().Save(sol_i_ofs);
u.Save(sol_z_ofs);
}
// 16. Send the solution by socket to a GLVis server.
+1 -5
View File
@@ -9,7 +9,6 @@
// ex4 -m ../data/beam-hex.mesh -o 2 -pa
// ex4 -m ../data/escher.mesh
// ex4 -m ../data/fichera.mesh -o 2 -hb
// ex4 -m ../data/fichera.mesh -o 2 -hb -ea
// ex4 -m ../data/fichera-q2.vtk
// ex4 -m ../data/fichera-q3.mesh -o 2 -sc
// ex4 -m ../data/square-disc-nurbs.mesh
@@ -19,7 +18,6 @@
// ex4 -m ../data/amr-quad.mesh
// ex4 -m ../data/amr-hex.mesh
// ex4 -m ../data/amr-hex.mesh -o 2 -hb
// ex4 -m ../data/amr-hex.mesh -o 2 -hb -ea
// ex4 -m ../data/fichera-amr.mesh -o 2 -sc
// ex4 -m ../data/ref-prism.mesh -o 1
// ex4 -m ../data/octahedron.mesh -o 1
@@ -27,8 +25,6 @@
//
// Device sample runs:
// ex4 -m ../data/star.mesh -pa -d cuda
// ex4 -m ../data/star.mesh -hb -ea -d cuda
// ex4 -m ../data/amr-quad.mesh -hb -ea -d cuda
// ex4 -m ../data/star.mesh -pa -d raja-cuda
// ex4 -m ../data/star.mesh -pa -d raja-omp
// ex4 -m ../data/beam-hex.mesh -pa -d cuda
@@ -197,7 +193,7 @@ int main(int argc, char *argv[])
cout << "Size of linear system: " << A->Height() << endl;
// 11. Solve the linear system A X = B.
if (!pa && (!ea || hybridization))
if (!pa)
{
#ifndef MFEM_USE_SUITESPARSE
// Use a simple symmetric Gauss-Seidel preconditioner with PCG.
-589
View File
@@ -1,589 +0,0 @@
// MFEM Example 41
//
// Compile with: make ex41
//
// Sample runs:
// ex41
// ex41 -cg
// ex41 -m ../data/periodic-hexagon.mesh -p 0 -r 2 -dt 0.005 -tf 10
// ex41 -m ../data/periodic-square.mesh -p 1 -r 2 -dt 0.005 -tf 9
// ex41 -m ../data/periodic-hexagon.mesh -p 1 -r 2 -dt 0.005 -tf 9
// ex41 -m ../data/amr-quad.mesh -p 1 -r 2 -dt 0.002 -tf 9
// ex41 -m ../data/star-q3.mesh -p 1 -r 2 -dt 0.001 -tf 9
// ex41 -m ../data/star-mixed.mesh -p 1 -r 2 -dt 0.005 -tf 9
// ex41 -m ../data/disc-nurbs.mesh -p 1 -r 3 -dt 0.005 -tf 9
// ex41 -m ../data/disc-nurbs.mesh -p 2 -r 3 -dt 0.005 -tf 9
// ex41 -m ../data/periodic-square.mesh -p 3 -r 4 -dt 0.0025 -tf 9 -vs 20
// ex41 -m ../data/periodic-cube.mesh -p 0 -r 2 -o 2 -dt 0.01 -tf 8
//
// Device sample runs:
//
// Description: This example code solves the time-dependent advection-diffusion
// equation du/dt + v.grad(u) - a div(grad(u)) = 0, where v is a
// given fluid velocity, a is the diffusion coefficient, and
// u0(x)=u(0,x) is a given initial condition.
//
// The example demonstrates the use of Discontinuous Galerkin (DG)
// bilinear forms in MFEM (face integrators), and the use of IMEX
// ODE time integrators.
//
// The option to use continuous finite elements is available too.
#include "mfem.hpp"
using namespace std;
using namespace mfem;
// Mesh bounding box
Vector bb_min, bb_max;
// Velocity coefficient
template<int problem=0>
void velocity_function(const Vector &x, Vector &v)
{
int dim = x.Size();
// map to the reference [-1,1] domain
Vector X(dim);
for (int i = 0; i < dim; i++)
{
real_t center = (bb_min[i] + bb_max[i]) * 0.5;
X(i) = 2 * (x(i) - center) / (bb_max[i] - bb_min[i]);
}
switch (problem)
{
case 0:
{
// Translations in 1D, 2D, and 3D
switch (dim)
{
case 1: v(0) = 1.0; break;
case 2: v(0) = sqrt(2./3.); v(1) = sqrt(1./3.); break;
case 3: v(0) = sqrt(3./6.); v(1) = sqrt(2./6.); v(2) = sqrt(1./6.);
break;
}
break;
}
case 1:
case 2:
{
// Clockwise rotation in 2D around the origin
const real_t w = M_PI/2;
switch (dim)
{
case 1: v(0) = 1.0; break;
case 2: v(0) = w*X(1); v(1) = -w*X(0); break;
case 3: v(0) = w*X(1); v(1) = -w*X(0); v(2) = 0.0; break;
}
break;
}
case 3:
{
// Clockwise twisting rotation in 2D around the origin
const real_t w = M_PI/2;
real_t d = max((X(0)+1.)*(1.-X(0)),0.) * max((X(1)+1.)*(1.-X(1)),0.);
d = d*d;
switch (dim)
{
case 1: v(0) = 1.0; break;
case 2: v(0) = d*w*X(1); v(1) = -d*w*X(0); break;
case 3: v(0) = d*w*X(1); v(1) = -d*w*X(0); v(2) = 0.0; break;
}
break;
}
}
}
// Initial condition
template<int problem=0>
real_t u0_function(const Vector &x)
{
int dim = x.Size();
// map to the reference [-1,1] domain
Vector X(dim);
for (int i = 0; i < dim; i++)
{
real_t center = (bb_min[i] + bb_max[i]) * 0.5;
X(i) = 2 * (x(i) - center) / (bb_max[i] - bb_min[i]);
}
switch (problem)
{
case 0:
case 1:
{
switch (dim)
{
case 1:
return exp(-40.*pow(X(0)-0.5,2));
case 2:
case 3:
{
real_t rx = 0.45, ry = 0.25, cx = 0., cy = -0.2, w = 10.;
if (dim == 3)
{
const real_t s = (1. + 0.25*cos(2*M_PI*X(2)));
rx *= s;
ry *= s;
}
return ( std::erfc(w*(X(0)-cx-rx))*std::erfc(-w*(X(0)-cx+rx)) *
std::erfc(w*(X(1)-cy-ry))*std::erfc(-w*(X(1)-cy+ry)) )/16;
}
}
}
case 2:
{
real_t x_ = X(0), y_ = X(1), rho, phi;
rho = std::hypot(x_, y_);
phi = atan2(y_, x_);
return pow(sin(M_PI*rho),2)*sin(3*phi);
}
case 3:
{
const real_t f = M_PI;
return sin(f*X(0))*sin(f*X(1));
}
}
return 0.0;
}
/// Solver for the implicit part of the ODE (the diffusion term).
/// Solves systems of the form: (M + dt*S) k = rhs.
class Implicit_Solver : public Solver
{
private:
SparseMatrix &M, &S, A;
CGSolver linear_solver;
BlockILU prec;
real_t dt;
public:
Implicit_Solver(SparseMatrix &M_, SparseMatrix &S_,
const FiniteElementSpace &fes)
: M(M_),
S(S_),
prec(fes.GetTypicalFE()->GetDof(),
BlockILU::Reordering::MINIMUM_DISCARDED_FILL),
dt(1.0)
{
linear_solver.iterative_mode = false;
linear_solver.SetRelTol(1e-9);
linear_solver.SetAbsTol(0.0);
linear_solver.SetMaxIter(100);
linear_solver.SetPrintLevel(0);
linear_solver.SetPreconditioner(prec);
}
void SetTimeStep(real_t dt_)
{
real_t ddt = dt-dt_;
real_t epsilon;
epsilon = std::numeric_limits<real_t>::epsilon();
epsilon*=10;
if (std::abs(ddt) > epsilon)
{
dt = dt_;
// Form operator A = M + dt*S
A = S;
A *= dt;
A += M;
// this will also call SetOperator on the preconditioner
linear_solver.SetOperator(A);
}
}
void SetOperator(const Operator &op) override
{
linear_solver.SetOperator(op);
}
void Mult(const Vector &x, Vector &y) const override
{
linear_solver.Mult(x, y);
}
};
/** A time-dependent operator for the right-hand side of the ODE. The weak
form of the advection-diffusion equation is M du/dt = K u - S u + b,
where M is the mass matrix, K and S are the advection and diffusion
matrices, and b describes the flow on the boundary. In the case of IMEX
evolution, the diffusion term is treated implicitly, and the advection
term is treated explicitly. */
class IMEX_Evolution : public TimeDependentOperator
{
private:
BilinearForm &M, &K, &S;
const Vector &b;
unique_ptr<Solver> M_prec;
CGSolver M_solver;
unique_ptr<Implicit_Solver> implicit_solver;
mutable Vector z;
public:
IMEX_Evolution(BilinearForm &M_, BilinearForm &K_, BilinearForm &S_,
const Vector &b_);
/// Evaluate k1=M^{-1}*G1(u,t); -> k1 = M^{-1}*(K*u + b)
void Mult1(const Vector &x, Vector &y) const;
/// Evaluate k2: M*k2 = G2(u+k2*dt,t); -> (M+S*dt)*k2=-S*u
void ImplicitSolve2(const real_t dt, const Vector &x, Vector &k);
void Mult(const Vector &x, Vector &y) const override
{
if (TimeDependentOperator::EvalMode::ADDITIVE_TERM_1 == GetEvalMode())
{
Mult1(x,y);
}
else
{
mfem_error("TimeDependentOperator::Mult() is not overridden!");
}
}
void ImplicitSolve(const real_t dt, const Vector &x, Vector &k) override
{
if (TimeDependentOperator::EvalMode::ADDITIVE_TERM_2 == GetEvalMode())
{
ImplicitSolve2(dt,x,k);
}
else
{
mfem_error("TimeDependentOperator::ImplicitSolve() is not overridden!");
}
}
};
int main(int argc, char *argv[])
{
// 1. Parse command-line options.
int problem = 0;
const char *mesh_file = "../data/periodic-square.mesh";
int ref_levels = 2;
int order = 3;
int ode_solver_type = 64; //IMEXRK3(3,4,3)
real_t t_final = 10.0;
real_t dt = 0.01;
bool paraview = false;
bool cg = false;
int vis_steps = 50;
real_t diffusion_term = 0.01;
real_t kappa = -1.0;
real_t sigma = -1.0;
bool visualization = true;
bool visit = false;
bool binary = false;
int precision = 8;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh", "Mesh file to use.");
args.AddOption(&problem, "-p", "--problem",
"Problem setup to use. See options in velocity_function().");
args.AddOption(&ref_levels, "-r", "--refine",
"Number of times to refine the mesh uniformly.");
args.AddOption(&order, "-o", "--order", "Order of the finite elements.");
args.AddOption(&ode_solver_type, "-s", "--ode-solver",
ODESolver::IMEXTypes.c_str());
args.AddOption(&t_final, "-tf", "--t-final", "Final time; start time is 0.");
args.AddOption(&dt, "-dt", "--time-step", "Time step.");
args.AddOption(&diffusion_term, "-dc", "--diffusion-coeff",
"Diffusion coefficient in the PDE.");
args.AddOption(&paraview, "-paraview", "--paraview-datafiles", "-no-paraview",
"--no-paraview-datafiles",
"Save data files for ParaView (paraview.org) visualization.");
args.AddOption(&vis_steps, "-vs", "--visualization-steps",
"Visualize every n-th timestep.");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
args.AddOption(&binary, "-binary", "--binary-datafiles", "-ascii",
"--ascii-datafiles",
"Use binary (Sidre) or ascii format for VisIt data files.");
args.AddOption(&visit, "-visit", "--visit-datafiles", "-no-visit",
"--no-visit-datafiles",
"Save data files for VisIt (visit.llnl.gov) visualization.");
args.AddOption(&cg, "-cg", "--continuous-galerkin", "-dg",
"--discontinuous-galerkin",
"Use Continuous-Galerkin Finite elements (Default is DG)");
args.Parse();
if (!args.Good())
{
args.PrintUsage(cout);
return 1;
}
if (kappa < 0)
{
kappa = (order+1)*(order+1);
}
args.PrintOptions(cout);
// 2. Read the mesh from the given mesh file. We can handle geometrically
// periodic meshes in this code.
Mesh mesh(mesh_file);
const int dim = mesh.Dimension();
// 3. Define the IMEX (Split) ODE solver used for time integration. The IMEX
// solvers currently available are: 61 - Forward Backward Euler,
// 62 - IMEXRK2(2,2,2), 63 - IMEXRK2(2,3,2), and 64 - IMEX_DIRK_RK3.
unique_ptr<ODESolver> ode_solver = ODESolver::SelectIMEX(ode_solver_type);
// 4. Refine the mesh to increase the resolution. In this example we do
// 'ref_levels' of uniform refinement, where 'ref_levels' is a
// command-line parameter.
for (int lev = 0; lev < ref_levels; lev++) {mesh.UniformRefinement();}
if (mesh.NURBSext) {mesh.SetCurvature(max(order, 1));}
mesh.GetBoundingBox(bb_min, bb_max, max(order, 1));
// 5. Define the discontinuous DG finite element space of the given
// polynomial order on the refined mesh.
FiniteElementCollection *fec = NULL;
if (cg)
{
fec = new H1_FECollection(order, dim);
}
else
{
fec = new DG_FECollection(order, dim, BasisType::GaussLobatto);
}
FiniteElementSpace fes(&mesh, fec);
cout << "Number of unknowns: " << fes.GetVSize() << endl;
// 6. Set up and assemble the bilinear and linear forms corresponding to the
// DG discretization. The DGTraceIntegrator involves integrals over mesh
// interior faces.
std::unique_ptr<VectorFunctionCoefficient> velocity;
if (0==problem)
{
velocity.reset(new VectorFunctionCoefficient(dim, velocity_function<0>));
}
else if (1==problem)
{
velocity.reset(new VectorFunctionCoefficient(dim, velocity_function<1>));
}
else if (2==problem)
{
velocity.reset(new VectorFunctionCoefficient(dim, velocity_function<2>));
}
else if (3==problem)
{
velocity.reset(new VectorFunctionCoefficient(dim, velocity_function<3>));
}
ConstantCoefficient diff_coeff(diffusion_term);
BilinearForm m(&fes);
BilinearForm k(&fes);
BilinearForm s(&fes);
Vector b(fes.GetTrueVSize());
b = 0.0; //The inflow on the boundaries is set to zero.
m.AddDomainIntegrator(new MassIntegrator);
constexpr real_t alpha = -1.0;
k.AddDomainIntegrator(new ConvectionIntegrator(*velocity, alpha));
s.AddDomainIntegrator(new DiffusionIntegrator(diff_coeff));
if (!cg)
{
k.AddInteriorFaceIntegrator(new NonconservativeDGTraceIntegrator(*velocity,
alpha));
k.AddBdrFaceIntegrator(new NonconservativeDGTraceIntegrator(*velocity, alpha));
s.AddInteriorFaceIntegrator(new DGDiffusionIntegrator(diff_coeff, sigma,
kappa));
s.AddBdrFaceIntegrator(new DGDiffusionIntegrator(diff_coeff, sigma, kappa));
}
int skip_zeros = 0;
m.Assemble(skip_zeros);
k.Assemble(skip_zeros);
s.Assemble(skip_zeros);
m.Finalize(skip_zeros);
k.Finalize(skip_zeros);
s.Finalize(skip_zeros);
// 7. Define the initial conditions.
std::unique_ptr<FunctionCoefficient> u0;
if (0==problem)
{
u0.reset(new FunctionCoefficient(u0_function<0>));
}
else if (1==problem)
{
u0.reset(new FunctionCoefficient(u0_function<1>));
}
else if (2==problem)
{
u0.reset(new FunctionCoefficient(u0_function<2>));
}
else if (3==problem)
{
u0.reset(new FunctionCoefficient(u0_function<3>));
}
GridFunction u(&fes);
u.ProjectCoefficient(*u0);
// Create data collection for solution output: either VisItDataCollection for
// ascii data files, or SidreDataCollection for binary data files.
DataCollection *dc = NULL;
if (visit)
{
if (binary)
{
#ifdef MFEM_USE_SIDRE
dc = new SidreDataCollection("Example41", &mesh);
#else
MFEM_ABORT("Must build with MFEM_USE_SIDRE=YES for binary output.");
#endif
}
else
{
dc = new VisItDataCollection("Example41", &mesh);
dc->SetPrecision(precision);
}
dc->RegisterField("solution", &u);
dc->SetCycle(0);
dc->SetTime(0.0);
dc->Save();
}
// 8. Set up paraview visualization, if desired.
unique_ptr<ParaViewDataCollection> pv;
if (paraview)
{
pv = make_unique<ParaViewDataCollection>("Example41", &mesh);
pv->SetPrefixPath("ParaView");
pv->RegisterField("solution", &u);
pv->SetLevelsOfDetail(order);
pv->SetDataFormat(VTKFormat::BINARY);
pv->SetHighOrderOutput(true);
pv->SetCycle(0);
pv->SetTime(0.0);
pv->Save();
}
socketstream sout;
if (visualization)
{
char vishost[] = "localhost";
int visport = 19916;
sout.open(vishost, visport);
if (!sout)
{
cout << "Unable to connect to GLVis server at "
<< vishost << ':' << visport << endl;
visualization = false;
cout << "GLVis visualization disabled.\n";
}
else
{
sout.precision(precision);
sout << "solution\n" << mesh << u;
sout << "pause\n";
sout << flush;
cout << "GLVis visualization paused."
<< " Press space (in the GLVis window) to resume it.\n";
}
}
// 9. Define the time-dependent evolution operator describing the ODE
// right-hand side, and perform time-integration (looping over the time
// iterations, ti, with a time-step dt).
IMEX_Evolution adv(m, k, s, b);
real_t t = 0.0;
adv.SetTime(t);
ode_solver->Init(adv);
bool done = false;
for (int ti = 0; !done; )
{
real_t dt_real = min(dt, t_final - t);
ode_solver->Step(u, t, dt_real);
ti++;
done = (t >= t_final - 1e-8*dt);
if (done || ti % vis_steps == 0)
{
cout << "time step: " << ti << ", time: " << t << endl;
if (paraview)
{
pv->SetCycle(ti);
pv->SetTime(t);
pv->Save();
}
if (visualization)
{
sout << "solution\n" << mesh << u << flush;
}
if (visit)
{
dc->SetCycle(ti);
dc->SetTime(t);
dc->Save();
}
}
}
delete fec;
return 0;
}
// Implementation of class IMEX_Evolution
IMEX_Evolution::IMEX_Evolution(BilinearForm &M_, BilinearForm &K_,
BilinearForm &S_, const Vector &b_)
: TimeDependentOperator(M_.FESpace()->GetTrueVSize()),
M(M_), K(K_), S(S_), b(b_), z(height)
{
Array<int> ess_tdof_list;
if (M.GetAssemblyLevel() == AssemblyLevel::LEGACY)
{
M_prec = make_unique<DSmoother>(M.SpMat());
M_solver.SetOperator(M.SpMat());
implicit_solver = make_unique<Implicit_Solver>(M.SpMat(), S.SpMat(),
*M.FESpace());
}
else
{
MFEM_ABORT("Implicit time integration is not supported with partial assembly");
}
M_solver.SetPreconditioner(*M_prec);
M_solver.iterative_mode = false;
M_solver.SetRelTol(1e-9);
M_solver.SetAbsTol(0.0);
M_solver.SetMaxIter(100);
M_solver.SetPrintLevel(0);
}
void IMEX_Evolution::Mult1(const Vector &x, Vector &y) const
{
// Perform the explicit step
// y = M^{-1} (K x + b)
K.Mult(x, z);
z += b;
M_solver.Mult(z, y);
}
void IMEX_Evolution::ImplicitSolve2(const real_t dt, const Vector &x, Vector &k)
{
// Perform the implicit step
// solve for k, k = -(M+dt S)^{-1} S x
MFEM_VERIFY(implicit_solver != NULL,
"Implicit time integration is not supported with partial assembly");
S.Mult(x, z);
z.Neg();
implicit_solver->SetTimeStep(dt);
implicit_solver->Mult(z, k);
}
-737
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@@ -1,737 +0,0 @@
// MFEM Example 41 - Parallel Version
//
// Compile with: make ex41p
//
// Sample runs:
// mpirun -np 4 ex41p
// mpirun -np 4 ex41p -cg
// mpirun -np 4 ex41p -m ../data/periodic-hexagon.mesh -p 0 -dt 0.005 -tf 10
// mpirun -np 4 ex41p -m ../data/periodic-square.mesh -p 1 -dt 0.005 -tf 9
// mpirun -np 4 ex41p -m ../data/periodic-hexagon.mesh -p 1 -dt 0.005 -tf 9
// mpirun -np 4 ex41p -m ../data/star-q3.mesh -p 1 -rp 1 -dt 0.001 -tf 9
// mpirun -np 4 ex41p -m ../data/disc-nurbs.mesh -p 1 -rp 1 -dt 0.005 -tf 9
// mpirun -np 4 ex41p -m ../data/disc-nurbs.mesh -p 2 -rp 1 -dt 0.005 -tf 9
// mpirun -np 4 ex41p -m ../data/periodic-square.mesh -rp 2 -dt 0.0025 -tf 9 -vs 20
// mpirun -np 4 ex41p -m ../data/periodic-cube.mesh -p 0 -rs 2 -o 2 -dt 0.01 -tf 8
//
// Device sample runs:
//
// Description: This example code solves the time-dependent advection-diffusion
// equation du/dt + v.grad(u) - a div(grad(u)) = 0, where v is a
// given fluid velocity, a is the diffusion coefficient, and
// u0(x)=u(0,x) is a given initial condition.
//
// The example demonstrates the use of Discontinuous Galerkin (DG)
// bilinear forms in MFEM (face integrators), DG-LOR Preconditioning
// and the use of IMEX ODE time integrators.
//
// The Option to use Continuous Finite Elements is available too.
#include "mfem.hpp"
using namespace std;
using namespace mfem;
// Mesh bounding box
Vector bb_min, bb_max;
// Velocity coefficient
template<int problem=0>
void velocity_function(const Vector &x, Vector &v)
{
int dim = x.Size();
// map to the reference [-1,1] domain
Vector X(dim);
for (int i = 0; i < dim; i++)
{
real_t center = (bb_min[i] + bb_max[i]) * 0.5;
X(i) = 2 * (x(i) - center) / (bb_max[i] - bb_min[i]);
}
switch (problem)
{
case 0:
{
// Translations in 1D, 2D, and 3D
switch (dim)
{
case 1: v(0) = 1.0; break;
case 2: v(0) = sqrt(2./3.); v(1) = sqrt(1./3.); break;
case 3: v(0) = sqrt(3./6.); v(1) = sqrt(2./6.); v(2) = sqrt(1./6.);
break;
}
break;
}
case 1:
case 2:
{
// Clockwise rotation in 2D around the origin
const real_t w = M_PI/2;
switch (dim)
{
case 1: v(0) = 1.0; break;
case 2: v(0) = w*X(1); v(1) = -w*X(0); break;
case 3: v(0) = w*X(1); v(1) = -w*X(0); v(2) = 0.0; break;
}
break;
}
case 3:
{
// Clockwise twisting rotation in 2D around the origin
const real_t w = M_PI/2;
real_t d = max((X(0)+1.)*(1.-X(0)),0.) * max((X(1)+1.)*(1.-X(1)),0.);
d = d*d;
switch (dim)
{
case 1: v(0) = 1.0; break;
case 2: v(0) = d*w*X(1); v(1) = -d*w*X(0); break;
case 3: v(0) = d*w*X(1); v(1) = -d*w*X(0); v(2) = 0.0; break;
}
break;
}
}
}
// Initial condition
template<int problem=0>
real_t u0_function(const Vector &x)
{
int dim = x.Size();
// map to the reference [-1,1] domain
Vector X(dim);
for (int i = 0; i < dim; i++)
{
real_t center = (bb_min[i] + bb_max[i]) * 0.5;
X(i) = 2 * (x(i) - center) / (bb_max[i] - bb_min[i]);
}
switch (problem)
{
case 0:
case 1:
{
switch (dim)
{
case 1:
return exp(-40.*pow(X(0)-0.5,2));
case 2:
case 3:
{
real_t rx = 0.45, ry = 0.25, cx = 0., cy = -0.2, w = 10.;
if (dim == 3)
{
const real_t s = (1. + 0.25*cos(2*M_PI*X(2)));
rx *= s;
ry *= s;
}
return ( std::erfc(w*(X(0)-cx-rx))*std::erfc(-w*(X(0)-cx+rx)) *
std::erfc(w*(X(1)-cy-ry))*std::erfc(-w*(X(1)-cy+ry)) )/16;
}
}
}
case 2:
{
real_t x_ = X(0), y_ = X(1), rho, phi;
rho = std::hypot(x_, y_);
phi = atan2(y_, x_);
return pow(sin(M_PI*rho),2)*sin(3*phi);
}
case 3:
{
const real_t f = M_PI;
return sin(f*X(0))*sin(f*X(1));
}
}
return 0.0;
}
class Implicit_Solver : public Solver
{
private:
HypreParMatrix &M, &S;
HypreParMatrix *A;
CGSolver linear_solver;
real_t dt;
SparseMatrix M_diag;
public:
Implicit_Solver(HypreParMatrix &M_, HypreParMatrix &S_,
const FiniteElementSpace &fes)
: M(M_),
S(S_),
A(nullptr),
linear_solver(M.GetComm()),
dt(1.0)
{
linear_solver.iterative_mode = false;
linear_solver.SetRelTol(1e-9);
linear_solver.SetAbsTol(0.0);
linear_solver.SetMaxIter(100);
linear_solver.SetPrintLevel(0);
M.GetDiag(M_diag);
}
void SetTimeStep(real_t dt_)
{
real_t ddt = dt-dt_;
// syncronize ddt across all processes
MPI_Comm comm = M.GetComm();
int myrank;
MPI_Comm_rank(comm, &myrank);
MPI_Bcast(&ddt, 1, MPI_DOUBLE, 0, comm);
real_t epsilon;
epsilon = std::numeric_limits<real_t>::epsilon();
// allow for some tolerance in the time stepping process
epsilon*=10;
if (fabs(ddt) > epsilon)
{
if (0==myrank)
{
cout << "Updating Implicit_Solver time step from " << dt
<< " to " << dt_ << endl;
}
delete A;
dt = dt_;
// Form operator A = M + dt*S
A = Add(dt, S, 1.0, M);
linear_solver.SetOperator(*A);
}
}
void SetOperator(const Operator &op) override
{
linear_solver.SetOperator(op);
}
void Mult(const Vector &x, Vector &y) const override
{
linear_solver.Mult(x, y);
}
void SetPreconditioner(Solver &precond)
{
linear_solver.SetPreconditioner(precond);
}
~Implicit_Solver() override
{
delete A;
}
};
/** A time-dependent operator for the right-hand side of the ODE. The DG weak
form of the advection-diffusion equation is (M + dt S) du/dt = Su - K u + b
, where M and K are the mass and advection matrices, and b describes the
flow on the boundary. In the case of IMEX evolution, the diffusion term is
treated implicitly, and the advection term is treated explicitly. */
class IMEX_Evolution : public TimeDependentOperator
{
private:
OperatorHandle M, K, S, A;
const Vector &b;
Solver *M_prec;
CGSolver M_solver;
Implicit_Solver *implicit_solver;
LORSolver<HypreBoomerAMG>* lor_solver;
mutable Vector z;
mutable Vector w;
public:
IMEX_Evolution(ParBilinearForm &M_, ParBilinearForm &K_, ParBilinearForm &S_,
const Vector &b_, ParBilinearForm &A_);
virtual
~IMEX_Evolution()
{
delete implicit_solver;
delete lor_solver;
delete M_prec;
}
void Mult1(const Vector &x, Vector &y) const;
void ImplicitSolve2(const real_t dt, const Vector &x, Vector &k);
void Mult(const Vector &x, Vector &y) const override
{
if (TimeDependentOperator::EvalMode::ADDITIVE_TERM_1 == GetEvalMode())
{
Mult1(x,y);
}
else
{
mfem_error("TimeDependentOperator::Mult() is not overridden!");
}
}
void ImplicitSolve(const real_t dt, const Vector &x, Vector &k) override
{
if (TimeDependentOperator::EvalMode::ADDITIVE_TERM_2 == GetEvalMode())
{
ImplicitSolve2(dt,x,k);
}
else
{
mfem_error("TimeDependentOperator::ImplicitSolve() is not overridden!");
}
}
};
int main(int argc, char *argv[])
{
// 1. Initialize MPI and HYPRE.
Mpi::Init();
int num_procs = Mpi::WorldSize();
int myid = Mpi::WorldRank();
Hypre::Init();
// 2. Parse command-line options.
int problem = 0;
const char *mesh_file = "../data/periodic-square.mesh";
int ser_ref_levels = 2;
int par_ref_levels = 0;
int order = 3;
int ode_solver_type = 64; // 61 - Forward Backward Euler
// 62 - IMEXRK2(2,2,2)
// 63 - IMEXRK2(2,3,2)
// 64 - IMEXRK3(3,4,3)
real_t t_final = 10.0;
real_t dt = 0.01;
bool paraview = false;
bool cg = false;
int vis_steps = 50;
bool adios2 = false;
bool binary = false;
real_t diffusion_term = 0.01;
real_t kappa = -1.0;
real_t sigma = -1.0;
bool visualization = true;
bool visit = false;
int precision = 16;
cout.precision(precision);
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&problem, "-p", "--problem",
"Problem setup to use. See options in velocity_function().");
args.AddOption(&ser_ref_levels, "-rs", "--refine-serial",
"Number of times to refine the mesh uniformly in serial.");
args.AddOption(&par_ref_levels, "-rp", "--refine-parallel",
"Number of times to refine the mesh uniformly in parallel.");
args.AddOption(&order, "-o", "--order",
"Order (degree) of the finite elements.");
args.AddOption(&ode_solver_type, "-s", "--ode-solver",
ODESolver::IMEXTypes.c_str());
args.AddOption(&t_final, "-tf", "--t-final",
"Final time; start time is 0.");
args.AddOption(&dt, "-dt", "--time-step",
"Time step.");
args.AddOption(&diffusion_term, "-dc", "--diffusion-coeff",
"Diffusion coefficient in the PDE.");
args.AddOption(&paraview, "-paraview", "--paraview-datafiles", "-no-paraview",
"--no-paraview-datafiles",
"Save data files for ParaView (paraview.org) visualization.");
args.AddOption(&visit, "-visit", "--visit-datafiles", "-no-visit",
"--no-visit-datafiles",
"Save data files for VisIt (visit.llnl.gov) visualization.");
args.AddOption(&adios2, "-adios2", "--adios2-streams", "-no-adios2",
"--no-adios2-streams",
"Save data using adios2 streams.");
args.AddOption(&binary, "-binary", "--binary-datafiles", "-ascii",
"--ascii-datafiles",
"Use binary (Sidre) or ascii format for VisIt data files.");
args.AddOption(&vis_steps, "-vs", "--visualization-steps",
"Visualize every n-th timestep.");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
args.AddOption(&cg, "-cg", "--continuous-galerkin", "-dg",
"--discontinuous-galerkin",
"Use Continuous-Galerkin Finite elements (Default is DG)");
args.Parse();
if (!args.Good())
{
if (Mpi::Root())
{
args.PrintUsage(cout);
}
return 1;
}
if (Mpi::Root())
{
args.PrintOptions(cout);
}
if (kappa < 0)
{
kappa = (order+1)*(order+1);
}
// 3. Read the mesh from the given mesh file. We can handle geometrically
// periodic meshes in this code.
Mesh *mesh = new Mesh(mesh_file);
const int dim = mesh->Dimension();
// 4. Define the IMEX (Split) ODE solver used for time integration. The IMEX
// solvers currently available are: 55 - Forward Backward Euler,
// 56 - IMEXRK2(2,2,2), 57 - IMEXRK2(2,3,2), and
unique_ptr<ODESolver> ode_solver = ODESolver::SelectIMEX(ode_solver_type);
// 5. Refine the mesh to increase the resolution. In this example we do
// 'ref_levels' of uniform refinement, where 'ref_levels' is a
// command-line parameter.
for (int lev = 0; lev < ser_ref_levels; lev++) { mesh->UniformRefinement(); }
if (mesh->NURBSext)
{
mesh->SetCurvature(max(order, 1));
}
mesh->GetBoundingBox(bb_min, bb_max, max(order, 1));
// 6. Define the parallel mesh by a partitioning of the serial mesh. Refine
// this mesh further in parallel to increase the resolution. Once the
// parallel mesh is defined, the serial mesh can be deleted.
ParMesh *pmesh = new ParMesh(MPI_COMM_WORLD, *mesh);
delete mesh;
for (int lev = 0; lev < par_ref_levels; lev++)
{
pmesh->UniformRefinement();
}
// 7. Define the discontinuous DG finite element space of the given
// polynomial order on the refined mesh.
FiniteElementCollection *fec = NULL;
if (cg)
{
fec = new H1_FECollection(order, dim);
}
else
{
fec = new DG_FECollection(order, dim, BasisType::GaussLobatto);
}
ParFiniteElementSpace *fes = new ParFiniteElementSpace(pmesh, fec);
HYPRE_BigInt global_vSize = fes->GlobalTrueVSize();
if (Mpi::Root())
{
cout << "Number of unknowns: " << global_vSize << endl;
}
// 8. Set up and assemble the bilinear and linear forms corresponding to the
// DG discretization. The DGTraceIntegrator involves integrals over mesh
// interior faces.
std::unique_ptr<VectorFunctionCoefficient> velocity;
if (0==problem)
{
velocity.reset(new VectorFunctionCoefficient(dim, velocity_function<0>));
}
else if (1==problem)
{
velocity.reset(new VectorFunctionCoefficient(dim, velocity_function<1>));
}
else if (2==problem)
{
velocity.reset(new VectorFunctionCoefficient(dim, velocity_function<2>));
}
else if (3==problem)
{
velocity.reset(new VectorFunctionCoefficient(dim, velocity_function<3>));
}
ConstantCoefficient diff_coeff(diffusion_term);
ConstantCoefficient dt_diff_coeff(dt*diffusion_term);
ParBilinearForm *m = new ParBilinearForm(fes);
ParBilinearForm *k = new ParBilinearForm(fes);
ParBilinearForm *s = new ParBilinearForm(fes);
m->AddDomainIntegrator(new MassIntegrator());
constexpr real_t alpha = -1.0;
k->AddDomainIntegrator(new ConvectionIntegrator(*velocity, alpha));
s->AddDomainIntegrator(new DiffusionIntegrator(diff_coeff));
// For the preconditioner - create billinear form corresponding to
// operator (M + dt S)
ParBilinearForm *a = new ParBilinearForm(fes);
a->AddDomainIntegrator(new MassIntegrator);
a->AddDomainIntegrator(new DiffusionIntegrator(dt_diff_coeff));
if (!cg)
{
k->AddInteriorFaceIntegrator(new NonconservativeDGTraceIntegrator(*velocity,
alpha));
k->AddBdrFaceIntegrator(new NonconservativeDGTraceIntegrator(*velocity, alpha));
s->AddInteriorFaceIntegrator(new DGDiffusionIntegrator(diff_coeff, sigma,
kappa));
s->AddBdrFaceIntegrator(new DGDiffusionIntegrator(diff_coeff, sigma, kappa));
a->AddInteriorFaceIntegrator(new DGDiffusionIntegrator(dt_diff_coeff, sigma,
kappa));
a->AddBdrFaceIntegrator(new DGDiffusionIntegrator(dt_diff_coeff, sigma, kappa));
}
int skip_zeros = 0;
m->Assemble(skip_zeros);
k->Assemble(skip_zeros);
s->Assemble(skip_zeros);
a->Assemble();
m->Finalize(skip_zeros);
k->Finalize(skip_zeros);
s->Finalize(skip_zeros);
a->Finalize(skip_zeros);
HypreParVector b(fes);
b = 0.0;
// 9. Define the initial conditions. Set up visualization (if desired).
std::unique_ptr<FunctionCoefficient> u0;
if (0==problem)
{
u0.reset(new FunctionCoefficient(u0_function<0>));
}
else if (1==problem)
{
u0.reset(new FunctionCoefficient(u0_function<1>));
}
else if (2==problem)
{
u0.reset(new FunctionCoefficient(u0_function<2>));
}
else if (3==problem)
{
u0.reset(new FunctionCoefficient(u0_function<3>));
}
ParGridFunction *u = new ParGridFunction(fes);
u->ProjectCoefficient(*u0);
HypreParVector *U = u->GetTrueDofs();
DataCollection *dc = NULL;
if (visit)
{
if (binary)
{
#ifdef MFEM_USE_SIDRE
dc = new SidreDataCollection("Example41-Parallel", pmesh);
#else
MFEM_ABORT("Must build with MFEM_USE_SIDRE=YES for binary output.");
#endif
}
else
{
dc = new VisItDataCollection("Example41-Parallel", pmesh);
dc->SetPrecision(precision);
// To save the mesh using MFEM's parallel mesh format:
// dc->SetFormat(DataCollection::PARALLEL_FORMAT);
}
dc->RegisterField("solution", u);
dc->SetCycle(0);
dc->SetTime(0.0);
dc->Save();
}
ParaViewDataCollection *pd = NULL;
if (paraview)
{
pd = new ParaViewDataCollection("Example41P", pmesh);
pd->SetPrefixPath("ParaView");
pd->RegisterField("solution", u);
pd->SetLevelsOfDetail(order);
pd->SetDataFormat(VTKFormat::BINARY);
pd->SetHighOrderOutput(true);
pd->SetCycle(0);
pd->SetTime(0.0);
pd->Save();
}
socketstream sout;
if (visualization)
{
char vishost[] = "localhost";
int visport = 19916;
sout.open(vishost, visport);
if (!sout)
{
if (Mpi::Root())
{
cout << "Unable to connect to GLVis server at "
<< vishost << ':' << visport << endl;
}
visualization = false;
if (Mpi::Root())
{
cout << "GLVis visualization disabled.\n";
}
}
else
{
sout << "parallel " << num_procs << " " << myid << "\n";
sout.precision(precision);
sout << "solution\n" << *pmesh << *u;
sout << "pause\n";
sout << flush;
if (Mpi::Root())
{
cout << "GLVis visualization paused."
<< " Press space (in the GLVis window) to resume it.\n";
}
}
}
#ifdef MFEM_USE_ADIOS2
ADIOS2DataCollection *adios2_dc = NULL;
if (adios2)
{
std::string postfix(mesh_file);
postfix.erase(0, std::string("../data/").size() );
postfix += "_o" + std::to_string(order);
const std::string collection_name = "ex41-p-" + postfix + ".bp";
adios2_dc = new ADIOS2DataCollection(MPI_COMM_WORLD, collection_name, pmesh);
// output data substreams are half the number of mpi processes
adios2_dc->SetParameter("SubStreams", std::to_string(num_procs/2) );
// adios2_dc->SetLevelsOfDetail(2);
adios2_dc->RegisterField("solution", u);
adios2_dc->SetCycle(0);
adios2_dc->SetTime(0.0);
adios2_dc->Save();
}
#endif
// 10. Define the time-dependent evolution operator describing the
// ODE right-hand side, and perform time-integration (looping
// over the time iterations, ti, with a time-step dt).
IMEX_Evolution adv(*m, *k, *s, b, *a);
real_t t = 0.0;
adv.SetTime(t);
ode_solver->Init(adv);
bool done = false;
for (int ti = 0; !done; )
{
real_t dt_real = min(dt, t_final - t);
ode_solver->Step(*U, t, dt_real);
ti++;
done = (t >= t_final - 1e-8*dt);
if (done || ti % vis_steps == 0)
{
if (Mpi::Root())
{
cout << "time step: " << ti << ", time: " << t << endl;
}
*u = *U;
if (visualization)
{
sout << "parallel " << num_procs << " " << myid << "\n";
sout << "solution\n" << *pmesh << *u << flush;
}
if (paraview)
{
pd->SetCycle(ti);
pd->SetTime(t);
pd->Save();
}
#ifdef MFEM_USE_ADIOS2
// transient solutions can be visualized with ParaView
if (adios2)
{
adios2_dc->SetCycle(ti);
adios2_dc->SetTime(t);
adios2_dc->Save();
}
#endif
}
}
// 11. Free the used memory.
delete pd;
delete U;
delete u;
delete a;
delete s;
delete k;
delete m;
delete fes;
delete pmesh;
delete dc;
delete fec;
return 0;
}
// Implementation of class IMEX_Evolution
IMEX_Evolution::IMEX_Evolution(ParBilinearForm &M_, ParBilinearForm &K_,
ParBilinearForm &S_, const Vector &b_, ParBilinearForm &A_)
: TimeDependentOperator(M_.ParFESpace()->GetTrueVSize()), b(b_),
M_solver(M_.ParFESpace()->GetComm()), z(height), w(height)
{
if (M_.GetAssemblyLevel()==AssemblyLevel::LEGACY)
{
M.Reset(M_.ParallelAssemble(), true);
K.Reset(K_.ParallelAssemble(), true);
S.Reset(S_.ParallelAssemble(), true);
}
else
{
M.Reset(&M_, false);
K.Reset(&K_, false);
S.Reset(&S_, false);
}
M_solver.SetOperator(*M);
Array<int> ess_tdof_list;
if (M_.GetAssemblyLevel() == AssemblyLevel::LEGACY)
{
A.Reset(A_.ParallelAssemble(), true);
HypreParMatrix &M_mat = *M.As<HypreParMatrix>();
HypreParMatrix &S_mat = *S.As<HypreParMatrix>();
HypreSmoother *hypre_prec = new HypreSmoother(M_mat, HypreSmoother::Jacobi);
M_prec = hypre_prec;
implicit_solver = new Implicit_Solver(M_mat, S_mat, *M_.FESpace());
lor_solver = new LORSolver<HypreBoomerAMG>(A_, ess_tdof_list);
lor_solver->GetSolver().SetSystemsOptions(A_.ParFESpace()->GetVDim(), true);
implicit_solver -> SetPreconditioner(*lor_solver);
}
else
{
MFEM_ABORT("Implicit time integration is not supported with partial assembly");
}
M_solver.SetPreconditioner(*M_prec);
M_solver.iterative_mode = false;
M_solver.SetRelTol(1e-9);
M_solver.SetAbsTol(0.0);
M_solver.SetMaxIter(100);
M_solver.SetPrintLevel(0);
}
void IMEX_Evolution::Mult1(const Vector &x, Vector &y) const
{
// Perform the explicit step
// y = M^{-1} (K x + b)
K->Mult(x, z);
z += b;
M_solver.Mult(z, y);
}
void IMEX_Evolution::ImplicitSolve2(const real_t dt, const Vector &x, Vector &k)
{
// Perform the implicit step
// solve for k, k = -(M+dt S)^{-1} S x
MFEM_VERIFY(implicit_solver != NULL,
"Implicit time integration is not supported with partial assembly");
S->Mult(x, z);
z*= -1.0;
implicit_solver->SetTimeStep(dt);
implicit_solver->Mult(z, k);
}
+1 -6
View File
@@ -9,7 +9,6 @@
// mpirun -np 4 ex4p -m ../data/beam-hex.mesh -o 2 -pa
// mpirun -np 4 ex4p -m ../data/escher.mesh -o 2 -sc
// mpirun -np 4 ex4p -m ../data/fichera.mesh -o 2 -hb
// mpirun -np 4 ex4p -m ../data/fichera.mesh -o 2 -hb -ea
// mpirun -np 4 ex4p -m ../data/fichera-q2.vtk
// mpirun -np 4 ex4p -m ../data/fichera-q3.mesh -o 2 -sc
// mpirun -np 4 ex4p -m ../data/square-disc-nurbs.mesh -o 3
@@ -18,18 +17,14 @@
// mpirun -np 4 ex4p -m ../data/periodic-cube.mesh -no-bc
// mpirun -np 4 ex4p -m ../data/amr-quad.mesh
// mpirun -np 3 ex4p -m ../data/amr-quad.mesh -o 2 -hb
// mpirun -np 3 ex4p -m ../data/amr-quad.mesh -o 2 -hb -ea
// mpirun -np 4 ex4p -m ../data/amr-hex.mesh -o 2 -sc
// mpirun -np 4 ex4p -m ../data/amr-hex.mesh -o 2 -hb
// mpirun -np 4 ex4p -m ../data/amr-hex.mesh -o 2 -hb -ea
// mpirun -np 4 ex4p -m ../data/ref-prism.mesh -o 1
// mpirun -np 4 ex4p -m ../data/octahedron.mesh -o 1
// mpirun -np 4 ex4p -m ../data/star-surf.mesh -o 3 -hb
//
// Device sample runs:
// mpirun -np 4 ex4p -m ../data/star.mesh -pa -d cuda
// mpirun -np 4 ex4p -m ../data/star.mesh -ea -hb -d cuda
// mpirun -np 4 ex4p -m ../data/amr-hex.mesh -ea -hb -d cuda
// mpirun -np 4 ex4p -m ../data/star.mesh -pa -d raja-cuda
// mpirun -np 4 ex4p -m ../data/star.mesh -pa -d raja-omp
// mpirun -np 4 ex4p -m ../data/beam-hex.mesh -pa -d cuda
@@ -235,7 +230,7 @@ int main(int argc, char *argv[])
pcg->SetMaxIter(2000);
pcg->SetPrintLevel(1);
if (hybridization) { prec = new HypreBoomerAMG(*A.As<HypreParMatrix>()); }
else if (pa || ea) { prec = new OperatorJacobiSmoother(*a, ess_tdof_list); }
else if (pa) { prec = new OperatorJacobiSmoother(*a, ess_tdof_list); }
else
{
ParFiniteElementSpace *prec_fespace =
+1 -20
View File
@@ -160,7 +160,6 @@ int main(int argc, char *argv[])
bool paraview = false;
bool binary = false;
int vis_steps = 5;
bool solve_implicit_state = false;
int precision = 8;
cout.precision(precision);
@@ -188,9 +187,6 @@ int main(int argc, char *argv[])
"Final time; start time is 0.");
args.AddOption(&dt, "-dt", "--time-step",
"Time step.");
args.AddOption(&solve_implicit_state, "-imp-state", "--implicit-state",
"-imp-slope", "--implicit-slope",
"Implicitly solve for stage state or slope.");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
@@ -370,11 +366,6 @@ int main(int argc, char *argv[])
// right-hand side, and perform time-integration (looping over the time
// iterations, ti, with a time-step dt).
FE_Evolution adv(m, k, b);
using ImplicitVariableType = FE_Evolution::ImplicitVariableType;
ImplicitVariableType imp_var = solve_implicit_state ?
ImplicitVariableType::STATE
: ImplicitVariableType::SLOPE;
adv.SetImplicitVariableType(imp_var);
real_t t = 0.0;
adv.SetTime(t);
@@ -468,17 +459,7 @@ void FE_Evolution::ImplicitSolve(const real_t dt, const Vector &x, Vector &k)
{
MFEM_VERIFY(dg_solver != NULL,
"Implicit time integration is not supported with partial assembly");
// Construct current right-hand side for stage state vs. slope solve
if (ImplicitVarTypeIsState())
{
// k, on return, is the stage value u
M.Mult(x, z);
}
else
{
// k, on return, is the stage slope du/dt
K.Mult(x, z);
}
K.Mult(x, z);
z += b;
dg_solver->SetTimeStep(dt);
dg_solver->Mult(z, k);
+1 -20
View File
@@ -257,7 +257,6 @@ int main(int argc, char *argv[])
bool adios2 = false;
bool binary = false;
int vis_steps = 5;
bool solve_implicit_state = false;
#if MFEM_HYPRE_VERSION >= 21800
PrecType prec_type = PrecType::AIR;
#else
@@ -291,9 +290,6 @@ int main(int argc, char *argv[])
"Final time; start time is 0.");
args.AddOption(&dt, "-dt", "--time-step",
"Time step.");
args.AddOption(&solve_implicit_state, "-imp-state", "--implicit-state",
"-imp-slope", "--implicit-slope",
"Implicitly solve for stage state or slope.");
args.AddOption((int *)&prec_type, "-pt", "--prec-type", "Preconditioner for "
"implicit solves. 0 for ILU, 1 for pAIR-AMG.");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
@@ -540,11 +536,6 @@ int main(int argc, char *argv[])
// right-hand side, and perform time-integration (looping over the time
// iterations, ti, with a time-step dt).
FE_Evolution adv(*m, *k, *B, prec_type);
using ImplicitVariableType = FE_Evolution::ImplicitVariableType;
ImplicitVariableType imp_var = solve_implicit_state ?
ImplicitVariableType::STATE
: ImplicitVariableType::SLOPE;
adv.SetImplicitVariableType(imp_var);
real_t t = 0.0;
adv.SetTime(t);
@@ -685,17 +676,7 @@ FE_Evolution::FE_Evolution(ParBilinearForm &M_, ParBilinearForm &K_,
// (M - dt*K) d = K*u + b
void FE_Evolution::ImplicitSolve(const real_t dt, const Vector &x, Vector &k)
{
// Construct current right-hand side for stage state vs. slope solve
if (ImplicitVarTypeIsState())
{
// k, on return, is the stage value u
M->Mult(x, z);
}
else
{
// k, on return, is the stage slope du/dt
K->Mult(x, z);
}
K->Mult(x, z);
z += b;
dg_solver->SetTimeStep(dt);
dg_solver->Mult(z, k);
-6
View File
@@ -14,12 +14,6 @@ list(APPEND GINKGO_EXAMPLES_SRCS
ex1.cpp
)
if (MFEM_USE_MPI AND GINKGO_BUILD_MPI)
list(APPEND GINKGO_EXAMPLES_SRCS
ex1p.cpp
)
endif()
# Include the source directory where mfem.hpp and mfem-performance.hpp are.
include_directories(BEFORE ${PROJECT_BINARY_DIR})
+3 -3
View File
@@ -207,7 +207,7 @@ int main(int argc, char *argv[])
Ginkgo::IcPreconditioner ginkgo_precond(exec, "paric", 30);
Ginkgo::CGSolver ginkgo_solver(exec, ginkgo_precond);
ginkgo_solver.SetPrintLevel(print_lvl);
ginkgo_solver.SetRelTol(sqrt(1e-12));
ginkgo_solver.SetRelTol(1e-12);
ginkgo_solver.SetAbsTol(0.0);
ginkgo_solver.SetMaxIter(400);
ginkgo_solver.SetOperator(*(A.Ptr()));
@@ -225,7 +225,7 @@ int main(int argc, char *argv[])
Ginkgo::MFEMPreconditioner gko_M(exec, M);
Ginkgo::CGSolver ginkgo_solver(exec, gko_M);
ginkgo_solver.SetPrintLevel(print_lvl);
ginkgo_solver.SetRelTol(sqrt(1e-12));
ginkgo_solver.SetRelTol(1e-12);
ginkgo_solver.SetAbsTol(0.0);
ginkgo_solver.SetMaxIter(400);
ginkgo_solver.SetOperator(*(A.Ptr()));
@@ -283,7 +283,7 @@ int main(int argc, char *argv[])
Ginkgo::MFEMPreconditioner gko_M(exec, M);
Ginkgo::CGSolver ginkgo_solver(exec, gko_M);
ginkgo_solver.SetPrintLevel(print_lvl);
ginkgo_solver.SetRelTol(sqrt(1e-12));
ginkgo_solver.SetRelTol(1e-12);
ginkgo_solver.SetAbsTol(0.0);
ginkgo_solver.SetMaxIter(400);
ginkgo_solver.SetOperator(*(A.Ptr()));
-436
View File
@@ -1,436 +0,0 @@
// MFEM Example 1 - Parallel Version
// GINKGO Modification
//
// Compile with: make ex1p
//
// Sample runs: mpirun -np 4 ex1p -m ../data/square-disc.mesh
// mpirun -np 4 ex1p -m ../data/star.mesh
// mpirun -np 4 ex1p -m ../data/star-mixed.mesh
// mpirun -np 4 ex1p -m ../data/escher.mesh
// mpirun -np 4 ex1p -m ../data/fichera.mesh
// mpirun -np 4 ex1p -m ../data/fichera-mixed.mesh
// mpirun -np 4 ex1p -m ../data/toroid-wedge.mesh
// mpirun -np 4 ex1p -m ../data/octahedron.mesh -o 1
// mpirun -np 4 ex1p -m ../data/periodic-annulus-sector.msh
// mpirun -np 4 ex1p -m ../data/periodic-torus-sector.msh
// mpirun -np 4 ex1p -m ../data/square-disc-p2.vtk -o 2
// mpirun -np 4 ex1p -m ../data/square-disc-p3.mesh -o 3
// mpirun -np 4 ex1p -m ../data/square-disc-nurbs.mesh -o -1
// mpirun -np 4 ex1p -m ../data/star-mixed-p2.mesh -o 2
// mpirun -np 4 ex1p -m ../data/disc-nurbs.mesh -o -1
// mpirun -np 4 ex1p -m ../data/pipe-nurbs.mesh -o -1
// mpirun -np 4 ex1p -m ../data/ball-nurbs.mesh -o 2
// mpirun -np 4 ex1p -m ../data/fichera-mixed-p2.mesh -o 2
// mpirun -np 4 ex1p -m ../data/star-surf.mesh
// mpirun -np 4 ex1p -m ../data/square-disc-surf.mesh
// mpirun -np 4 ex1p -m ../data/inline-segment.mesh
// mpirun -np 4 ex1p -m ../data/amr-quad.mesh
// mpirun -np 4 ex1p -m ../data/amr-hex.mesh
// mpirun -np 4 ex1p -m ../data/mobius-strip.mesh
// mpirun -np 4 ex1p -m ../data/mobius-strip.mesh -o -1 -sc
//
// Device sample runs:
// mpirun -np 4 ex1p -pa -d cuda
// mpirun -np 4 ex1p -fa -d cuda
// mpirun -np 4 ex1p -pa -d occa-cuda
// mpirun -np 4 ex1p -pa -d raja-omp
// mpirun -np 4 ex1p -pa -d ceed-cpu
// mpirun -np 4 ex1p -pa -d ceed-cpu -o 4 -a
// mpirun -np 4 ex1p -pa -d ceed-cpu -m ../data/square-mixed.mesh
// mpirun -np 4 ex1p -pa -d ceed-cpu -m ../data/fichera-mixed.mesh
// * mpirun -np 4 ex1p -pa -d ceed-cuda
// * mpirun -np 4 ex1p -pa -d ceed-hip
// mpirun -np 4 ex1p -pa -d ceed-cuda:/gpu/cuda/shared
// mpirun -np 4 ex1p -pa -d ceed-cuda:/gpu/cuda/shared -m ../data/square-mixed.mesh
// mpirun -np 4 ex1p -pa -d ceed-cuda:/gpu/cuda/shared -m ../data/fichera-mixed.mesh
// mpirun -np 4 ex1p -m ../data/beam-tet.mesh -pa -d ceed-cpu
//
// Description: This example code demonstrates the use of MFEM to define a
// simple finite element discretization of the Laplace problem
// -Delta u = 1 with homogeneous Dirichlet boundary conditions.
// Specifically, we discretize using a FE space of the specified
// order, or if order < 1 using an isoparametric/isogeometric
// space (i.e. quadratic for quadratic curvilinear mesh, NURBS for
// NURBS mesh, etc.)
//
// The example highlights the use of mesh refinement, finite
// element grid functions, as well as linear and bilinear forms
// corresponding to the left-hand side and right-hand side of the
// discrete linear system. We also cover the explicit elimination
// of essential boundary conditions, static condensation, and the
// optional connection to the GLVis tool for visualization.
#include "mfem.hpp"
#include <fstream>
#include <iostream>
#ifndef MFEM_USE_GINKGO
#error This example requires that MFEM is built with MFEM_USE_GINKGO=YES
#endif
using namespace std;
using namespace mfem;
int main(int argc, char *argv[])
{
// 1. Initialize MPI and HYPRE.
Mpi::Init();
int num_procs = Mpi::WorldSize();
int myid = Mpi::WorldRank();
Hypre::Init();
// 2. Parse command-line options.
const char *mesh_file = "../../data/star.mesh";
int order = 1;
bool static_cond = false;
bool pa = false;
bool fa = false;
const char *device_config = "cpu";
bool visualization = true;
int solver_config = 0;
int print_lvl = 1;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&order, "-o", "--order",
"Finite element order (polynomial degree) or -1 for"
" isoparametric space.");
args.AddOption(&static_cond, "-sc", "--static-condensation", "-no-sc",
"--no-static-condensation", "Enable static condensation.");
args.AddOption(&pa, "-pa", "--partial-assembly", "-no-pa",
"--no-partial-assembly", "Enable Partial Assembly.");
args.AddOption(&fa, "-fa", "--full-assembly", "-no-fa",
"--no-full-assembly", "Enable Full Assembly.");
args.AddOption(&device_config, "-d", "--device",
"Device configuration string, see Device::Configure().");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
args.AddOption(&solver_config, "-s", "--solver-config",
"Solver and preconditioner combination: \n\t"
" 0 - Ginkgo solver and Ginkgo preconditioner, \n\t"
" 1 - Ginkgo solver and MFEM preconditioner, \n\t"
" 2 - MFEM solver and Ginkgo preconditioner, \n\t"
" 3 - MFEM solver and MFEM preconditioner.");
args.AddOption(&print_lvl, "-pl", "--print-level",
"Print level for iterative solver (1 prints every iteration).");
args.Parse();
if (!args.Good())
{
if (myid == 0)
{
args.PrintUsage(cout);
}
return 1;
}
if (myid == 0)
{
args.PrintOptions(cout);
}
// 3. Enable hardware devices such as GPUs, and programming models such as
// CUDA, OCCA, RAJA and OpenMP based on command line options.
Device device(device_config);
device.SetGPUAwareMPI(true);
if (myid == 0) { device.Print(); }
// 4. Read the (serial) mesh from the given mesh file on all processors. We
// can handle triangular, quadrilateral, tetrahedral, hexahedral, surface
// and volume meshes with the same code.
Mesh mesh(mesh_file, 1, 1);
int dim = mesh.Dimension();
// 5. Refine the serial mesh on all processors to increase the resolution. In
// this example we do 'ref_levels' of uniform refinement. We choose
// 'ref_levels' to be the largest number that gives a final mesh with no
// more than 10,000 elements.
{
int ref_levels =
(int)floor(log(10000./mesh.GetNE())/log(2.)/dim);
for (int l = 0; l < ref_levels; l++)
{
mesh.UniformRefinement();
}
}
// 6. Define a parallel mesh by a partitioning of the serial mesh. Refine
// this mesh further in parallel to increase the resolution. Once the
// parallel mesh is defined, the serial mesh can be deleted.
ParMesh pmesh(MPI_COMM_WORLD, mesh);
mesh.Clear();
{
int par_ref_levels = 2;
for (int l = 0; l < par_ref_levels; l++)
{
pmesh.UniformRefinement();
}
}
// 7. Define a parallel finite element space on the parallel mesh. Here we
// use continuous Lagrange finite elements of the specified order. If
// order < 1, we instead use an isoparametric/isogeometric space.
FiniteElementCollection *fec;
bool delete_fec;
if (order > 0)
{
fec = new H1_FECollection(order, dim);
delete_fec = true;
}
else if (pmesh.GetNodes())
{
fec = pmesh.GetNodes()->OwnFEC();
delete_fec = false;
if (myid == 0)
{
cout << "Using isoparametric FEs: " << fec->Name() << endl;
}
}
else
{
fec = new H1_FECollection(order = 1, dim);
delete_fec = true;
}
ParFiniteElementSpace fespace(&pmesh, fec);
HYPRE_BigInt size = fespace.GlobalTrueVSize();
if (myid == 0)
{
cout << "Number of finite element unknowns: " << size << endl;
}
// 8. Determine the list of true (i.e. parallel conforming) essential
// boundary dofs. In this example, the boundary conditions are defined
// by marking all the boundary attributes from the mesh as essential
// (Dirichlet) and converting them to a list of true dofs.
Array<int> ess_tdof_list;
if (pmesh.bdr_attributes.Size())
{
Array<int> ess_bdr(pmesh.bdr_attributes.Max());
ess_bdr = 1;
fespace.GetEssentialTrueDofs(ess_bdr, ess_tdof_list);
}
// 9. Set up the parallel linear form b(.) which corresponds to the
// right-hand side of the FEM linear system, which in this case is
// (1,phi_i) where phi_i are the basis functions in fespace.
ParLinearForm b(&fespace);
ConstantCoefficient one(1.0);
b.AddDomainIntegrator(new DomainLFIntegrator(one));
b.Assemble();
// 10. Define the solution vector x as a parallel finite element grid
// function corresponding to fespace. Initialize x with initial guess of
// zero, which satisfies the boundary conditions.
ParGridFunction x(&fespace);
x = 0.0;
// 11. Set up the parallel bilinear form a(.,.) on the finite element space
// corresponding to the Laplacian operator -Delta, by adding the
// Diffusion domain integrator.
ParBilinearForm a(&fespace);
if (pa) { a.SetAssemblyLevel(AssemblyLevel::PARTIAL); }
if (fa)
{
a.SetAssemblyLevel(AssemblyLevel::FULL);
// Sort the matrix column indices when running on GPU or with OpenMP (i.e.
// when Device::IsEnabled() returns true). This makes the results
// bit-for-bit deterministic at the cost of somewhat longer run time.
a.EnableSparseMatrixSorting(Device::IsEnabled());
}
a.AddDomainIntegrator(new DiffusionIntegrator(one));
// 12. Assemble the parallel bilinear form and the corresponding linear
// system, applying any necessary transformations such as: parallel
// assembly, eliminating boundary conditions, applying conforming
// constraints for non-conforming AMR, static condensation, etc.
if (static_cond) { a.EnableStaticCondensation(); }
a.Assemble();
OperatorPtr A;
Vector B, X;
a.FormLinearSystem(ess_tdof_list, x, b, A, X, B);
// 13. Solve the linear system A X = B.
if (!pa)
{
switch (solver_config)
{
// Solve the linear system with CG + Schwarz (with IC) from Ginkgo
case 0:
{
if (myid == 0) { cout << "Using Ginkgo solver + preconditioner...\n"; }
Ginkgo::GinkgoExecutor exec(device);
Ginkgo::IcPreconditioner local_solver(exec, "exact");
Ginkgo::SchwarzPreconditioner gko_M(exec, MPI_COMM_WORLD, local_solver);
Ginkgo::CGSolver ginkgo_solver(exec, MPI_COMM_WORLD, gko_M);
ginkgo_solver.SetPrintLevel(print_lvl);
ginkgo_solver.SetRelTol(sqrt(1e-12));
ginkgo_solver.SetAbsTol(0.0);
ginkgo_solver.SetMaxIter(400);
ginkgo_solver.SetOperator(*(A.Ptr()));
ginkgo_solver.Mult(B, X);
break;
}
// Solve the linear system with CG from Ginkgo + MFEM preconditioner
case 1:
{
if (myid == 0) { cout << "Using Ginkgo solver + MFEM preconditioner...\n"; }
Ginkgo::GinkgoExecutor exec(device);
//Create MFEM preconditioner and wrap it for Ginkgo's use.
HypreBoomerAMG M((HypreParMatrix&)(*A));
Ginkgo::MFEMPreconditioner gko_M(exec, M, MPI_COMM_WORLD);
Ginkgo::CGSolver ginkgo_solver(exec, MPI_COMM_WORLD, gko_M);
ginkgo_solver.SetPrintLevel(print_lvl);
ginkgo_solver.SetRelTol(sqrt(1e-12));
ginkgo_solver.SetAbsTol(0.0);
ginkgo_solver.SetMaxIter(400);
ginkgo_solver.SetOperator(*(A.Ptr()));
ginkgo_solver.Mult(B, X);
break;
}
// Ginkgo Schwarz preconditioner (local ParIC) + MFEM CG solver
case 2:
{
if (myid == 0) { cout << "Using MFEM solver + Ginkgo preconditioner...\n"; }
Ginkgo::GinkgoExecutor exec(device);
Ginkgo::IcPreconditioner local_M(exec, "exact");
Ginkgo::SchwarzPreconditioner M(exec, MPI_COMM_WORLD, local_M);
M.SetOperator(*(A.Ptr())); // Generate the preconditioner for the matrix A.
CGSolver cg(MPI_COMM_WORLD);
cg.SetRelTol(sqrt(1e-12));
cg.SetMaxIter(400);
cg.SetPrintLevel(1);
cg.SetPreconditioner(M);
cg.SetOperator(*A);
cg.Mult(B, X);
break;
}
// MFEM solver + MFEM preconditioner
case 3:
{
if (myid == 0) { cout << "Using MFEM solver + MFEM preconditioner...\n"; }
HypreBoomerAMG M((HypreParMatrix&)(*A));
CGSolver cg(MPI_COMM_WORLD);
cg.SetRelTol(sqrt(1e-12));
cg.SetMaxIter(400);
cg.SetPrintLevel(1);
cg.SetPreconditioner(M);
cg.SetOperator(*A);
cg.Mult(B, X);
break;
}
} // End switch on solver_config
}
// Partial assembly mode. Cannot use Ginkgo preconditioners, but can use Ginkgo
// solvers.
else
{
if (UsesTensorBasis(fespace))
{
// Use Jacobi preconditioning in partial assembly mode.
OperatorJacobiSmoother M(a, ess_tdof_list);
switch (solver_config)
{
case 0:
{
if (myid == 0) { cout << "Using Ginkgo solver + preconditioner...\n"; }
MFEM_ABORT("Cannot use Ginkgo preconditioner in partial assembly mode.\n"
" Try -s 1 to test Ginkgo solver with an MFEM preconditioner.");
break;
}
// Use Ginkgo solver with MFEM preconditioner
case 1:
{
if (myid == 0) { cout << "Using Ginkgo solver + MFEM preconditioner...\n"; }
Ginkgo::GinkgoExecutor exec(device);
// Wrap MFEM preconditioner for Ginkgo's use.
Ginkgo::MFEMPreconditioner gko_M(exec, M, MPI_COMM_WORLD);
Ginkgo::CGSolver ginkgo_solver(exec, MPI_COMM_WORLD, gko_M);
ginkgo_solver.SetPrintLevel(print_lvl);
ginkgo_solver.SetRelTol(sqrt(1e-12));
ginkgo_solver.SetAbsTol(0.0);
ginkgo_solver.SetMaxIter(400);
ginkgo_solver.SetOperator(*(A.Ptr()));
ginkgo_solver.Mult(B, X);
break;
}
// No Ginkgo preconditioners work with matrix-free; error
case 2:
{
if (myid == 0) { cout << "Using Ginkgo solver + preconditioner...\n"; }
MFEM_ABORT("Cannot use Ginkgo preconditioner in partial assembly mode.\n"
" Try -s 1 to test Ginkgo solver with an MFEM preconditioner.");
break;
}
// Use MFEM solver and preconditioner
case 3:
{
if (myid == 0) { cout << "Using MFEM solver + MFEM preconditioner...\n"; }
CGSolver cg(MPI_COMM_WORLD);
cg.SetRelTol(sqrt(1e-12));
cg.SetMaxIter(400);
cg.SetPrintLevel(1);
cg.SetPreconditioner(M);
cg.SetOperator(*A);
cg.Mult(B, X);
break;
}
} // End switch on solver_config
}
else // CG with no preconditioning
{
if (myid == 0) { cout << "Using MFEM solver + no preconditioner...\n"; }
CGSolver cg(MPI_COMM_WORLD);
cg.SetRelTol(sqrt(1e-12));
cg.SetMaxIter(400);
cg.SetPrintLevel(1);
cg.SetOperator(*A);
cg.Mult(B, X);
}
}
// 14. Recover the parallel grid function corresponding to X. This is the
// local finite element solution on each processor.
a.RecoverFEMSolution(X, b, x);
// 15. Save the refined mesh and the solution in parallel. This output can
// be viewed later using GLVis: "glvis -np <np> -m mesh -g sol".
{
ostringstream mesh_name, sol_name;
mesh_name << "mesh." << setfill('0') << setw(6) << myid;
sol_name << "sol." << setfill('0') << setw(6) << myid;
ofstream mesh_ofs(mesh_name.str().c_str());
mesh_ofs.precision(8);
pmesh.Print(mesh_ofs);
ofstream sol_ofs(sol_name.str().c_str());
sol_ofs.precision(8);
x.Save(sol_ofs);
}
// 16. Send the solution by socket to a GLVis server.
if (visualization)
{
char vishost[] = "localhost";
int visport = 19916;
socketstream sol_sock(vishost, visport);
sol_sock << "parallel " << num_procs << " " << myid << "\n";
sol_sock.precision(8);
sol_sock << "solution\n" << pmesh << x << flush;
}
// 17. Free the used memory.
if (delete_fec)
{
delete fec;
}
return 0;
}
+2 -1
View File
@@ -20,8 +20,9 @@ CONFIG_MK = $(or $(wildcard $(MFEM_BUILD_DIR)/config/config.mk),\
MFEM_LIB_FILE = mfem_is_not_built
-include $(CONFIG_MK)
# Currently there are only serial Ginkgo examples
SEQ_EXAMPLES = ex1
PAR_EXAMPLES = ex1p
PAR_EXAMPLES =
ifeq ($(MFEM_USE_MPI),NO)
EXAMPLES = $(SEQ_EXAMPLES)
else
+4 -8
View File
@@ -22,11 +22,11 @@ MFEM_LIB_FILE = mfem_is_not_built
SEQ_EXAMPLES = ex0 ex1 ex2 ex3 ex4 ex5 ex6 ex7 ex8 ex9 ex10 ex14 ex15 ex16 \
ex17 ex18 ex19 ex20 ex21 ex22 ex23 ex24 ex25 ex26 ex27 ex28 ex29 ex30 \
ex31 ex33 ex34 ex36 ex37 ex38 ex39 ex40 ex41
ex31 ex33 ex34 ex36 ex37 ex38 ex39 ex40
PAR_EXAMPLES = ex0p ex1p ex2p ex3p ex4p ex5p ex6p ex7p ex8p ex9p ex10p ex11p \
ex12p ex13p ex14p ex15p ex16p ex17p ex18p ex19p ex20p ex21p ex22p ex24p \
ex25p ex26p ex27p ex28p ex29p ex30p ex31p ex32p ex33p ex34p ex35p ex36p \
ex37p ex39p ex40p ex41p
ex37p ex39p ex40p
SEQ_DEVICE_EXAMPLES = ex1 ex3 ex4 ex5 ex6 ex9 ex14 ex22 ex24 ex25 ex26 ex34
PAR_DEVICE_EXAMPLES = ex1p ex2p ex3p ex4p ex5p ex6p ex7p ex9p ex13p ex14p \
ex22p ex24p ex25p ex26p ex34p ex35p
@@ -157,10 +157,6 @@ ex37-test-seq: ex37
@$(call mfem-test,$<,, Serial example,-mi 3)
ex37p-test-par: ex37p
@$(call mfem-test,$<, $(RUN_MPI), Parallel example,-mi 3)
ex41-test-seq: ex41
@$(call mfem-test,$<,, Serial example,-tf 1.0)
ex41p-test-par: ex41p
@$(call mfem-test,$<, $(RUN_MPI), Parallel example,-tf 1.0)
# Testing: optional tests
ifeq ($(MFEM_USE_STRUMPACK),YES)
ex11p-test-strumpack: ex11p
@@ -199,8 +195,8 @@ clean-build:
clean-exec:
@rm -f refined.mesh displaced.mesh mesh.* ex5.mesh ex6p-checkpoint.*
@rm -rf Example5* Example9* Example15* Example16* Example23* ParaView
@rm -f sphere_refined.* sol.* sol_u.* sol_p.* sol_r.* sol_i.* sol_z.*
@rm -f order.* ex9.mesh ex9-mesh.* ex9-init.* ex9-final.*
@rm -f sphere_refined.* sol.* sol_u.* sol_p.* sol_r.* sol_i.* order.*
@rm -f ex9.mesh ex9-mesh.* ex9-init.* ex9-final.*
@rm -f deformed.* velocity.* elastic_energy.* mode_* mode_deriv_* flux.*
@rm -f ex5-p-*.bp ex9-p-*.bp ex12-p-*.bp ex16-p-*.bp
@rm -f ex16.mesh ex16-mesh.* ex16-init.* ex16-final.*
+119 -66
View File
@@ -28,10 +28,8 @@
//
// The example demonstrates the use of nonlinear operators (the
// class ConductionOperator defining C(u)), as well as their
// implicit time integration. Note that implementing the method
// ConductionOperator::ImplicitSolve is the only requirement for
// high-order implicit (SDIRK) time integration. By default, this
// example uses the SUNDIALS ODE solvers from CVODE and ARKODE.
// implicit time integration. By default, this example uses the
// SUNDIALS ODE solvers from CVODE and ARKODE.
//
// We recommend viewing examples 2, 9 and 10 before viewing this
// example.
@@ -51,15 +49,16 @@ using namespace mfem;
* and K(u) is the diffusion operator with diffusivity depending on u:
* (\kappa + \alpha u).
*
* Class ConductionOperatorOperator represents the above ODE operator in the
* general form F(u, k, t) = G(u, t) where
* Class ConductionOperator represents the above ODE operator as a
* TimeDependentOperator for use with native MFEM integrators and CVODE
* integrators, i.e., F(u, k, t) = G(u, t) with F(u, du/dt, t) = du/dt and
* G(u, t) = -K(u) u
*
* 1. F(u, du/dt, t) = du/dt (ODE is expressed in EXPLICIT form)
* G(u, t) = - inv(M) K(u) u
* 2. F(u, du/dt, t) = M du/dt (ODE is expressed in IMPLICIT form)
* G(u, t) = - K(u) u
* Class ConductionOperator represents the above ODE operator as an
* ARKStepODE for use with ARKODE integrators, i.e., either M du/dt = -K(u) u
* (mass form) or du/dt = -inv(M) K(u) u (MFEM form)
*/
class ConductionOperator : public TimeDependentOperator
class ConductionOperator : public TimeDependentOperator, public ARKStepODE
{
FiniteElementSpace &fespace;
Array<int> ess_tdof_list; // this list remains empty for pure Neumann b.c.
@@ -81,50 +80,90 @@ class ConductionOperator : public TimeDependentOperator
mutable Vector z; // auxiliary vector
const bool use_mass_form;
public:
ConductionOperator(FiniteElementSpace &f, const real_t alpha,
const real_t kappa, const Vector &u,
const Type &ode_expression_type);
const bool use_mass_form);
// Compute K(u_n) for use as an approximation in - K(u) u
void SetConductionTensor(const Vector &u);
/** Compute G(u, t) as defined in the IMPLICIT expression form of the ODE
operator, i.e., @a v = - K(u_n) @a u. Note that K(u_n) is an
approximation to K(u). */
void ExplicitMult(const Vector &u, Vector &v) const override;
// ********* methods for MFEM native time integrators *********
/** Solve for k in F(u, k, t) = G(u, t) for either EXPLICIT or IMPLICIT
expression forms of the ODE operator, i.e., @a k = - inv(M) K(u_n) @a u.
/** Solve for k in F(u, k, t) = G(u, t), i.e., @a k = - inv(M) K(u_n) @a u.
Note that K(u_n) is an approximation to K(u). */
void Mult(const Vector &u, Vector &k) const override;
/** Solve for k in F(u + gam*k, k, t) = G(u + gam*k, t) for either EXPLICIT
or IMPLICIT expression forms of the ODE operator, i.e.,
[ M + @a gam K(u_n) ] @a k = - K(u_n) @a u . Note that K(u_n) is an
approximation to K(u). */
/** Solve for k in F(u + gam*k, k, t) = G(u + gam*k, t), i.e.,
[ M + @a gam K(u_n) ] @a k = - K(u_n) @a u .
Note that K(u_n) is an approximation to K(u). */
void ImplicitSolve(const real_t gam, const Vector &u, Vector &k) override;
/** Setup to solve for dk in [dF/dk + gam*dF/du - gam*dG/du] dk = G - F for
either EXPLICIT or IMPLICIT expression forms of the ODE operator, i.e.,
[M - @a gam Jf(u)] dk = G - F, where Jf(u) is an approximation of the
Jacobian of -K(u) u. The approximation chosen here is Jf(u) = -K(u_n). */
int SUNImplicitSetup(const Vector &u, const Vector &fu, int jok, int *jcur,
real_t gam) override;
// ********* methods for ARKODE time integrators *********
// TODO: add comments
int ARKSize() const override;
// TODO: add comments
bool ARKInMassForm() const override;
// TODO: add comments
void ARKEvaluateRHS(const Vector &u, const real_t t, Vector &result) const override;
// TODO: add comments
int ARKImplicitSetup(const Vector &u, const real_t t, const Vector &fu,
int jok, int *jcur, real_t gam) override;
/** Solve for @a dk in the system in SUNImplicitSetup to the given tolerance,
with the residual @a r providing either
1. @a r = G - F = inv(M) f(u) - k (EXPLICIT expression form)
1. @a r = G - F = f(u) - M k (IMPLICIT expression form)
1. @a r = G - F = inv(M) f(u) - k (MFEM form)
1. @a r = G - F = f(u) - M k (mass form)
*/
int SUNImplicitSolve(const Vector &r, Vector &dk, real_t tol) override;
int ARKImplicitSolve(const Vector &r, Vector &dk, real_t tol) override;
int SUNMassSetup() override;
int ARKMassSetup(const real_t t) override;
int SUNMassSolve(const Vector &b, Vector &x, real_t tol) override;
int ARKMassSolve(const Vector &b, Vector &x, real_t tol) override;
int SUNMassMult(const Vector &x, Vector &v) override;
int ARKMassMult(const Vector &x, Vector &v) override;
// ********* methods for CVODE time integrators *********
// note these methods merely call the corresponding ARKStepODE methods until
// the CVODESolver is refactored to use specialized interface like ARKStepODE
/** Setup to solve for dk in [dF/dk + gam*dF/du - gam*dG/du] dk = G - F, i.e.,
[M - @a gam Jf(u)] dk = G - F, where Jf(u) is an approximation of the
Jacobian of -K(u) u. The approximation chosen here is Jf(u) = -K(u_n). */
int SUNImplicitSetup(const Vector &u, const Vector &fu, int jok, int *jcur,
real_t gam) override
{
return ARKImplicitSetup(u, 0.0, fu, jok, jcur, gam); // the ODE is autonomous
}
/** Solve for @a dk in the system in SUNImplicitSetup to the given tolerance,
with the residual @a r providing @a r = G - F = inv(M) f(u) - k. */
int SUNImplicitSolve(const Vector &r, Vector &dk, real_t tol) override
{
return ARKImplicitSolve(r, dk, tol);
}
int SUNMassSetup() override
{
return ARKMassSetup(0.0); // the ODE is autonomous
}
int SUNMassSolve(const Vector &b, Vector &x, real_t tol) override
{
return ARKMassSolve(b, x, tol);
}
int SUNMassMult(const Vector &x, Vector &v) override
{
return ARKMassMult(x, v);
}
};
real_t InitialTemperature(const Vector &x)
@@ -245,16 +284,7 @@ int main(int argc, char *argv[])
u_gf.GetTrueDofs(u);
// 6. Initialize the conduction ODE operator and the visualization.
ConductionOperator::Type ode_expression_type;
if (use_mass_solver)
{
ode_expression_type = ConductionOperator::Type::IMPLICIT;
}
else
{
ode_expression_type = ConductionOperator::Type::EXPLICIT;
}
ConductionOperator oper(fespace, alpha, kappa, u, ode_expression_type);
ConductionOperator oper(fespace, alpha, kappa, u, use_mass_solver);
u_gf.SetFromTrueDofs(u);
{
@@ -352,7 +382,7 @@ int main(int argc, char *argv[])
}
std::unique_ptr<ARKStepSolver> arkode(
new ARKStepSolver(arkode_solver_type));
arkode->Init(oper);
arkode->Init(&oper);
arkode->SetSStolerances(reltol, abstol);
arkode->SetMaxStep(dt);
if (ode_solver_type == 11 || ode_solver_type == 14)
@@ -445,9 +475,10 @@ int main(int argc, char *argv[])
ConductionOperator::ConductionOperator(FiniteElementSpace &fes,
const real_t alpha, const real_t kappa,
const Vector &u,
const Type &ode_expression_type)
: TimeDependentOperator(fes.GetTrueVSize(), 0.0, ode_expression_type),
fespace(fes), M(&fespace), alpha(alpha), kappa(kappa), z(height)
const bool use_mass_form)
: TimeDependentOperator(fes.GetTrueVSize(), 0.0),
fespace(fes), M(&fespace), alpha(alpha), kappa(kappa), z(height),
use_mass_form(use_mass_form)
{
// specify a relative tolerance for all solves with MFEM integrators
const real_t rel_tol = 1e-8;
@@ -474,6 +505,16 @@ ConductionOperator::ConductionOperator(FiniteElementSpace &fes,
SetConductionTensor(u);
}
int ConductionOperator::ARKSize() const
{
return z.Size();
}
bool ConductionOperator::ARKInMassForm() const
{
return use_mass_form;
}
void ConductionOperator::SetConductionTensor(const Vector &u)
{
// Compute K(u_n).
@@ -491,17 +532,27 @@ void ConductionOperator::SetConductionTensor(const Vector &u)
K->FormSystemMatrix(ess_tdof_list, Kmat);
}
void ConductionOperator::ExplicitMult(const Vector &u, Vector &v) const
void ConductionOperator::ARKEvaluateRHS(const Vector &u, const real_t t,
Vector &result) const
{
// Compute - K(u_n) u.
Kmat.Mult(u, v);
v.Neg();
if (use_mass_form) // compute -K(u_n) u.
{
Kmat.Mult(u, result);
result.Neg();
}
else // compute -inv(M) K(u_n) u
{
Kmat.Mult(u, z);
z.Neg();
M_solver.Mult(z, result);
}
}
void ConductionOperator::Mult(const Vector &u, Vector &k) const
{
// Compute - inv(M) K(u_n) u.
ExplicitMult(u, z);
Kmat.Mult(u, z);
z.Neg();
M_solver.Mult(z, k);
}
@@ -509,14 +560,16 @@ void ConductionOperator::ImplicitSolve(const real_t gam, const Vector &u,
Vector &k)
{
// Solve for k in M k = - K(u_n) [u + gam*k].
ExplicitMult(u, z);
Kmat.Mult(u, z);
z.Neg();
T = std::unique_ptr<SparseMatrix>(Add(1.0, Mmat, gam, Kmat));
T_solver.SetOperator(*T);
T_solver.Mult(z, k);
}
int ConductionOperator::SUNImplicitSetup(const Vector &u, const Vector &fu,
int jok, int *jcur, real_t gam)
int ConductionOperator::ARKImplicitSetup(const Vector &u, const real_t t,
const Vector &fu, int jok, int *jcur,
real_t gam)
{
// Compute T = M + gamma K(u_n).
T = std::unique_ptr<SparseMatrix>(Add(1.0, Mmat, gam, Kmat));
@@ -525,22 +578,22 @@ int ConductionOperator::SUNImplicitSetup(const Vector &u, const Vector &fu,
return SUN_SUCCESS;
}
int ConductionOperator::SUNImplicitSolve(const Vector &r, Vector &dk,
int ConductionOperator::ARKImplicitSolve(const Vector &r, Vector &dk,
real_t tol)
{
// Solve the system [M + gamma K(u_n)] dk = - K(u_n) u - M k.
// What value r is providing depends on the ODE expression form:
// EXPLICIT form: r = -inv(M) K(u_n) u - k
// IMPLICIT form: r = -K(u_n) u - M k
// MFEM form: r = -inv(M) K(u_n) u - k
// mass form: r = -K(u_n) u - M k
T_solver.SetRelTol(tol);
if (isExplicit())
if (use_mass_form)
{
Mmat.Mult(r, z);
T_solver.Mult(z, dk);
T_solver.Mult(r, dk);
}
else
{
T_solver.Mult(r, dk);
Mmat.Mult(r, z);
T_solver.Mult(z, dk);
}
if (T_solver.GetConverged())
{
@@ -552,13 +605,13 @@ int ConductionOperator::SUNImplicitSolve(const Vector &r, Vector &dk,
}
}
int ConductionOperator::SUNMassSetup()
int ConductionOperator::ARKMassSetup(const real_t t)
{
// Do nothing b/c mass solver was setup in constructor.
return SUN_SUCCESS;
}
int ConductionOperator::SUNMassSolve(const Vector &b, Vector &x, real_t tol)
int ConductionOperator::ARKMassSolve(const Vector &b, Vector &x, real_t tol)
{
// Solve the system M x = b.
M_solver.SetRelTol(tol);
@@ -573,7 +626,7 @@ int ConductionOperator::SUNMassSolve(const Vector &b, Vector &x, real_t tol)
}
}
int ConductionOperator::SUNMassMult(const Vector &x, Vector &v)
int ConductionOperator::ARKMassMult(const Vector &x, Vector &v)
{
// Compute M x.
Mmat.Mult(x, v);
+119 -66
View File
@@ -29,10 +29,8 @@
//
// The example demonstrates the use of nonlinear operators (the
// class ConductionOperator defining C(u)), as well as their
// implicit time integration. Note that implementing the method
// ConductionOperator::ImplicitSolve is the only requirement for
// high-order implicit (SDIRK) time integration. By default, this
// example uses the SUNDIALS ODE solvers from CVODE and ARKODE.
// implicit time integration. By default, this example uses the
// SUNDIALS ODE solvers from CVODE and ARKODE.
//
// We recommend viewing examples 2, 9 and 10 before viewing this
// example.
@@ -52,15 +50,16 @@ using namespace mfem;
* and K(u) is the diffusion operator with diffusivity depending on u:
* (\kappa + \alpha u).
*
* Class ConductionOperatorOperator represents the above ODE operator in the
* general form F(u, k, t) = G(u, t) where either
* Class ConductionOperator represents the above ODE operator as a
* TimeDependentOperator for use with native MFEM integrators and CVODE
* integrators, i.e., F(u, k, t) = G(u, t) with F(u, du/dt, t) = du/dt and
* G(u, t) = -K(u) u
*
* 1. F(u, du/dt, t) = du/dt (ODE is expressed in EXPLICIT form)
* G(u, t) = - inv(M) K(u) u
* 2. F(u, du/dt, t) = M du/dt (ODE is expressed in IMPLICIT form)
* G(u, t) = - K(u) u
* Class ConductionOperator represents the above ODE operator as an
* ARKStepODE for use with ARKODE integrators, i.e., either M du/dt = -K(u) u
* (mass form) or du/dt = -inv(M) K(u) u (MFEM form)
*/
class ConductionOperator : public TimeDependentOperator
class ConductionOperator : public TimeDependentOperator, public ARKStepODE
{
ParFiniteElementSpace &fespace;
Array<int> ess_tdof_list; // this list remains empty for pure Neumann b.c.
@@ -82,50 +81,90 @@ class ConductionOperator : public TimeDependentOperator
mutable Vector z; // auxiliary vector
const bool use_mass_form;
public:
ConductionOperator(ParFiniteElementSpace &f, const real_t alpha,
const real_t kappa, const Vector &u,
const Type &ode_expression_type);
const bool use_mass_form);
// Compute K(u_n) for use as an approximation in - K(u) u
void SetConductionTensor(const Vector &u);
/** Compute G(u, t) as defined in the IMPLICIT expression form of the ODE
operator, i.e., @a v = - K(u_n) @a u. Note that K(u_n) is an
approximation to K(u). */
void ExplicitMult(const Vector &u, Vector &v) const override;
// ********* methods for MFEM native time integrators *********
/** Solve for k in F(u, k, t) = G(u, t) for either EXPLICIT or IMPLICIT
expression forms of the ODE operator, i.e., @a k = - inv(M) K(u_n) @a u.
/** Solve for k in F(u, k, t) = G(u, t), i.e., @a k = - inv(M) K(u_n) @a u.
Note that K(u_n) is an approximation to K(u). */
void Mult(const Vector &u, Vector &k) const override;
/** Solve for k in F(u + gam*k, k, t) = G(u + gam*k, t) for either EXPLICIT
or IMPLICIT expression forms of the ODE operator, i.e.,
[ M + @a gam K(u_n) ] @a k = - K(u_n) @a u . Note that K(u_n) is an
approximation to K(u). */
/** Solve for k in F(u + gam*k, k, t) = G(u + gam*k, t), i.e.,
[ M + @a gam K(u_n) ] @a k = - K(u_n) @a u .
Note that K(u_n) is an approximation to K(u). */
void ImplicitSolve(const real_t gam, const Vector &u, Vector &k) override;
/** Setup to solve for dk in [dF/dk + gam*dF/du - gam*dG/du] dk = G - F for
either EXPLICIT or IMPLICIT expression forms of the ODE operator, i.e.,
[M - @a gam Jf(u)] dk = G - F, where Jf(u) is an approximation of the
Jacobian of -K(u) u. The approximation chosen here is Jf(u) = -K(u_n). */
int SUNImplicitSetup(const Vector &u, const Vector &fu, int jok, int *jcur,
real_t gam) override;
// ********* methods for ARKODE time integrators *********
// TODO: add comments
int ARKSize() const override;
// TODO: add comments
bool ARKInMassForm() const override;
// TODO: add comments
void ARKEvaluateRHS(const Vector &u, const real_t t, Vector &result) const override;
// TODO: add comments
int ARKImplicitSetup(const Vector &u, const real_t t, const Vector &fu,
int jok, int *jcur, real_t gam) override;
/** Solve for @a dk in the system in SUNImplicitSetup to the given tolerance,
with the residual @a r providing either
1. @a r = G - F = inv(M) f(u) - k (EXPLICIT expression form)
1. @a r = G - F = f(u) - M k (IMPLICIT expression form)
1. @a r = G - F = inv(M) f(u) - k (MFEM form)
1. @a r = G - F = f(u) - M k (mass form)
*/
int SUNImplicitSolve(const Vector &r, Vector &dk, real_t tol) override;
int ARKImplicitSolve(const Vector &r, Vector &dk, real_t tol) override;
int SUNMassSetup() override;
int ARKMassSetup(const real_t t) override;
int SUNMassSolve(const Vector &b, Vector &x, real_t tol) override;
int ARKMassSolve(const Vector &b, Vector &x, real_t tol) override;
int SUNMassMult(const Vector &x, Vector &v) override;
int ARKMassMult(const Vector &x, Vector &v) override;
// ********* methods for CVODE time integrators *********
// note these methods merely call the corresponding ARKStepODE methods until
// the CVODESolver is refactored to use specialized interface like ARKStepODE
/** Setup to solve for dk in [dF/dk + gam*dF/du - gam*dG/du] dk = G - F, i.e.,
[M - @a gam Jf(u)] dk = G - F, where Jf(u) is an approximation of the
Jacobian of -K(u) u. The approximation chosen here is Jf(u) = -K(u_n). */
int SUNImplicitSetup(const Vector &u, const Vector &fu, int jok, int *jcur,
real_t gam) override
{
return ARKImplicitSetup(u, 0.0, fu, jok, jcur, gam); // the ODE is autonomous
}
/** Solve for @a dk in the system in SUNImplicitSetup to the given tolerance,
with the residual @a r providing @a r = G - F = inv(M) f(u) - k. */
int SUNImplicitSolve(const Vector &r, Vector &dk, real_t tol) override
{
return ARKImplicitSolve(r, dk, tol);
}
int SUNMassSetup() override
{
return ARKMassSetup(0.0); // the ODE is autonomous
}
int SUNMassSolve(const Vector &b, Vector &x, real_t tol) override
{
return ARKMassSolve(b, x, tol);
}
int SUNMassMult(const Vector &x, Vector &v) override
{
return ARKMassMult(x, v);
}
};
real_t InitialTemperature(const Vector &x)
@@ -273,16 +312,7 @@ int main(int argc, char *argv[])
u_gf.GetTrueDofs(u);
// 8. Initialize the conduction ODE operator and the visualization.
ConductionOperator::Type ode_expression_type;
if (use_mass_solver)
{
ode_expression_type = ConductionOperator::Type::IMPLICIT;
}
else
{
ode_expression_type = ConductionOperator::Type::EXPLICIT;
}
ConductionOperator oper(fespace, alpha, kappa, u, ode_expression_type);
ConductionOperator oper(fespace, alpha, kappa, u, use_mass_solver);
u_gf.SetFromTrueDofs(u);
{
@@ -394,7 +424,7 @@ int main(int argc, char *argv[])
}
std::unique_ptr<ARKStepSolver> arkode(
new ARKStepSolver(MPI_COMM_WORLD, arkode_solver_type));
arkode->Init(oper);
arkode->Init(&oper);
arkode->SetSStolerances(reltol, abstol);
arkode->SetMaxStep(dt);
if (ode_solver_type == 11 || ode_solver_type == 14)
@@ -497,10 +527,11 @@ int main(int argc, char *argv[])
ConductionOperator::ConductionOperator(ParFiniteElementSpace &fes,
const real_t alpha, const real_t kappa,
const Vector &u,
const Type &ode_expression_type)
: TimeDependentOperator(fes.GetTrueVSize(), 0.0, ode_expression_type),
const bool use_mass_form)
: TimeDependentOperator(fes.GetTrueVSize(), 0.0),
fespace(fes), M(&fespace), alpha(alpha), kappa(kappa),
M_solver(fes.GetComm()), T_solver(fes.GetComm()), z(height)
M_solver(fes.GetComm()), T_solver(fes.GetComm()), z(height),
use_mass_form(use_mass_form)
{
// specify a relative tolerance for all solves with MFEM integrators
const real_t rel_tol = 1e-8;
@@ -528,6 +559,16 @@ ConductionOperator::ConductionOperator(ParFiniteElementSpace &fes,
SetConductionTensor(u);
}
int ConductionOperator::ARKSize() const
{
return z.Size();
}
bool ConductionOperator::ARKInMassForm() const
{
return use_mass_form;
}
void ConductionOperator::SetConductionTensor(const Vector &u)
{
// Compute K(u_n).
@@ -545,17 +586,27 @@ void ConductionOperator::SetConductionTensor(const Vector &u)
K->FormSystemMatrix(ess_tdof_list, Kmat);
}
void ConductionOperator::ExplicitMult(const Vector &u, Vector &v) const
void ConductionOperator::ARKEvaluateRHS(const Vector &u, const real_t t,
Vector &result) const
{
// Compute - K(u_n) u.
Kmat.Mult(u, v);
v.Neg();
if (use_mass_form) // compute -K(u_n) u.
{
Kmat.Mult(u, result);
result.Neg();
}
else // compute -inv(M) K(u_n) u
{
Kmat.Mult(u, z);
z.Neg();
M_solver.Mult(z, result);
}
}
void ConductionOperator::Mult(const Vector &u, Vector &k) const
{
// Compute - inv(M) K(u_n) u.
ExplicitMult(u, z);
Kmat.Mult(u, z);
z.Neg();
M_solver.Mult(z, k);
}
@@ -563,14 +614,16 @@ void ConductionOperator::ImplicitSolve(const real_t gam, const Vector &u,
Vector &k)
{
// Solve for k in M k = - K(u_n) [u + gam*k].
ExplicitMult(u, z);
Kmat.Mult(u, z);
z.Neg();
T = std::unique_ptr<HypreParMatrix>(Add(1.0, Mmat, gam, Kmat));
T_solver.SetOperator(*T);
T_solver.Mult(z, k);
}
int ConductionOperator::SUNImplicitSetup(const Vector &u, const Vector &fu,
int jok, int *jcur, real_t gam)
int ConductionOperator::ARKImplicitSetup(const Vector &u, const real_t t,
const Vector &fu, int jok, int *jcur,
real_t gam)
{
// Compute T = M + gamma K(u_n).
T = std::unique_ptr<HypreParMatrix>(Add(1.0, Mmat, gam, Kmat));
@@ -579,22 +632,22 @@ int ConductionOperator::SUNImplicitSetup(const Vector &u, const Vector &fu,
return SUN_SUCCESS;
}
int ConductionOperator::SUNImplicitSolve(const Vector &r, Vector &dk,
int ConductionOperator::ARKImplicitSolve(const Vector &r, Vector &dk,
real_t tol)
{
// Solve the system [M + gamma K(u_n)] dk = - K(u_n) u - M k.
// What value r is providing depends on the ODE expression form:
// EXPLICIT form: r = -inv(M) K(u_n) u - k
// IMPLICIT form: r = -K(u_n) u - M k
// MFEM form: r = -inv(M) K(u_n) u - k
// mass form: r = -K(u_n) u - M k
T_solver.SetRelTol(tol);
if (isExplicit())
if (use_mass_form)
{
Mmat.Mult(r, z);
T_solver.Mult(z, dk);
T_solver.Mult(r, dk);
}
else
{
T_solver.Mult(r, dk);
Mmat.Mult(r, z);
T_solver.Mult(z, dk);
}
if (T_solver.GetConverged())
{
@@ -606,13 +659,13 @@ int ConductionOperator::SUNImplicitSolve(const Vector &r, Vector &dk,
}
}
int ConductionOperator::SUNMassSetup()
int ConductionOperator::ARKMassSetup(const real_t t)
{
// Do nothing b/c mass solver was setup in constructor.
return SUN_SUCCESS;
}
int ConductionOperator::SUNMassSolve(const Vector &b, Vector &x, real_t tol)
int ConductionOperator::ARKMassSolve(const Vector &b, Vector &x, real_t tol)
{
// Solve the system M x = b.
M_solver.SetRelTol(tol);
@@ -627,7 +680,7 @@ int ConductionOperator::SUNMassSolve(const Vector &b, Vector &x, real_t tol)
}
}
int ConductionOperator::SUNMassMult(const Vector &x, Vector &v)
int ConductionOperator::ARKMassMult(const Vector &x, Vector &v)
{
// Compute M x.
Mmat.Mult(x, v);
+21 -3
View File
@@ -119,7 +119,7 @@ public:
and advection matrices, and b describes the flow on the boundary. This can
be written as a general ODE, du/dt = M^{-1} (K u + b), and this class is
used to evaluate the right-hand side. */
class FE_Evolution : public TimeDependentOperator
class FE_Evolution : public TimeDependentOperator, public ARKStepODE
{
private:
BilinearForm &M, &K;
@@ -133,9 +133,14 @@ private:
public:
FE_Evolution(BilinearForm &M_, BilinearForm &K_, const Vector &b_);
// TimeDependentOperator methods for MFEM native and CVODE time integrators
virtual void Mult(const Vector &x, Vector &y) const;
virtual void ImplicitSolve(const double dt, const Vector &x, Vector &k);
// ARKStepODE methods for ARKODE time integrators
int ARKSize() const override;
void ARKEvaluateRHS(const Vector &u, const real_t t, Vector& result) const override;
virtual ~FE_Evolution();
};
@@ -404,14 +409,14 @@ int main(int argc, char *argv[])
ode_solver = cvode; break;
case 8:
arkode = new ARKStepSolver(ARKStepSolver::EXPLICIT);
arkode->Init(adv);
arkode->Init(&adv);
arkode->SetSStolerances(reltol, abstol);
arkode->SetMaxStep(dt);
arkode->SetOrder(4);
ode_solver = arkode; break;
case 9:
arkode = new ARKStepSolver(ARKStepSolver::EXPLICIT);
arkode->Init(adv);
arkode->Init(&adv);
arkode->SetSStolerances(reltol, abstol);
arkode->SetMaxStep(dt);
arkode->SetERKTableNum(ARKODE_FEHLBERG_13_7_8);
@@ -520,6 +525,19 @@ void FE_Evolution::ImplicitSolve(const double dt, const Vector &x, Vector &k)
dg_solver->Mult(z, k);
}
int FE_Evolution::ARKSize() const
{
return z.Size();
}
void FE_Evolution::ARKEvaluateRHS(const Vector &u, const real_t t, Vector &result) const
{
// y = M^{-1} (K x + b)
K.Mult(u, z);
z += b;
M_solver.Mult(z, result);
}
FE_Evolution::~FE_Evolution()
{
delete M_prec;
+20 -2
View File
@@ -206,7 +206,7 @@ public:
and advection matrices, and b describes the flow on the boundary. This can
be written as a general ODE, du/dt = M^{-1} (K u + b), and this class is
used to evaluate the right-hand side. */
class FE_Evolution : public TimeDependentOperator
class FE_Evolution : public TimeDependentOperator, public ARKStepODE
{
private:
OperatorHandle M, K;
@@ -221,9 +221,14 @@ public:
FE_Evolution(ParBilinearForm &M_, ParBilinearForm &K_, const Vector &b_,
PrecType prec_type);
// TimeDependentOperator methods for MFEM native and CVODE time integrators
virtual void Mult(const Vector &x, Vector &y) const;
virtual void ImplicitSolve(const double dt, const Vector &x, Vector &k);
// ARKStepODE methods for ARKODE time integrators
int ARKSize() const override;
void ARKEvaluateRHS(const Vector &u, const real_t t, Vector& result) const override;
virtual ~FE_Evolution();
};
@@ -575,7 +580,7 @@ int main(int argc, char *argv[])
case 8:
case 9:
arkode = new ARKStepSolver(MPI_COMM_WORLD, ARKStepSolver::EXPLICIT);
arkode->Init(adv);
arkode->Init(&adv);
arkode->SetSStolerances(reltol, abstol);
arkode->SetMaxStep(dt);
if (ode_solver_type == 9)
@@ -743,6 +748,19 @@ void FE_Evolution::Mult(const Vector &x, Vector &y) const
M_solver.Mult(z, y);
}
int FE_Evolution::ARKSize() const
{
return z.Size();
}
void FE_Evolution::ARKEvaluateRHS(const Vector &u, const real_t t, Vector &result) const
{
// y = M^{-1} (K x + b)
K->Mult(u, z);
z += b;
M_solver.Mult(z, result);
}
FE_Evolution::~FE_Evolution()
{
delete M_prec;
+27 -50
View File
@@ -128,46 +128,32 @@ set(SRCS
normal_deriv_restriction.cpp
staticcond.cpp
tmop.cpp
tmop/pa.cpp
tmop/assemble/diag2_limit.cpp
tmop/assemble/diag2.cpp
tmop/assemble/grad2_limit.cpp
tmop/assemble/grad2.cpp
tmop/assemble/diag3_limit.cpp
tmop/assemble/diag3.cpp
tmop/assemble/grad3_limit.cpp
tmop/assemble/grad3.cpp
tmop/metrics/001.cpp
tmop/metrics/002.cpp
tmop/metrics/007.cpp
tmop/metrics/056.cpp
tmop/metrics/077.cpp
tmop/metrics/080.cpp
tmop/metrics/094.cpp
tmop/metrics/302.cpp
tmop/metrics/303.cpp
tmop/metrics/315.cpp
tmop/metrics/318.cpp
tmop/metrics/321.cpp
tmop/metrics/332.cpp
tmop/metrics/338.cpp
tmop/mult/grad2_limit.cpp
tmop/mult/grad2.cpp
tmop/mult/mult2_limit.cpp
tmop/mult/mult2.cpp
tmop/mult/grad3_limit.cpp
tmop/mult/grad3.cpp
tmop/mult/mult3_limit.cpp
tmop/mult/mult3.cpp
tmop/tools/det2_jpr.cpp
tmop/tools/det3_jpr.cpp
tmop/tools/discrete.cpp
tmop/tools/energy2_limit.cpp
tmop/tools/energy2.cpp
tmop/tools/energy3_limit.cpp
tmop/tools/energy3.cpp
tmop/tools/target2.cpp
tmop/tools/target3.cpp
tmop/tmop_pa.cpp
tmop/tmop_pa_da3.cpp
tmop/tmop_pa_h2d.cpp
tmop/tmop_pa_h2d_c0.cpp
tmop/tmop_pa_h2m.cpp
tmop/tmop_pa_h2m_c0.cpp
tmop/tmop_pa_h2s.cpp
tmop/tmop_pa_h2s_c0.cpp
tmop/tmop_pa_h3d.cpp
tmop/tmop_pa_h3d_c0.cpp
tmop/tmop_pa_h3m.cpp
tmop/tmop_pa_h3m_c0.cpp
tmop/tmop_pa_h3s.cpp
tmop/tmop_pa_h3s_c0.cpp
tmop/tmop_pa_jp2.cpp
tmop/tmop_pa_jp3.cpp
tmop/tmop_pa_p2.cpp
tmop/tmop_pa_p2_c0.cpp
tmop/tmop_pa_p3.cpp
tmop/tmop_pa_p3_c0.cpp
tmop/tmop_pa_tc2.cpp
tmop/tmop_pa_tc3.cpp
tmop/tmop_pa_w2.cpp
tmop/tmop_pa_w2_c0.cpp
tmop/tmop_pa_w3.cpp
tmop/tmop_pa_w3_c0.cpp
tmop_tools.cpp
tmop_amr.cpp
gslib.cpp
@@ -179,7 +165,6 @@ set(SRCS
hyperbolic.cpp
integrator.cpp
bounds.cpp
particleset.cpp
)
set(HDRS
@@ -197,8 +182,6 @@ set(HDRS
integ/bilininteg_hdiv_kernels.hpp
integ/bilininteg_hcurlhdiv_kernels.hpp
integ/bilininteg_mass_kernels.hpp
integ/bilininteg_vecdiffusion_pa.hpp
integ/bilininteg_vecmass_pa.hpp
coefficient.hpp
complex_fem.hpp
convergence.hpp
@@ -296,12 +279,7 @@ set(HDRS
tfespace.hpp
tintrules.hpp
tmop.hpp
tmop/pa.hpp
tmop/assemble/grad2.hpp
tmop/assemble/grad2.hpp
tmop/mult/mult2.hpp
tmop/mult/mult3.hpp
tmop/tools/energy2.hpp
tmop/tmop_pa.hpp
tmop_tools.hpp
tmop_amr.hpp
gslib.hpp
@@ -309,7 +287,6 @@ set(HDRS
hyperbolic.hpp
integrator.hpp
bounds.hpp
particleset.hpp
)
if (MFEM_USE_SIDRE)
+6 -35
View File
@@ -825,46 +825,14 @@ void BilinearForm::FormLinearSystem(const Array<int> &ess_tdof_list, Vector &x,
Vector &b, OperatorHandle &A, Vector &X,
Vector &B, int copy_interior)
{
const SparseMatrix *P = fes->GetConformingProlongation();
const SparseMatrix *R = fes->GetConformingRestriction();
if (ext)
{
if (hybridization)
{
FormSystemMatrix(ess_tdof_list, A);
std::unique_ptr<ConstrainedOperator> A_constrained([&]()
{
Operator *op;
Operator::FormSystemOperator(ess_tdof_list, op);
return dynamic_cast<ConstrainedOperator*>(op);
}());
MFEM_ASSERT(A_constrained != nullptr, "");
Vector conf_b, conf_x;
if (P)
{
// Nonconforming
conf_b.SetSize(P->Width());
conf_x.SetSize(P->Width());
P->MultTranspose(b, conf_b);
R->Mult(x, conf_x);
}
else
{
// Conforming
conf_b.MakeRef(b, 0, b.Size());
conf_x.MakeRef(x, 0, x.Size());
}
A_constrained->EliminateRHS(conf_x, conf_b);
if (P)
{
R->MultTranspose(conf_b, b); // store eliminated rhs in b
}
hybridization->ReduceRHS(conf_b, B);
ConstrainedOperator A_constrained(this, ess_tdof_list);
A_constrained.EliminateRHS(x, b);
hybridization->ReduceRHS(b, B);
X.SetSize(B.Size());
X = 0.0;
}
@@ -874,6 +842,7 @@ void BilinearForm::FormLinearSystem(const Array<int> &ess_tdof_list, Vector &x,
}
return;
}
const SparseMatrix *P = fes->GetConformingProlongation();
FormSystemMatrix(ess_tdof_list, A);
// Transform the system and perform the elimination in B, based on the
@@ -909,6 +878,7 @@ void BilinearForm::FormLinearSystem(const Array<int> &ess_tdof_list, Vector &x,
if (hybridization)
{
// Reduction to the Lagrange multipliers system
const SparseMatrix *R = fes->GetConformingRestriction();
Vector conf_b(P->Width()), conf_x(P->Width());
P->MultTranspose(b, conf_b);
R->Mult(x, conf_x);
@@ -921,6 +891,7 @@ void BilinearForm::FormLinearSystem(const Array<int> &ess_tdof_list, Vector &x,
else
{
// Variational restriction with P
const SparseMatrix *R = fes->GetConformingRestriction();
B.SetSize(P->Width());
P->MultTranspose(b, B);
X.SetSize(R->Height());
+1
View File
@@ -3066,6 +3066,7 @@ void VectorDiffusionIntegrator::AssembleElementMatrix(
for (int i = 0; i < ir -> GetNPoints(); i++)
{
const IntegrationPoint &ip = ir->IntPoint(i);
el.CalcDShape(ip, dshape);
+41 -44
View File
@@ -2596,40 +2596,41 @@ public:
by scalar FE through standard transformation. */
class VectorMassIntegrator: public BilinearFormIntegrator
{
int vdim = -1, Q_order = 0;
private:
int vdim;
Vector shape, te_shape, vec;
DenseMatrix partelmat;
DenseMatrix mcoeff;
int Q_order;
protected:
Coefficient *Q = nullptr;
VectorCoefficient *VQ = nullptr;
MatrixCoefficient *MQ = nullptr;
Coefficient *Q;
VectorCoefficient *VQ;
MatrixCoefficient *MQ;
// PA extension
Vector pa_data;
const DofToQuad *maps; ///< Not owned
const GeometricFactors *geom; ///< Not owned
int ne, dim, dofs1D, quad1D, coeff_vdim;
Vector pa_data;
int dim, ne, nq, dofs1D, quad1D;
public:
/// Construct an integrator with coefficient 1.0
VectorMassIntegrator() = default;
VectorMassIntegrator()
: vdim(-1), Q_order(0), Q(NULL), VQ(NULL), MQ(NULL) { }
/** Construct an integrator with scalar coefficient q. If possible, save
memory by using a scalar integrator since the resulting matrix is block
diagonal with the same diagonal block repeated. */
VectorMassIntegrator(Coefficient &q, int qo = 0): Q_order(qo), Q(&q) { }
VectorMassIntegrator(Coefficient &q, const IntegrationRule *ir):
BilinearFormIntegrator(ir), Q(&q) { }
VectorMassIntegrator(Coefficient &q, int qo = 0)
: vdim(-1), Q_order(qo), Q(&q), VQ(NULL), MQ(NULL) { }
VectorMassIntegrator(Coefficient &q, const IntegrationRule *ir)
: BilinearFormIntegrator(ir), vdim(-1), Q_order(0), Q(&q), VQ(NULL),
MQ(NULL) { }
/// Construct an integrator with diagonal coefficient q
VectorMassIntegrator(VectorCoefficient &q, int qo = 0):
vdim(q.GetVDim()), Q_order(qo), VQ(&q) { }
VectorMassIntegrator(VectorCoefficient &q, int qo = 0)
: vdim(q.GetVDim()), Q_order(qo), Q(NULL), VQ(&q), MQ(NULL) { }
/// Construct an integrator with matrix coefficient q
VectorMassIntegrator(MatrixCoefficient &q, int qo = 0):
vdim(q.GetVDim()), Q_order(qo), MQ(&q) { }
VectorMassIntegrator(MatrixCoefficient &q, int qo = 0)
: vdim(q.GetVDim()), Q_order(qo), Q(NULL), VQ(NULL), MQ(&q) { }
int GetVDim() const { return vdim; }
void SetVDim(int vdim_) { vdim = vdim_; }
@@ -2641,7 +2642,6 @@ public:
const FiniteElement &test_fe,
ElementTransformation &Trans,
DenseMatrix &elmat) override;
using BilinearFormIntegrator::AssemblePA;
void AssemblePA(const FiniteElementSpace &fes) override;
void AssembleMF(const FiniteElementSpace &fes) override;
@@ -2650,15 +2650,6 @@ public:
void AddMultPA(const Vector &x, Vector &y) const override;
void AddMultMF(const Vector &x, Vector &y) const override;
bool SupportsCeed() const override { return DeviceCanUseCeed(); }
using VectorMassAddMultPAType =
void(*)(const int, const int,
const Array<real_t>&, const Vector&,
const Vector&, Vector&, const int, const int);
MFEM_REGISTER_KERNELS(VectorMassAddMultPA,
VectorMassAddMultPAType,
(int, int, int));
};
@@ -3129,21 +3120,23 @@ public:
to be the spatial dimension (i.e. 2-dimension or 3-dimension). */
class VectorDiffusionIntegrator : public BilinearFormIntegrator
{
int vdim = -1;
DenseMatrix dshape, dshapedxt, pelmat;
DenseMatrix mcoeff;
Vector vcoeff;
protected:
Coefficient *Q = nullptr;
VectorCoefficient *VQ = nullptr;
MatrixCoefficient *MQ = nullptr;
Coefficient *Q = NULL;
VectorCoefficient *VQ = NULL;
MatrixCoefficient *MQ = NULL;
// PA extension
const DofToQuad *maps; ///< Not owned
const GeometricFactors *geom; ///< Not owned
int ne, dim, sdim, dofs1D, quad1D, coeff_vdim;
int dim, sdim, ne, dofs1D, quad1D;
Vector pa_data;
private:
DenseMatrix dshape, dshapedxt, pelmat;
int vdim = -1;
DenseMatrix mcoeff;
Vector vcoeff;
public:
VectorDiffusionIntegrator(const IntegrationRule *ir = nullptr);
@@ -3196,7 +3189,6 @@ public:
void AssembleElementVector(const FiniteElement &el,
ElementTransformation &Tr,
const Vector &elfun, Vector &elvect) override;
using BilinearFormIntegrator::AssemblePA;
void AssemblePA(const FiniteElementSpace &fes) override;
void AssembleMF(const FiniteElementSpace &fes) override;
@@ -3206,11 +3198,13 @@ public:
void AddMultMF(const Vector &x, Vector &y) const override;
bool SupportsCeed() const override { return DeviceCanUseCeed(); }
/// arguments: ne, coeff_vdim, B, G, pa_data, x, y, d1d, q1d, vdim
using ApplyKernelType = void (*)(const int, const int,
const Array<real_t> &, const Array<real_t> &,
const Vector &, const Vector &, Vector &,
const int, const int, const int);
/// arguments: ne, B, G, Bt, Gt, pa_data, x, y, d1d, q1d, vdim
using ApplyKernelType = void (*)(const int, const Array<real_t> &,
const Array<real_t> &,
const Array<real_t> &,
const Array<real_t> &, const Vector &,
const Vector &, Vector &, const int,
const int, const int);
/// arguments: dim, vdim, d1d, q1d
MFEM_REGISTER_KERNELS(ApplyPAKernels, ApplyKernelType, (int, int, int, int));
@@ -3221,7 +3215,10 @@ public:
ApplyPAKernels::Specialization<DIM, VDIM, D1D, Q1D>::Add();
}
// struct Kernels { Kernels(); };
struct Kernels
{
Kernels();
};
};
/** Integrator for the linear elasticity form:
+33 -76
View File
@@ -39,8 +39,8 @@ void PLBound::Setup(const int nb_i, const int ncp_i,
b_type = b_type_i;
cp_type = cp_type_i;
tol = tol_i;
lbound.SetSize(ncp, nb);
ubound.SetSize(ncp, nb);
lbound.SetSize(nb, ncp);
ubound.SetSize(nb, ncp);
nodes.SetSize(nb);
weights.SetSize(nb);
control_points.SetSize(ncp);
@@ -125,25 +125,21 @@ void PLBound::Setup(const int nb_i, const int ncp_i,
{
if (j == 0)
{
lbound(j,i) = bv(i);
ubound(j,i) = bv(i);
lbound(i, j) = bv(i);
ubound(i, j) = bv(i);
}
else if (j == ncp-1)
{
lbound(j,i) = bv(i);
ubound(j,i) = bv(i);
lbound(i, j) = bv(i);
ubound(i, j) = bv(i);
}
else
{
vals(0) = bv(i);
vals(1) = bmv(i) + dm*bdmv(i);
vals(2) = bpv(i) + dp*bdpv(i);
lbound(j,i) = vals.Min()-tol; // tolerance for good measure
ubound(j,i) = vals.Max()+tol; // tolerance for good measure
if (b_type == 2)
{
lbound(j,i) = std::max(lbound(j,i),0_r);
}
lbound(i, j) = vals.Min()-tol; // tolerance for good measure
ubound(i, j) = vals.Max()+tol; // tolerance for good measure
}
}
}
@@ -211,8 +207,7 @@ void PLBound::Setup(const int nb_i, const int ncp_i,
}
}
PLBound::PLBound(const FiniteElementSpace *fes, const int ncp_i,
const int cp_type_i)
PLBound::PLBound(FiniteElementSpace *fes, int ncp_i, int cp_type_i)
{
MFEM_VERIFY(!fes->IsVariableOrder(),
"Variable order meshes not yet supported.");
@@ -269,15 +264,15 @@ PLBound::PLBound(const FiniteElementSpace *fes, const int ncp_i,
Setup(nb, ncp, b_type, cp_type, tol);
}
void PLBound::Get1DBounds(const Vector &coeff, Vector &intmin,
Vector &intmax) const
void PLBound::Get1DBounds(Vector &coeff, Vector &intmin, Vector &intmax) const
{
real_t x,w;
intmin.SetSize(ncp);
intmax.SetSize(ncp);
intmin = 0.0;
intmax = 0.0;
Vector coeffm;
Vector coeffm(nb);
coeffm = 0.0;
real_t a0 = 0.0;
real_t a1 = 0.0;
@@ -305,8 +300,6 @@ void PLBound::Get1DBounds(const Vector &coeff, Vector &intmin,
// compute L2 projection for linear bases: a0 + a1*x
if (proj)
{
coeffm.SetSize(nb);
coeffm = 0.0;
for (int i = 0; i < nb; i++)
{
x = 2.0*nodes_int(i)-1;
@@ -347,14 +340,13 @@ void PLBound::Get1DBounds(const Vector &coeff, Vector &intmin,
real_t c = coeffm(i);
for (int j = 0; j < ncp; j++)
{
intmin(j) += min(lbound(j,i)*c, ubound(j,i)*c);
intmax(j) += max(lbound(j,i)*c, ubound(j,i)*c);
intmin(j) += min(lbound(i,j)*c, ubound(i,j)*c);
intmax(j) += max(lbound(i,j)*c, ubound(i,j)*c);
}
}
}
void PLBound::Get2DBounds(const Vector &coeff, Vector &intmin,
Vector &intmax) const
void PLBound::Get2DBounds(Vector &coeff, Vector &intmin, Vector &intmax) const
{
intmin.SetSize(ncp*ncp);
intmax.SetSize(ncp*ncp);
@@ -479,10 +471,10 @@ void PLBound::Get2DBounds(const Vector &coeff, Vector &intmin,
real_t w1 = intmaxT(id2++);
for (int k = 0; k < ncp; k++) // kth row
{
vals(0) = w0*lbound(k,j);
vals(1) = w0*ubound(k,j);
vals(2) = w1*lbound(k,j);
vals(3) = w1*ubound(k,j);
vals(0) = w0*lbound(j,k);
vals(1) = w0*ubound(j,k);
vals(2) = w1*lbound(j,k);
vals(3) = w1*ubound(j,k);
intmin(k*ncp+i) += vals.Min();
intmax(k*ncp+i) += vals.Max();
}
@@ -490,8 +482,7 @@ void PLBound::Get2DBounds(const Vector &coeff, Vector &intmin,
}
}
void PLBound::Get3DBounds(const Vector &coeff, Vector &intmin,
Vector &intmax) const
void PLBound::Get3DBounds(Vector &coeff, Vector &intmin, Vector &intmax) const
{
int nb2 = nb*nb,
ncp2 = ncp*ncp,
@@ -558,17 +549,17 @@ void PLBound::Get3DBounds(const Vector &coeff, Vector &intmin,
for (int i = 0; i < nb; i++)
{
x = 2.0*nodes(i)-1; // x-coordinate
minNodalVals(i) -= a0V(j) + a1V(j)*x;
maxNodalVals(i) -= a0V(j) + a1V(j)*x;
minBounds(i) -= a0V(j) + a1V(j)*x;
maxBounds(i) -= a0V(j) + a1V(j)*x;
}
// Compute Bernstein coefficients
LUFactors lu(basisMatLU.GetData(), lu_ip.GetData());
lu.Solve(nb, 1, minNodalVals.GetData());
lu.Solve(nb, 1, maxNodalVals.GetData());
lu.Solve(nb, 1, minBounds.GetData());
lu.Solve(nb, 1, maxBounds.GetData());
for (int i = 0; i < nb; i++)
{
intminT(i*ncp2+j) = minNodalVals(i);
intmaxT(i*ncp2+j) = maxNodalVals(i);
intminT(i*ncp2+j) = minBounds(i);
intmaxT(i*ncp2+j) = maxBounds(i);
}
}
}
@@ -622,10 +613,10 @@ void PLBound::Get3DBounds(const Vector &coeff, Vector &intmin,
real_t w1 = intmaxT(id2++);
for (int k = 0; k < ncp; k++) // kth slice
{
vals(0) = w0*lbound(k,j);
vals(1) = w0*ubound(k,j);
vals(2) = w1*lbound(k,j);
vals(3) = w1*ubound(k,j);
vals(0) = w0*lbound(j,k);
vals(1) = w0*ubound(j,k);
vals(2) = w1*lbound(j,k);
vals(3) = w1*ubound(j,k);
intmin(k*ncp2+i) += vals.Min();
intmax(k*ncp2+i) += vals.Max();
}
@@ -633,7 +624,7 @@ void PLBound::Get3DBounds(const Vector &coeff, Vector &intmin,
}
}
void PLBound::GetNDBounds(const int rdim, const Vector &coeff,
void PLBound::GetNDBounds(int rdim, Vector &coeff,
Vector &intmin, Vector &intmax) const
{
if (rdim == 1)
@@ -658,8 +649,7 @@ void PLBound::SetupBernsteinBasisMat(DenseMatrix &basisMat,
Vector &nodesBern) const
{
const int nbern = nodesBern.Size();
L2_SegmentElement el(nbern-1, 2);
// we use L2 to leverage lexicographic order
L2_SegmentElement el(nbern-1, 2); // we use L2 to leverage lexicographic order
Array<int> ordering = el.GetLexicographicOrdering();
basisMat.SetSize(nbern, nbern);
Vector shape(nbern);
@@ -672,39 +662,6 @@ void PLBound::SetupBernsteinBasisMat(DenseMatrix &basisMat,
}
}
DenseMatrix PLBound::GetBoundingMatrix(int dim, bool is_lower) const
{
if (dim > 1)
{
const int ncpd = static_cast<int>(std::pow(ncp, dim));
const int nbd = static_cast<int>(std::pow(nb, dim));
DenseMatrix boundND(ncpd, nbd);
Vector phimin, phimax, col;
Vector coeffs(nbd);
coeffs = 0.0;
for (int j = 0; j < nbd; j++)
{
coeffs(j) = 1.0;
boundND.GetColumnReference(j, col);
GetNDBounds(dim, coeffs, phimin, phimax);
col = is_lower ? phimin : phimax;
coeffs(j) = 0.0;
}
return boundND;
}
return is_lower ? lbound : ubound;
}
DenseMatrix PLBound::GetLowerBoundMatrix(int dim) const
{
return GetBoundingMatrix(dim, true);
}
DenseMatrix PLBound::GetUpperBoundMatrix(int dim) const
{
return GetBoundingMatrix(dim, false);
}
constexpr int PLBound::min_ncp_gl_x[2][11];
constexpr int PLBound::min_ncp_gll_x[2][11];
constexpr int PLBound::min_ncp_pos_x[2][11];
@@ -755,4 +712,4 @@ void PLBound::Print(std::ostream &outp) const
ubound.Print(outp);
}
}
}
+28 -80
View File
@@ -9,8 +9,8 @@
// terms of the BSD-3 license. We welcome feedback and contributions, see file
// CONTRIBUTING.md for details.
#ifndef MFEM_BOUNDS
#define MFEM_BOUNDS
#ifndef MFEM_BOUND
#define MFEM_BOUND
#include "../config/config.hpp"
#include "fespace.hpp"
@@ -19,18 +19,14 @@ namespace mfem
{
/** @name Piecewise linear bounds of bases
\brief Piecewise linear bounds of bases can be used to compute bounds on
the grid function in each element. The bounds for the bases are constructed
based on the following parameters:
\brief Piecewise linear bounds of bases can be used to compute bounds on the grid function in each element. The bounds for the bases are constructed based on the following parameters:
(i) @b nb: number of bases/nodes in 1D (i.e. polynomial order+1),
(ii) @b b_type: bases type, 0 - Lagrange interpolants on Gauss-Legendre
nodes, 1 - Lagrange interpolants on Gauss-Lobatto-Legendre nodes, and
(ii) @b b_type: bases type, 0 - Lagrange interpolants on Gauss-Legendre nodes, 1 - Lagrange interpolants on Gauss-Lobatto-Legendre nodes, and
2 - Positive/Bernstein bases on uniformly distributed nodes,
(iii) @b ncp: number of control points used to construct the piecewise
linear bounds
(iii) @b ncp: number of control points used to construct the piecewise linear bounds
(iv) @b cp_type: control point distribution. 0 - GL + end-points,
1 - Chebyshev.
@@ -39,9 +35,7 @@ namespace mfem
If the user does not specify @b ncp and @b cp_type, the minimum value of
@b ncp is used that would bound the bases for the @b cp_type. We default
to @b cp_type = 0 as it requires fewer number of points to bound the bases.
Typically, @b ncp = 2 @b nb is sufficient to get fairly compact bounds, and
increasing @b ncp results in tighter bounds.
to @b cp_type = 0 as it requires fewer number of points to bound the bases. Typically, @b ncp = 2 @b nb is sufficient to get fairly compact bounds, and increasing @b ncp results in tighter bounds.
Finally, only tensor-product elements are currently supported.
@@ -60,7 +54,7 @@ private:
bool proj = true; // Use linear projection to compute bounds.
real_t tol = 0.0; // offset bounds to avoid round-off errors
Vector nodes, weights, control_points;
DenseMatrix lbound, ubound; // ncp x nb matrices with bounds of all bases
DenseMatrix lbound, ubound; // nb x ncp matrices with bounds of all bases
// Some auxillary storage for computing the bounds with Bernstein
DenseMatrix basisMatNodes; // Bernstein bases at equispaced nodes
DenseMatrix basisMatInt; // Bernstein bases at GLL nodes
@@ -86,9 +80,6 @@ private:
{3,5,8,9,11,12,13,13,14,15,16}
};
/// Helper function to extract lower or upper bounding matrix
DenseMatrix GetBoundingMatrix(int dim, bool is_lower) const;
public:
// Constructor
PLBound(const int nb_i, const int ncp_i, const int b_type_i,
@@ -98,85 +89,42 @@ public:
}
// Constructor
PLBound(const FiniteElementSpace *fes,
const int ncp_i = -1, const int cp_type_i = 0);
PLBound(FiniteElementSpace *fes, int ncp_i = -1, int cp_type_i = 0);
/// Get minimum number of control points needed to bound the given bases
// Get minimum number of control points needed to bound the given bases
int GetMinimumPointsForGivenBases(int nb_i, int b_type_i,
int cp_type_i) const;
/// Print information about the bounds
// Print information about the bounds
void Print(std::ostream &outp = mfem::out) const;
/** @brief Enable (default) or disable linear projection before bounding.
*
* @details This projection increases the computational cost but results in
* tighter bounds.
*/
// Enable (default) or disable linear projection before bounding.
// This projection increases the computational cost but results in tighter
// bounds.
void SetProjectionFlagForBounding(bool proj_) { proj = proj_; }
/** @brief Compute piecewise linear bounds for the lexicographically-ordered
* nodal coefficients in @a coeff in 1D/2D/3D.
*
* @param[in] rdim The spatial dimension of the element (1, 2, or 3).
* @param[in] coeff The vector of lexicographically-ordered coefficients.
* Should be of size nb^rdim, where nb is the number of
* bases/nodes in 1D. These coefficients must correspond
* to the bases type and number of bases, used in the
* constructor of PLBound.
*
* @param[out] intmin The vector of minimum bound for all control points.
* @param[out] intmax The vector of maximum bound for all control points.
* Both intmin and intmax are of size ncp^rdim, where
* ncp is the number of control points in 1D, and are
* ordered lexicographically.
*/
void GetNDBounds(const int rdim, const Vector &coeff,
/// Compute piecewise linear bounds for the lexicographically-ordered
/// coefficients in @a coeff in 1D/2D/3D.
void GetNDBounds(int rdim, Vector &coeff,
Vector &intmin, Vector &intmax) const;
/// Get number of control points used to compute the bounds.
int GetNControlPoints() const { return ncp; }
/// Get 1D control point locations (lexicographic order) in [0,1].
const Vector &GetControlPoints() const { return control_points; }
/** @brief Get lower and upper bounding matrix (ncp^dim x nb^dim)
*
* @details The matrices can be used to compute the bounds at control points
* by a simple matrix-vector product with the
* lexicographically-ordered nodal coefficients.
* The resulting output is also lexicographically-ordered.
*
* @note These matrices do not account for the linear projection step that
* is optionally done in GetNDBounds before bounding the function.
*/
///@{
DenseMatrix GetLowerBoundMatrix(int dim = 1) const;
DenseMatrix GetUpperBoundMatrix(int dim = 1) const;
///@}
private:
/** @brief Compute piecewise linear bounds for the lexicographically-ordered
* nodal coefficients in @a coeff in 1D.
* See GetNDBounds for details of the input and output parameters.
*/
void Get1DBounds(const Vector &coeff, Vector &intmin, Vector &intmax) const;
/// Compute piecewise linear bounds for the lexicographically-ordered
/// coefficients in @a coeff in 1D.
void Get1DBounds(Vector &coeff, Vector &intmin, Vector &intmax) const;
/** @brief Compute piecewise linear bounds for the lexicographically-ordered
* nodal coefficients in @a coeff in 2D.
* See GetNDBounds for details of the input and output parameters.
*/
void Get2DBounds(const Vector &coeff, Vector &intmin, Vector &intmax) const;
/// Compute piecewise linear bounds for the lexicographically-ordered
/// coefficients in @a coeff in 2D.
void Get2DBounds(Vector &coeff, Vector &intmin, Vector &intmax) const;
/** @brief Compute piecewise linear bounds for the lexicographically-ordered
* nodal coefficients in @a coeff in 3D.
* See GetNDBounds for details of the input and output parameters.
*/
void Get3DBounds(const Vector &coeff, Vector &intmin, Vector &intmax) const;
/// Compute piecewise linear bounds for the lexicographically-ordered
/// coefficients in @a coeff in 3D.
void Get3DBounds(Vector &coeff, Vector &intmin, Vector &intmax) const;
/** @brief Setup matrix used to compute values at given 1D locations in [0,1]
* for Bernstein bases.
*/
/// Setup matrix used to compute values at given 1D locations in [0,1]
/// for Bernstein bases.
void SetupBernsteinBasisMat(DenseMatrix &basisMat, Vector &nodesBern) const;
void Setup(const int nb_i, const int ncp_i, const int b_type_i,
@@ -185,4 +133,4 @@ private:
} // namespace mfem
#endif // MFEM_BOUNDS
#endif // MFEM_BOUND
+3 -143
View File
@@ -1085,29 +1085,6 @@ void SumCoefficient::SetTime(real_t t)
this->Coefficient::SetTime(t);
}
void SumCoefficient::Project(QuadratureFunction &qf)
{
if (a == nullptr)
{
// qf = alpha*aConst + beta * b
const real_t d_alpha_a = aConst*alpha;
const real_t d_beta = beta;
b->Project(qf);
auto d_qf = qf.ReadWrite();
mfem::forall(qf.Size(), [=] MFEM_HOST_DEVICE (int i)
{
d_qf[i] = d_alpha_a + d_beta*d_qf[i];
});
}
else
{
a->Project(qf);
QuadratureFunction qf_b(*qf.GetSpace());
b->Project(qf_b);
add(alpha, qf, beta, qf_b, qf);
}
}
void ProductCoefficient::SetTime(real_t t)
{
if (a) { a->SetTime(t); }
@@ -1115,23 +1092,6 @@ void ProductCoefficient::SetTime(real_t t)
this->Coefficient::SetTime(t);
}
void ProductCoefficient::Project(QuadratureFunction &qf)
{
if (a == nullptr)
{
// qf = aConst * b
b->Project(qf);
qf *= aConst;
}
else
{
a->Project(qf);
QuadratureFunction qf_b(qf.GetSpace());
b->Project(qf_b);
qf *= qf_b;
}
}
void RatioCoefficient::SetTime(real_t t)
{
if (a) { a->SetTime(t); }
@@ -1139,38 +1099,6 @@ void RatioCoefficient::SetTime(real_t t)
this->Coefficient::SetTime(t);
}
void RatioCoefficient::Project(QuadratureFunction &qf)
{
if (b == nullptr)
{
if (a == nullptr)
{
qf = aConst / bConst;
}
else
{
a->Project(qf);
qf *= 1.0/bConst;
}
}
else
{
if (a == nullptr)
{
b->Project(qf);
qf.Reciprocal();
qf *= aConst;
}
else
{
a->Project(qf);
QuadratureFunction qf_b(qf.GetSpace());
b->Project(qf_b);
qf /= qf_b;
}
}
}
void PowerCoefficient::SetTime(real_t t)
{
if (a) { a->SetTime(t); }
@@ -1302,73 +1230,6 @@ real_t TraceCoefficient::Eval(ElementTransformation &T,
return ma.Trace();
}
VectorComponentCoefficient::VectorComponentCoefficient(VectorCoefficient &A,
int c)
: a(&A), va(A.GetVDim())
{
SetComponent(c);
}
void VectorComponentCoefficient::SetComponent(int c)
{
MFEM_ASSERT(c < a->GetVDim() && c >= 0,
"VectorComponentCoefficient: "
"Index not in range.");
component = c;
}
void VectorComponentCoefficient::SetTime(real_t t)
{
if (a) { a->SetTime(t); }
this->Coefficient::SetTime(t);
}
real_t VectorComponentCoefficient::Eval(ElementTransformation &T,
const IntegrationPoint &ip)
{
a->Eval(va, T, ip);
return va[component];
}
MatrixComponentCoefficient::MatrixComponentCoefficient(MatrixCoefficient &A,
int ri, int ci)
: a(&A), ma(A.GetHeight(), A.GetWidth())
{
SetRowIndex(ri);
SetColumnIndex(ci);
}
void MatrixComponentCoefficient::SetRowIndex(int ri)
{
MFEM_ASSERT(ri < a->GetHeight() && ri >= 0,
"MatrixComponentCoefficient: "
"Row index not in range.");
row_idx = ri;
}
void MatrixComponentCoefficient::SetColumnIndex(int ci)
{
MFEM_ASSERT(ci < a->GetWidth() && ci >= 0,
"MatrixComponentCoefficient: "
"Column index not in range.");
col_idx = ci;
}
void MatrixComponentCoefficient::SetTime(real_t t)
{
if (a) { a->SetTime(t); }
this->Coefficient::SetTime(t);
}
real_t MatrixComponentCoefficient::Eval(ElementTransformation &T,
const IntegrationPoint &ip)
{
a->Eval(ma, T, ip);
return ma(row_idx,col_idx);
}
VectorSumCoefficient::VectorSumCoefficient(int dim)
: VectorCoefficient(dim),
ACoef(NULL), BCoef(NULL),
@@ -2094,7 +1955,7 @@ void CoefficientVector::Project(MatrixCoefficient &coeff, bool transpose)
{
if (auto *const_coeff = dynamic_cast<MatrixConstantCoefficient*>(&coeff))
{
SetConstant(const_coeff->GetMatrix(), transpose);
SetConstant(const_coeff->GetMatrix());
}
else if (auto *const_sym_coeff =
dynamic_cast<SymmetricMatrixConstantCoefficient*>(&coeff))
@@ -2155,7 +2016,7 @@ void CoefficientVector::SetConstant(const Vector &constant)
}
}
void CoefficientVector::SetConstant(const DenseMatrix &constant, bool transpose)
void CoefficientVector::SetConstant(const DenseMatrix &constant)
{
const int nq = (storage & CoefficientStorage::CONSTANTS) ? 1 : qs.GetSize();
const int width = constant.Width();
@@ -2168,8 +2029,7 @@ void CoefficientVector::SetConstant(const DenseMatrix &constant, bool transpose)
{
for (int i = 0; i < height; ++i)
{
const real_t val = transpose ? constant(j,i) : constant(i,j);
(*this)[i + j*height + iq*vdim] = val;
(*this)[i + j*height + iq*vdim] = constant(i, j);
}
}
}
+6 -93
View File
@@ -114,10 +114,11 @@ public:
/// Construct the constant coefficient using a vector of constants.
/** @a c should be a vector defined by attributes, so for region with
attribute @a i @a c[i-1] is the coefficient in that region */
PWConstCoefficient(const Vector &c) { UpdateConstants(c); }
PWConstCoefficient(Vector &c)
{ constants.SetSize(c.Size()); constants=c; }
/// Update the constants with vector @a c.
void UpdateConstants(const Vector &c) { constants = c; }
void UpdateConstants(Vector &c) { constants.SetSize(c.Size()); constants=c; }
/// Return a reference to the i-th constant
real_t &operator()(int i) { return constants(i-1); }
@@ -1331,8 +1332,8 @@ public:
/// Get the coefficient located at (i,j) in the matrix.
Coefficient* GetCoeff (int i, int j) { return Coeff[i*width+j]; }
/** @brief Set the coefficient located at (i,j) in the matrix. By default
this will take ownership of the Coefficient passed in, but this
/** @brief Set the coefficient located at (i,j) in the matrix. By default by
default this will take ownership of the Coefficient passed in, but this
can be overridden with the @a own parameter. */
void Set(int i, int j, Coefficient * c, bool own=true);
@@ -1455,9 +1456,6 @@ public:
/// Set the time for internally stored coefficients
void SetTime(real_t t) override;
/// @copydoc Coefficient::Project(QuadratureFunction &)
void Project(QuadratureFunction &qf) override;
/// Reset the first term in the linear combination as a constant
void SetAConst(real_t A) { a = NULL; aConst = A; }
/// Return the first term in the linear combination
@@ -1639,9 +1637,6 @@ public:
/// Set the time for internally stored coefficients
void SetTime(real_t t) override;
/// @copydoc Coefficient::Project(QuadratureFunction &)
void Project(QuadratureFunction &qf) override;
/// Reset the first term in the product as a constant
void SetAConst(real_t A) { a = NULL; aConst = A; }
/// Return the first term in the product
@@ -1690,9 +1685,6 @@ public:
/// Set the time for internally stored coefficients
void SetTime(real_t t) override;
/// @copydoc Coefficient::Project(QuadratureFunction &)
void Project(QuadratureFunction &qf) override;
/// Reset the numerator in the ratio as a constant
void SetAConst(real_t A) { a = NULL; aConst = A; }
/// Return the numerator of the ratio
@@ -1872,85 +1864,6 @@ public:
const IntegrationPoint &ip) override;
};
/// Scalar coefficient defined as component of a vector coefficient
class VectorComponentCoefficient : public Coefficient
{
private:
VectorCoefficient *a = nullptr;
mutable Vector va;
int component;
public:
/// Construct with a vector coefficient.
VectorComponentCoefficient(VectorCoefficient &A)
: a(&A), va(A.GetVDim()), component(0) {};
VectorComponentCoefficient(VectorCoefficient &A, int c);
/// Set the time for internally stored coefficients
void SetTime(real_t t) override;
/// Reset the vector coefficient
void SetACoef(VectorCoefficient &A) { a = &A; }
/// Return the vector coefficient
VectorCoefficient * GetACoef() const { return a; }
/// Set the component
void SetComponent(int c);
/// Return the component
int GetComponent() const { return component; }
/// Evaluate the trace coefficient at @a ip.
real_t Eval(ElementTransformation &T,
const IntegrationPoint &ip) override;
};
/// Scalar coefficient defined as component of a matrix coefficient
class MatrixComponentCoefficient : public Coefficient
{
private:
MatrixCoefficient *a = nullptr;
mutable DenseMatrix ma;
int row_idx,col_idx;
public:
MatrixComponentCoefficient(MatrixCoefficient &A)
: a(&A), ma(A.GetHeight(), A.GetWidth()), row_idx(0), col_idx(0) {};
/// Construct with the matrix coefficient.
MatrixComponentCoefficient(MatrixCoefficient &A, int ri, int ci);
/// Set the time for internally stored coefficients
void SetTime(real_t t) override;
/// Reset the matrix coefficient
void SetACoef(MatrixCoefficient &A) { a = &A; }
/// Return the matrix coefficient
MatrixCoefficient * GetACoef() const { return a; }
/// Reset the index
void SetRowIndex(int ri);
/// Return the index
int GetRowIndex() const { return row_idx; }
/// Reset the index
void SetColumnIndex(int ci);
/// Return the index
int GetColumnIndex() const { return col_idx; }
/// Evaluate the trace coefficient at @a ip.
real_t Eval(ElementTransformation &T,
const IntegrationPoint &ip) override;
};
/// Vector coefficient defined as the linear combination of two vectors
class VectorSumCoefficient : public VectorCoefficient
{
@@ -2598,7 +2511,7 @@ public:
void SetConstant(const Vector &constant);
/// Set this vector to the given constant matrix.
void SetConstant(const DenseMatrix &constant, bool transpose=false);
void SetConstant(const DenseMatrix &constant);
/// Set this vector to the given constant symmetric matrix.
void SetConstant(const DenseSymmetricMatrix &constant);
+8 -281
View File
@@ -11,15 +11,14 @@
#include "complex_fem.hpp"
#include "../general/forall.hpp"
#include "../general/text.hpp"
using namespace std;
namespace mfem
{
ComplexGridFunction::ComplexGridFunction(FiniteElementSpace *f)
: Vector(2*(f->GetVSize())), fes(f), fec_owned(NULL)
ComplexGridFunction::ComplexGridFunction(FiniteElementSpace *fes)
: Vector(2*(fes->GetVSize()))
{
UseDevice(true);
this->Vector::operator=(0.0);
@@ -29,88 +28,12 @@ ComplexGridFunction::ComplexGridFunction(FiniteElementSpace *f)
gfi = new GridFunction();
gfi->MakeRef(fes, *this, fes->GetVSize());
fes_sequence = fes->GetSequence();
}
ComplexGridFunction::ComplexGridFunction(Mesh *m, std::istream &input)
: Vector(), fes(NULL), fec_owned(NULL)
{
string buff;
// Grid functions are stored on the device
UseDevice(true);
input >> std::ws;
getline(input, buff); // 'ComplexGridFunction'
filter_dos(buff);
if (buff != "ComplexGridFunction")
{
MFEM_ABORT("unrecognized file header: " << buff);
}
fes = new FiniteElementSpace;
fec_owned = fes->Load(m, input);
skip_comment_lines(input, '#');
istream::int_type next_char = input.peek();
if (next_char == 'N') // First letter of "NURBS_patches"
{
getline(input, buff);
filter_dos(buff);
if (buff == "NURBS_patches")
{
MFEM_ABORT("NURBS not yet supported with ComplexGridFunction objects");
}
else
{
MFEM_ABORT("unknown section: " << buff);
}
}
else
{
Vector::Load(input, 2*fes->GetVSize());
// if the mesh is a legacy (v1.1) NC mesh, it has old vertex ordering
if (fes->Nonconforming() &&
fes->GetMesh()->ncmesh->IsLegacyLoaded())
{
// LegacyNCReorder();
MFEM_ABORT("LegacyNCReorder not supported for "
"ComplexGridFunction objects");
}
}
gfr = new GridFunction();
gfr->MakeRef(fes, *this, 0);
gfi = new GridFunction();
gfi->MakeRef(fes, *this, fes->GetVSize());
fes_sequence = fes->GetSequence();
}
void ComplexGridFunction::Destroy()
{
delete gfr; delete gfi;
if (fec_owned)
{
delete fes;
delete fec_owned;
fec_owned = NULL;
}
}
void
ComplexGridFunction::Update()
{
if (fes->GetSequence() == fes_sequence)
{
return; // space and grid function are in sync, no-op
}
fes_sequence = fes->GetSequence();
FiniteElementSpace *fes = gfr->FESpace();
const int vsize = fes->GetVSize();
const Operator *T = fes->GetUpdateOperator();
@@ -161,17 +84,6 @@ ComplexGridFunction::Update()
}
}
int ComplexGridFunction::VectorDim() const
{
const FiniteElement *fe = fes->GetTypicalFE();
if (!fe || fe->GetRangeType() == FiniteElement::SCALAR)
{
return fes->GetVDim();
}
return fes->GetVDim()*std::max(fes->GetMesh()->SpaceDimension(),
fe->GetRangeDim());
}
void
ComplexGridFunction::ProjectCoefficient(Coefficient &real_coeff,
Coefficient &imag_coeff)
@@ -237,35 +149,6 @@ ComplexGridFunction::ProjectBdrCoefficientTangent(VectorCoefficient
gfi->SyncAliasMemory(*this);
}
void ComplexGridFunction::Save(std::ostream &os) const
{
os << "ComplexGridFunction\n";
fes->Save(os);
os << '\n';
if (fes->GetOrdering() == Ordering::byNODES)
{
Vector::Print(os, 1);
}
else
{
Vector::Print(os, fes->GetVDim());
}
os.flush();
}
void ComplexGridFunction::Save(const char *fname, int precision) const
{
ofstream ofs(fname);
ofs.precision(precision);
Save(ofs);
}
std::ostream &operator<<(std::ostream &os, const ComplexGridFunction &sol)
{
sol.Save(os);
return os;
}
ComplexLinearForm::ComplexLinearForm(FiniteElementSpace *fes,
ComplexOperator::Convention convention)
@@ -771,8 +654,8 @@ SesquilinearForm::Update(FiniteElementSpace *nfes)
#ifdef MFEM_USE_MPI
ParComplexGridFunction::ParComplexGridFunction(ParFiniteElementSpace *pf)
: Vector(2*(pf->GetVSize())), pfes(pf), fec_owned(NULL)
ParComplexGridFunction::ParComplexGridFunction(ParFiniteElementSpace *pfes)
: Vector(2*(pfes->GetVSize()))
{
UseDevice(true);
this->Vector::operator=(0.0);
@@ -782,105 +665,12 @@ ParComplexGridFunction::ParComplexGridFunction(ParFiniteElementSpace *pf)
pgfi = new ParGridFunction();
pgfi->MakeRef(pfes, *this, pfes->GetVSize());
fes_sequence = pfes->GetSequence();
}
ParComplexGridFunction::ParComplexGridFunction(ParMesh *m, std::istream &input)
: Vector(), pfes(NULL), fec_owned(NULL)
{
string buff;
// Grid functions are stored on the device
UseDevice(true);
input >> std::ws;
getline(input, buff); // 'ParComplexGridFunction'
filter_dos(buff);
if (buff != "ParComplexGridFunction")
{
MFEM_ABORT("unrecognized file header: " << buff);
}
FiniteElementSpace *fes = new FiniteElementSpace;
fec_owned = fes->Load(m, input);
pfes = new ParFiniteElementSpace(m, fec_owned, fes->GetVDim(),
fes->GetOrdering());
delete fes;
skip_comment_lines(input, '#');
istream::int_type next_char = input.peek();
if (next_char == 'N') // First letter of "NURBS_patches"
{
getline(input, buff);
filter_dos(buff);
if (buff == "NURBS_patches")
{
MFEM_ABORT("NURBS not yet supported with ComplexGridFunction objects");
}
else
{
MFEM_ABORT("unknown section: " << buff);
}
}
else
{
int vsize = pfes->GetVSize();
Vector::Load(input, 2*vsize);
real_t *data_ = const_cast<real_t*>(HostRead());
for (int i = 0; i < vsize; i++)
{
if (pfes->GetDofSign(i) < 0)
{
data_[i] = -data_[i];
data_[i+vsize] = -data_[i+vsize];
}
}
// if the mesh is a legacy (v1.1) NC mesh, it has old vertex ordering
if (pfes->Nonconforming() &&
pfes->GetMesh()->ncmesh->IsLegacyLoaded())
{
// LegacyNCReorder();
MFEM_ABORT("LegacyNCReorder not supported for "
"ComplexGridFunction objects");
}
}
pgfr = new ParGridFunction();
pgfr->MakeRef(pfes, *this, 0);
pgfi = new ParGridFunction();
pgfi->MakeRef(pfes, *this, pfes->GetVSize());
fes_sequence = pfes->GetSequence();
}
void ParComplexGridFunction::Destroy()
{
delete pgfr; delete pgfi;
if (fec_owned)
{
delete pfes;
delete fec_owned;
fec_owned = NULL;
}
}
void
ParComplexGridFunction::Update()
{
if (pfes->GetSequence() == fes_sequence)
{
return; // space and grid function are in sync, no-op
}
fes_sequence = pfes->GetSequence();
ParFiniteElementSpace *pfes = pgfr->ParFESpace();
const int vsize = pfes->GetVSize();
const Operator *T = pfes->GetUpdateOperator();
@@ -929,17 +719,6 @@ ParComplexGridFunction::Update()
}
}
int ParComplexGridFunction::VectorDim() const
{
const FiniteElement *fe = pfes->GetTypicalFE();
if (!fe || fe->GetRangeType() == FiniteElement::SCALAR)
{
return pfes->GetVDim();
}
return pfes->GetVDim()*std::max(pfes->GetMesh()->SpaceDimension(),
fe->GetRangeDim());
}
void
ParComplexGridFunction::ProjectCoefficient(Coefficient &real_coeff,
Coefficient &imag_coeff)
@@ -1010,6 +789,7 @@ ParComplexGridFunction::ProjectBdrCoefficientTangent(VectorCoefficient
void
ParComplexGridFunction::Distribute(const Vector *tv)
{
ParFiniteElementSpace *pfes = pgfr->ParFESpace();
const int tvsize = pfes->GetTrueVSize();
tv->Read();
@@ -1027,6 +807,7 @@ ParComplexGridFunction::Distribute(const Vector *tv)
void
ParComplexGridFunction::ParallelProject(Vector &tv) const
{
ParFiniteElementSpace *pfes = pgfr->ParFESpace();
const int tvsize = pfes->GetTrueVSize();
tv.Write();
@@ -1044,60 +825,6 @@ ParComplexGridFunction::ParallelProject(Vector &tv) const
tvi.SyncAliasMemory(tv);
}
void ParComplexGridFunction::Save(std::ostream &os) const
{
os << "ParComplexGridFunction\n";
pfes->Save(os);
os << '\n';
int vsize = pfes->GetVSize();
real_t *data_ = const_cast<real_t*>(HostRead());
for (int i = 0; i < vsize; i++)
{
if (pfes->GetDofSign(i) < 0)
{
data_[i] = -data_[i];
data_[i+vsize] = -data_[i+vsize];
}
}
if (pfes->GetOrdering() == Ordering::byNODES)
{
Vector::Print(os, 1);
}
else
{
Vector::Print(os, pfes->GetVDim());
}
for (int i = 0; i < vsize; i++)
{
if (pfes->GetDofSign(i) < 0)
{
data_[i] = -data_[i];
data_[i+vsize] = -data_[i+vsize];
}
}
os.flush();
}
void ParComplexGridFunction::Save(const char *fname, int precision) const
{
int rank = pfes->GetMyRank();
ostringstream fname_with_suffix;
fname_with_suffix << fname << "." << setfill('0') << setw(6) << rank;
ofstream ofs(fname_with_suffix.str().c_str());
ofs.precision(precision);
Save(ofs);
}
std::ostream &operator<<(std::ostream &os, const ParComplexGridFunction &sol)
{
sol.Save(os);
return os;
}
ParComplexLinearForm::ParComplexLinearForm(ParFiniteElementSpace *pfes,
ComplexOperator::Convention
+16 -178
View File
@@ -35,72 +35,15 @@ private:
GridFunction * gfi;
protected:
/// FE space on which the grid function lives. Owned if #fec_owned
/// is not NULL.
FiniteElementSpace *fes;
/** @brief Used when the grid function is read from a file. It can also be
set explicitly, see MakeOwner().
If not NULL, this pointer is owned by the ComplexGridFunction. */
FiniteElementCollection *fec_owned;
long fes_sequence; // see FiniteElementSpace::sequence, Mesh::sequence
void Destroy();
void Destroy() { delete gfr; delete gfi; }
public:
/** @brief Construct a ComplexGridFunction associated with the
FiniteElementSpace @a *f. */
ComplexGridFunction(FiniteElementSpace *f);
/** @brief Construct a ComplexGridFunction on the given Mesh, using the data
from @a input.
The content of @a input should be in the format created by the method
Save(). The reconstructed FiniteElementSpace and FiniteElementCollection
are owned by the ComplexGridFunction. */
ComplexGridFunction(Mesh *m, std::istream &input);
void Update();
/** Return update counter, similar to Mesh::GetSequence(). Used to
check if it is up to date with the space. */
long GetSequence() const { return fes_sequence; }
/// Make the ComplexGridFunction the owner of #fec_owned and #fes.
/** If the new FiniteElementCollection, @a fec_, is NULL, ownership
of #fec_owned and #fes is taken away. */
void MakeOwner(FiniteElementCollection *fec_) { fec_owned = fec_; }
/// Returns a pointer to the FiniteElementCollection used to
/// construct this ComplexGridFunction if this class owns that
/// object. Otherwise this function will return NULL.
FiniteElementCollection *OwnFEC() { return fec_owned; }
/// Shortcut for calling FiniteElementSpace::GetVectorDim() on the
/// underlying #fes
int VectorDim() const;
/// Copy assignment. Only the data of the base class Vector is copied.
/** It is assumed that this object and @a rhs use FiniteElementSpace%s that
have the same size.
@note Defining this method overwrites the implicitly defined copy
assignment operator. */
ComplexGridFunction &operator=(const ComplexGridFunction &rhs)
{ return operator=((const Vector &)rhs); }
/// Copy the data from @a v.
/** The size of @a v must be equal to double of the size of the associated
FiniteElementSpace #fes. */
ComplexGridFunction &operator=(const Vector &v)
{
MFEM_ASSERT(fes && v.Size() == 2*fes->GetVSize(), "");
Vector::operator=(v);
return *this;
}
/// Assign constant values to the ComplexGridFunction data.
ComplexGridFunction &operator=(const std::complex<real_t> & value)
{ *gfr = value.real(); *gfi = value.imag(); return *this; }
@@ -120,8 +63,8 @@ public:
VectorCoefficient &imag_coeff,
Array<int> &attr);
FiniteElementSpace *FESpace() { return fes; }
const FiniteElementSpace *FESpace() const { return fes; }
FiniteElementSpace *FESpace() { return gfr->FESpace(); }
const FiniteElementSpace *FESpace() const { return gfr->FESpace(); }
GridFunction & real() { return *gfr; }
GridFunction & imag() { return *gfi; }
@@ -136,52 +79,11 @@ public:
/// @a gfr and @a gfi to match the ComplexGridFunction.
void SyncAlias() { gfr->SyncAliasMemory(*this); gfi->SyncAliasMemory(*this); }
/// @brief Returns ||u_ex - u_h||_L2 for complex-valued scalar fields
///
/// @see GridFunction::ComputeL2Error(Coefficient &exsol,
/// const IntegrationRule *irs[],
/// const Array<int> *elems) const
/// for more detailed documentation.
virtual real_t ComputeL2Error(Coefficient &exsolr, Coefficient &exsoli,
const IntegrationRule *irs[] = NULL) const
{
real_t err_r = gfr->ComputeL2Error(exsolr, irs);
real_t err_i = gfi->ComputeL2Error(exsoli, irs);
return sqrt(err_r * err_r + err_i * err_i);
}
/// @brief Returns ||u_ex - u_h||_L2 for complex-valued vector fields
///
/// @see GridFunction::ComputeL2Error(VectorCoefficient &exsol,
/// const IntegrationRule *irs[],
/// const Array<int> *elems) const
/// for more detailed documentation.
virtual real_t ComputeL2Error(VectorCoefficient &exsolr,
VectorCoefficient &exsoli,
const IntegrationRule *irs[] = NULL,
Array<int> *elems = NULL) const
{
real_t err_r = gfr->ComputeL2Error(exsolr, irs, elems);
real_t err_i = gfi->ComputeL2Error(exsoli, irs, elems);
return sqrt(err_r * err_r + err_i * err_i);
}
/// Save the ComplexGridFunction to an output stream.
virtual void Save(std::ostream &out) const;
/// Save the ComplexGridFunction to a file
/** The given @a precision will be used for ASCII output. */
virtual void Save(const char *fname, int precision=16) const;
/// Destroys the grid function.
virtual ~ComplexGridFunction() { Destroy(); }
};
/** Overload operator<< for std::ostream and ComplexGridFunction; not valid
for the class ParComplexGridFunction */
std::ostream &operator<<(std::ostream &out, const ComplexGridFunction &sol);
/** Class for a complex-valued linear form
The @a convention argument in the class's constructor is documented in the
@@ -443,23 +345,12 @@ public:
class ParComplexGridFunction : public Vector
{
private:
ParGridFunction * pgfr;
ParGridFunction * pgfi;
protected:
/// FE space on which the grid function lives. Owned if #fec_owned
/// is not NULL.
ParFiniteElementSpace *pfes;
/** @brief Used when the grid function is read from a file. It can also be
set explicitly, see MakeOwner().
If not NULL, this pointer is owned by the ParComplexGridFunction. */
FiniteElementCollection *fec_owned;
long fes_sequence; // see FiniteElementSpace::sequence, Mesh::sequence
void Destroy();
void Destroy() { delete pgfr; delete pgfi; }
public:
@@ -467,33 +358,8 @@ public:
ParFiniteElementSpace @a *pf. */
ParComplexGridFunction(ParFiniteElementSpace *pf);
/** @brief Construct a ParComplexGridFunction on a given ParMesh,
@a pmesh, reading from an std::istream.
In the process, a ParFiniteElementSpace and a FiniteElementCollection are
constructed. The new ParComplexGridFunction assumes ownership of both. */
ParComplexGridFunction(ParMesh *pmesh, std::istream &input);
void Update();
/** Return update counter, similar to Mesh::GetSequence(). Used to
check if it is up to date with the space. */
long GetSequence() const { return fes_sequence; }
/// Make the ParComplexGridFunction the owner of #fec_owned and #pfes.
/** If the new FiniteElementCollection, @a fec_, is NULL, ownership
of #fec_owned and #pfes is taken away. */
void MakeOwner(FiniteElementCollection *fec_) { fec_owned = fec_; }
/// Returns a pointer to the FiniteElementCollection used to
/// construct this ParComplexGridFunction if this class owns that
/// object. Otherwise this function will return NULL.
FiniteElementCollection *OwnFEC() { return fec_owned; }
/// Shortcut for calling FiniteElementSpace::GetVectorDim() on the
/// underlying #pfes
int VectorDim() const;
/// Assign constant values to the ParComplexGridFunction data.
ParComplexGridFunction &operator=(const std::complex<real_t> & value)
{ *pgfr = value.real(); *pgfi = value.imag(); return *this; }
@@ -519,11 +385,11 @@ public:
/// Returns the vector restricted to the true dofs.
void ParallelProject(Vector &tv) const;
FiniteElementSpace *FESpace() { return pfes; }
const FiniteElementSpace *FESpace() const { return pfes; }
FiniteElementSpace *FESpace() { return pgfr->FESpace(); }
const FiniteElementSpace *FESpace() const { return pgfr->FESpace(); }
ParFiniteElementSpace *ParFESpace() { return pfes; }
const ParFiniteElementSpace *ParFESpace() const { return pfes; }
ParFiniteElementSpace *ParFESpace() { return pgfr->ParFESpace(); }
const ParFiniteElementSpace *ParFESpace() const { return pgfr->ParFESpace(); }
ParGridFunction & real() { return *pgfr; }
ParGridFunction & imag() { return *pgfi; }
@@ -536,32 +402,17 @@ public:
/// Update the alias memory location of the real and imaginary
/// ParGridFunction @a pgfr and @a pgfi to match the ParComplexGridFunction.
void SyncAlias()
{ pgfr->SyncAliasMemory(*this); pgfi->SyncAliasMemory(*this); }
void SyncAlias() { pgfr->SyncAliasMemory(*this); pgfi->SyncAliasMemory(*this); }
/// @brief Returns ||u_ex - u_h||_L2 in parallel for complex-valued
/// scalar fields
///
/// @see GridFunction::ComputeL2Error(Coefficient &exsol,
/// const IntegrationRule *irs[],
/// const Array<int> *elems) const
/// for more detailed documentation.
virtual real_t ComputeL2Error(Coefficient &exsolr, Coefficient &exsoli,
const IntegrationRule *irs[] = NULL,
Array<int> *elems = NULL) const
const IntegrationRule *irs[] = NULL) const
{
real_t err_r = pgfr->ComputeL2Error(exsolr, irs, elems);
real_t err_i = pgfi->ComputeL2Error(exsoli, irs, elems);
return hypot(err_r, err_i);
real_t err_r = pgfr->ComputeL2Error(exsolr, irs);
real_t err_i = pgfi->ComputeL2Error(exsoli, irs);
return sqrt(err_r * err_r + err_i * err_i);
}
/// @brief Returns ||u_ex - u_h||_L2 in parallel for complex-valued
/// vector fields
///
/// @see GridFunction::ComputeL2Error(VectorCoefficient &exsol,
/// const IntegrationRule *irs[],
/// const Array<int> *elems) const
/// for more detailed documentation.
virtual real_t ComputeL2Error(VectorCoefficient &exsolr,
VectorCoefficient &exsoli,
const IntegrationRule *irs[] = NULL,
@@ -569,28 +420,15 @@ public:
{
real_t err_r = pgfr->ComputeL2Error(exsolr, irs, elems);
real_t err_i = pgfi->ComputeL2Error(exsoli, irs, elems);
return hypot(err_r, err_i);
return sqrt(err_r * err_r + err_i * err_i);
}
/// Save the local portion of the ParComplexGridFunction
/** This differs from the serial ComplexGridFunction::Save in that it
takes into account the signs of the local dofs. */
void Save(std::ostream &out) const;
/// Save the ParComplexGridFunction to files
/** Saves one file for each MPI rank. The files will be given suffixes
according to the MPI rank. The given @a precision will be used for ASCII
output. */
void Save(const char *fname, int precision=16) const;
/// Destroys grid function.
virtual ~ParComplexGridFunction() { Destroy(); }
};
/** Overload operator<< for std::ostream and ParComplexGridFunction */
std::ostream &operator<<(std::ostream &out, const ParComplexGridFunction &sol);
/** Class for a complex-valued, parallel linear form
The @a convention argument in the class's constructor is documented in the
+47 -269
View File
@@ -70,8 +70,8 @@ ConduitDataCollection::~ConduitDataCollection()
void ConduitDataCollection::Save()
{
std::string dir_name = MeshDirectoryName();
int err_ = create_directory(dir_name, mesh, myid);
if (err_)
int err = create_directory(dir_name, mesh, myid);
if (err)
{
MFEM_ABORT("Error creating directory: " << dir_name);
}
@@ -88,7 +88,6 @@ void ConduitDataCollection::Save()
<< verify_info.to_json());
}
// wrap all grid functions
FieldMapConstIterator itr;
for ( itr = field_map.begin(); itr != field_map.end(); itr++)
{
@@ -104,16 +103,6 @@ void ConduitDataCollection::Save()
}
}
// wrap all quadrature functions
QFieldMapConstIterator qf_itr;
for ( qf_itr = q_field_map.begin(); qf_itr != q_field_map.end(); qf_itr++)
{
std::string name = qf_itr->first;
QuadratureFunction *qf = qf_itr->second;
QuadratureFunctionToBlueprintField(qf,
n_mesh["fields"][name]);
}
// save mesh data
SaveMeshAndFields(myid,
n_mesh,
@@ -168,16 +157,6 @@ ConduitDataCollection::SetProtocol(const std::string &protocol)
relay_protocol = protocol;
}
// Conduit data type id for the MFEM precision
constexpr conduit::index_t mfem_precision_conduit_id =
#if defined(MFEM_USE_DOUBLE)
CONDUIT_NATIVE_DOUBLE_ID;
#elif defined(MFEM_USE_SINGLE)
CONDUIT_NATIVE_FLOAT_ID;
#else
#error Unknown MFEM precision
#endif
//------------------------------
// begin static public methods
//------------------------------
@@ -227,41 +206,42 @@ ConduitDataCollection::BlueprintMeshToMesh(const Node &n_mesh,
// get the number of points
int num_verts = n_coordset_vals[0].dtype().number_of_elements();
// get vals for points
const real_t *verts_ptr = NULL;
const double *verts_ptr = NULL;
// the mfem mesh constructor needs coords with interleaved (aos) type
// ordering, even for 1d + 2d we always need 3 real_t (double/float) b/c it
// uses Array<Vertex> and Vertex is a pod of 3 real_t. we check for this
// ordering, even for 1d + 2d we always need 3 doubles b/c it uses
// Array<Vertex> and Vertex is a pod of 3 doubles. we check for this
// case, if we don't have it we convert the data
if (ndims == 3 &&
n_coordset_vals[0].dtype().id() == mfem_precision_conduit_id &&
n_coordset_vals[0].dtype().is_double() &&
blueprint::mcarray::is_interleaved(n_coordset_vals) )
{
// already interleaved mcarray of 3 real_t (double/float),
// already interleaved mcarray of 3 doubles,
// return ptr to beginning
verts_ptr = n_coordset_vals[0].value();
}
else
{
Node n_tmp;
// check all vals, if we don't have real_t (double/float) convert
// to real_t
// check all vals, if we don't have doubles convert
// to doubles
NodeConstIterator itr = n_coordset_vals.children();
while (itr.has_next())
{
const Node &c_vals = itr.next();
std::string c_name = itr.name();
if ( c_vals.dtype().id() == mfem_precision_conduit_id )
if ( c_vals.dtype().is_double() )
{
// zero copy current coords
n_tmp[c_name].set_external(c_vals);
}
else
{
// convert
c_vals.to_data_type(mfem_precision_conduit_id, n_tmp[c_name]);
c_vals.to_double_array(n_tmp[c_name]);
}
}
@@ -270,13 +250,13 @@ ConduitDataCollection::BlueprintMeshToMesh(const Node &n_mesh,
if (ndims < 3)
{
// add dummy z
n_tmp["z"].set(DataType(mfem_precision_conduit_id, num_verts));
n_tmp["z"].set(DataType::c_double(num_verts));
}
if (ndims < 2)
{
// add dummy y
n_tmp["y"].set(DataType(mfem_precision_conduit_id, num_verts));
n_tmp["y"].set(DataType::c_double(num_verts));
}
Node &n_conv_coords_vals = n_conv["coordsets"][coords_name]["values"];
@@ -472,7 +452,7 @@ ConduitDataCollection::BlueprintMeshToMesh(const Node &n_mesh,
// if nodes gf is attached later, it resets the space dim based
// on the gf's fes.
Mesh *mesh = new Mesh(// from coordset
const_cast<real_t*>(verts_ptr),
const_cast<double*>(verts_ptr),
num_verts,
// from topology
const_cast<int*>(elem_indices),
@@ -539,7 +519,7 @@ ConduitDataCollection::BlueprintFieldToGridFunction(Mesh *mesh,
// can't return a gf that zero copies the conduit data
Node n_conv;
const real_t *vals_ptr = NULL;
const double *vals_ptr = NULL;
int vdim = 1;
@@ -549,10 +529,10 @@ ConduitDataCollection::BlueprintFieldToGridFunction(Mesh *mesh,
{
vdim = n_field["values"].number_of_children();
// need to check that we have real_t (double/float) and
// need to check that we have doubles and
// cover supported layouts
if ( n_field["values"][0].dtype().id() == mfem_precision_conduit_id )
if ( n_field["values"][0].dtype().is_double() )
{
// check for contig
if (n_field["values"].is_contiguous())
@@ -576,26 +556,27 @@ ConduitDataCollection::BlueprintFieldToGridFunction(Mesh *mesh,
vals_ptr = n_conv["values"].child(0).value();
}
}
else // convert to real_t (double/float) and use contig
else // convert to doubles and use contig
{
Node n_tmp;
// check all vals, if we don't have real_t (double/float) convert
// to real_t
// check all vals, if we don't have doubles convert
// to doubles
NodeConstIterator itr = n_field["values"].children();
while (itr.has_next())
{
const Node &c_vals = itr.next();
std::string c_name = itr.name();
if ( c_vals.dtype().id() == mfem_precision_conduit_id )
if ( c_vals.dtype().is_double() )
{
// zero copy current coords
n_tmp[c_name].set_external(c_vals);
}
else
{
// convert
c_vals.to_data_type(mfem_precision_conduit_id, n_tmp[c_name]);
c_vals.to_double_array(n_tmp[c_name]);
}
}
@@ -608,15 +589,14 @@ ConduitDataCollection::BlueprintFieldToGridFunction(Mesh *mesh,
}
else
{
if (n_field["values"].dtype().id() == mfem_precision_conduit_id &&
if (n_field["values"].dtype().is_double() &&
n_field["values"].is_compact())
{
vals_ptr = n_field["values"].value();
}
else
{
n_field["values"].to_data_type(mfem_precision_conduit_id,
n_conv["values"]);
n_field["values"].to_double_array(n_conv["values"]);
vals_ptr = n_conv["values"].value();
}
}
@@ -640,14 +620,14 @@ ConduitDataCollection::BlueprintFieldToGridFunction(Mesh *mesh,
if (zero_copy)
{
res = new GridFunction(fes,const_cast<real_t*>(vals_ptr));
res = new GridFunction(fes,const_cast<double*>(vals_ptr));
}
else
{
// copy case, this constructor will alloc the space for the GF data
res = new GridFunction(fes);
// create an mfem vector that wraps the conduit data
Vector vals_vec(const_cast<real_t*>(vals_ptr),fes->GetVSize());
Vector vals_vec(const_cast<double*>(vals_ptr),fes->GetVSize());
// copy values into the result
(*res) = vals_vec;
}
@@ -659,155 +639,6 @@ ConduitDataCollection::BlueprintFieldToGridFunction(Mesh *mesh,
return res;
}
//---------------------------------------------------------------------------//
mfem::QuadratureFunction *
ConduitDataCollection::BlueprintFieldToQuadratureFunction(Mesh *mesh,
const Node &n_field,
bool zero_copy)
{
// n_conv holds converted data (when necessary for mfem api)
// if n_conv is used ( !n_conv.dtype().empty() ) we
// know that some data allocation was necessary, so we
// can't return a qf that zero copies the conduit data
Node n_conv;
const real_t *vals_ptr = NULL;
int vdim = 1;
if (n_field["values"].dtype().is_object())
{
vdim = n_field["values"].number_of_children();
// need to check that we have real_t (double/float) and
// cover supported layouts
if ( n_field["values"][0].dtype().id() == mfem_precision_conduit_id )
{
// quad funcs use what mfem calls byVDIM
// and what conduit calls interleaved
// check for interleaved
if (blueprint::mcarray::is_interleaved(n_field["values"]))
{
// conduit mcarray interleaved == mfem byVDIM
vals_ptr = n_field["values"].child(0).value();
}
else
{
// for mcarray generic case -- default to byVDIM
// aka interleaved
blueprint::mcarray::to_interleaved(n_field["values"],
n_conv["values"]);
vals_ptr = n_conv["values"].child(0).value();
}
}
else // convert to real_t (double/float) and use interleaved
{
Node n_tmp;
// check all vals, if we don't have real_t (double/float) convert
// to real_t
NodeConstIterator itr = n_field["values"].children();
while (itr.has_next())
{
const Node &c_vals = itr.next();
std::string c_name = itr.name();
if ( c_vals.dtype().id() == mfem_precision_conduit_id )
{
// zero copy current coords
n_tmp[c_name].set_external(c_vals);
}
else
{
// convert
c_vals.to_data_type(mfem_precision_conduit_id, n_tmp[c_name]);
}
}
// for mcarray generic case -- default to byVDIM
// aka interleaved
blueprint::mcarray::to_interleaved(n_tmp,
n_conv["values"]);
vals_ptr = n_conv["values"].child(0).value();
}
}
else // scalar case
{
if (n_field["values"].dtype().id() == mfem_precision_conduit_id &&
n_field["values"].is_compact())
{
vals_ptr = n_field["values"].value();
}
else
{
n_field["values"].to_data_type(mfem_precision_conduit_id,
n_conv["values"]);
vals_ptr = n_conv["values"].value();
}
}
if (zero_copy && !n_conv.dtype().is_empty())
{
//Info: "Cannot zero-copy since data conversions were necessary"
zero_copy = false;
}
// we need basis name to create the proper mfem quad space and quad func
// the pattern used to encode the quad space params is:
// QF_{ORDER}_{VDIM}
// ORDER is the degree of the polynomials for the quad rule
// VDIM is the number of components at each quad point (scalar, vector, etc)
int qf_order = 0;
int qf_vdim = 0;
std::string qf_name = n_field["basis"].as_string();
const char *qf_name_cstr = qf_name.c_str();
if (!strncmp(qf_name_cstr, "QF_", 3))
{
// parse {ORDER}
qf_order = atoi(qf_name_cstr + 3);
// find second `_`
const char *qf_vdim_cstr = strstr(qf_name_cstr+3,"_");
if (qf_vdim_cstr == NULL)
{
MFEM_ABORT("Error parsing quadrature function description string: "
<< qf_name << std::endl
<< "Expected: QF_{ORDER}_{VDIM}");
}
// parse {VDIM}
qf_vdim = atoi(qf_vdim_cstr+1);
}
else
{
MFEM_ABORT("Error parsing quadrature function description string: "
<< qf_name << std::endl
<< "Expected: QF_{ORDER}_{VDIM}");
}
MFEM_VERIFY(qf_vdim == vdim, "vector dimension mismatch: vdim = " << vdim
<< ", qf_vdim = " << qf_vdim);
mfem::QuadratureSpace *quad_space = new mfem::QuadratureSpace(mesh, qf_order);
mfem::QuadratureFunction *res = new mfem::QuadratureFunction();
if (zero_copy)
{
res->SetSpace(quad_space, const_cast<real_t*>(vals_ptr), vdim);
res->SetOwnsSpace(true);
}
else
{
res->SetSpace(quad_space, vdim);
res->SetOwnsSpace(true);
// copy case, this constructor will alloc the space for the quad data
// create an mfem vector that wraps the conduit data
Vector vals_vec(const_cast<real_t*>(vals_ptr),res->Size());
// copy values into the result
(*res) = vals_vec;
}
return res;
}
//---------------------------------------------------------------------------//
void
ConduitDataCollection::MeshToBlueprintMesh(Mesh *mesh,
@@ -825,20 +656,20 @@ ConduitDataCollection::MeshToBlueprintMesh(Mesh *mesh,
// Setup main coordset
////////////////////////////////////////////
// Assumes mfem::Vertex has the layout of a real_t (double/float) array.
// Assumes mfem::Vertex has the layout of a double array.
// this logic assumes an mfem vertex is always 3 real_t (double/float) wide
// this logic assumes an mfem vertex is always 3 doubles wide
int stride = sizeof(mfem::Vertex);
int num_vertices = mesh->GetNV();
MFEM_ASSERT( ( stride == 3 * sizeof(real_t) ),
MFEM_ASSERT( ( stride == 3 * sizeof(double) ),
"Unexpected stride for Vertex");
Node &n_mesh_coords = n_mesh["coordsets"][coordset_name];
n_mesh_coords["type"] = "explicit";
real_t *coords_ptr = mesh->GetVertex(0);
double *coords_ptr = mesh->GetVertex(0);
n_mesh_coords["values/x"].set_external(coords_ptr,
num_vertices,
@@ -849,14 +680,14 @@ ConduitDataCollection::MeshToBlueprintMesh(Mesh *mesh,
{
n_mesh_coords["values/y"].set_external(coords_ptr,
num_vertices,
sizeof(real_t),
sizeof(double),
stride);
}
if (dim >= 3)
{
n_mesh_coords["values/z"].set_external(coords_ptr,
num_vertices,
sizeof(real_t) * 2,
sizeof(double) * 2,
stride);
}
@@ -1111,59 +942,6 @@ ConduitDataCollection::GridFunctionToBlueprintField(mfem::GridFunction *gf,
}
//---------------------------------------------------------------------------//
void
ConduitDataCollection::QuadratureFunctionToBlueprintField(
mfem::QuadratureFunction *qf,
Node &n_field,
const std::string &main_topology_name)
{
// For quadrature functions, use basis pattern:
// QF_{ORDER}_{VDIM}
int qf_vdim = qf->GetVDim();
int qf_order = qf->GetSpace()->GetOrder();
int qf_size = qf->GetSpace()->GetSize();
{
std::ostringstream oss;
oss << "QF_" << qf_order << "_" << qf_vdim;
n_field["basis"] = oss.str();
n_field["topology"] = main_topology_name;
}
if (qf_vdim == 1) // scalar case
{
n_field["values"].set_external(const_cast<real_t *>(qf->HostRead()),
qf_size);
}
else // vector case
{
// deal with striding of all components
// quadrature functions are always byVDIM
// or what conduit calls interleaved
index_t offset = 0;
index_t stride = sizeof(real_t) * qf_vdim;
for (int d = 0; d < qf_vdim; d++)
{
std::ostringstream oss;
oss << "v" << d;
std::string comp_name = oss.str();
n_field["values"][comp_name].set_external(const_cast<real_t *>(qf->HostRead()),
qf_size,
offset,
stride);
offset += sizeof(real_t);
}
}
}
//------------------------------
// end static public methods
//------------------------------
@@ -1189,7 +967,7 @@ ConduitDataCollection::RootFileName()
//---------------------------------------------------------------------------//
std::string
ConduitDataCollection::MeshFileName(int domain_id,
const std::string &relay_protocol_)
const std::string &relay_protocol)
{
std::string res = prefix_path +
name +
@@ -1198,7 +976,7 @@ ConduitDataCollection::MeshFileName(int domain_id,
"/domain_" +
to_padded_string(domain_id, pad_digits_rank) +
"." +
relay_protocol_;
relay_protocol;
return res;
}
@@ -1216,7 +994,7 @@ ConduitDataCollection::MeshDirectoryName()
//---------------------------------------------------------------------------//
std::string
ConduitDataCollection::MeshFilePattern(const std::string &relay_protocol_)
ConduitDataCollection::MeshFilePattern(const std::string &relay_protocol)
{
std::ostringstream oss;
oss << name
@@ -1225,7 +1003,7 @@ ConduitDataCollection::MeshFilePattern(const std::string &relay_protocol_)
<< "/domain_%0"
<< pad_digits_rank
<< "d."
<< relay_protocol_;
<< relay_protocol;
return oss.str();
}
@@ -1235,14 +1013,14 @@ ConduitDataCollection::MeshFilePattern(const std::string &relay_protocol_)
void
ConduitDataCollection::SaveRootFile(int num_domains,
const Node &n_mesh,
const std::string &relay_protocol_)
const std::string &relay_protocol)
{
// default to json root file, except for hdf5 case
std::string root_proto = "json";
if (relay_protocol_ == "hdf5")
if (relay_protocol == "hdf5")
{
root_proto = relay_protocol_;
root_proto = relay_protocol;
}
Node n_root;
@@ -1273,14 +1051,14 @@ ConduitDataCollection::SaveRootFile(int num_domains,
}
}
// add extra header info
n_root["protocol/name"] = relay_protocol_;
n_root["protocol/name"] = relay_protocol;
n_root["protocol/version"] = "0.3.1";
// we will save one file per domain, so trees == files
n_root["number_of_files"] = num_domains;
n_root["number_of_trees"] = num_domains;
n_root["file_pattern"] = MeshFilePattern(relay_protocol_);
n_root["file_pattern"] = MeshFilePattern(relay_protocol);
n_root["tree_pattern"] = "";
// Add the time, time step, and cycle
@@ -1295,9 +1073,9 @@ ConduitDataCollection::SaveRootFile(int num_domains,
void
ConduitDataCollection::SaveMeshAndFields(int domain_id,
const Node &n_mesh,
const std::string &relay_protocol_)
const std::string &relay_protocol)
{
relay::io::save(n_mesh, MeshFileName(domain_id, relay_protocol_));
relay::io::save(n_mesh, MeshFileName(domain_id, relay_protocol));
}
//---------------------------------------------------------------------------//
@@ -1394,13 +1172,13 @@ ConduitDataCollection::LoadRootFile(Node &root_out)
//---------------------------------------------------------------------------//
void
ConduitDataCollection::LoadMeshAndFields(int domain_id,
const std::string &relay_protocol_)
const std::string &relay_protocol)
{
// Note: This path doesn't use any info from the root file
// it uses the implicit mfem ConduitDataCollection layout
Node n_mesh;
relay::io::load( MeshFileName(domain_id, relay_protocol_), n_mesh);
relay::io::load( MeshFileName(domain_id, relay_protocol), n_mesh);
Node verify_info;
+7 -33
View File
@@ -50,11 +50,11 @@ namespace mfem
Those that construct MFEM objects from Conduit Nodes (Conduit Blueprint to
MFEM) provide a zero-copy option. Zero-copy is only possible if the
blueprint data matches the data types provided by the MFEM API, for example:
ints for connectivity arrays, real_t (double/float) for field value arrays,
allocations that match MFEM's striding options, etc. If these constraints
are not met, MFEM objects that own the data are created and returned. In
either case pointers to new MFEM object instances are returned, the
zero-copy only applies to data backing the MFEM object instances.
ints for connectivity arrays, doubles for field value arrays, allocations
that match MFEM's striding options, etc. If these constraints are not met,
MFEM objects that own the data are created and returned. In either case
pointers to new MFEM object instances are returned, the zero-copy only
applies to data backing the MFEM object instances.
@note QuadratureFunction%s (q-fields) are not supported.
@@ -183,21 +183,6 @@ public:
conduit::Node &out,
const std::string &main_topology_name = "main");
/// Describes a MFEM quadrature function using the mesh blueprint
/** Sets up passed conduit::Node out to describe the given quadrature function
using the mesh field blueprint.
Zero-copies as much data as possible.
@a main_toplogy_name is used to set the associated topology name.
With the default setting, the resulting field is associated with the
topology `main`.
*/
static void QuadratureFunctionToBlueprintField(QuadratureFunction *qf,
conduit::Node &out,
const std::string &main_topology_name = "main");
/// Constructs and MFEM mesh from a Conduit Blueprint Description
/** @a main_topology_name is used to select which topology to use, when
empty ("") the first topology entry will be used.
@@ -205,7 +190,7 @@ public:
If zero_copy == true, tries to construct a mesh that points to the data
described by the conduit node. This is only possible if the data in the
node matches the data types needed for the MFEM API (ints for
connectivity, real_t for field values, etc). If these constraints are
connectivity, doubles for field values, etc). If these constraints are
not met, a mesh that owns the data is created and returned.
*/
static Mesh *BlueprintMeshToMesh(const conduit::Node &n_mesh,
@@ -215,7 +200,7 @@ public:
/// Constructs and MFEM Grid Function from a Conduit Blueprint Description
/** If zero_copy == true, tries to construct a grid function that points to
the data described by the conduit node. This is only possible if the data
in the node matches the data types needed for the MFEM API (real_t for
in the node matches the data types needed for the MFEM API (doubles for
field values, allocated in soa or aos ordering, etc). If these
constraints are not met, a grid function that owns the data is created
and returned.
@@ -223,17 +208,6 @@ public:
static GridFunction *BlueprintFieldToGridFunction(Mesh *mesh,
const conduit::Node &n_field,
bool zero_copy = false);
/// Constructs and MFEM Quadrature Function from a Conduit Blueprint Description
/** If zero_copy == true, tries to construct a quadrature function that points to
the data described by the conduit node. This is only possible if the data
in the node matches the data types needed for the MFEM API (real_t for
field values, allocated in an interleavred/byVDIM order, etc). If these
constraints are not met, a grid function that owns the data is created
and returned.
*/
static QuadratureFunction *BlueprintFieldToQuadratureFunction(Mesh *mesh,
const conduit::Node &n_field,
bool zero_copy = false);
private:
/// Converts from MFEM element type enum to mesh bp shape name
+16 -209
View File
@@ -310,9 +310,9 @@ void DataCollection::SaveField(const std::string &field_name)
}
}
void DataCollection::SaveQField(const std::string &field_name)
void DataCollection::SaveQField(const std::string &q_field_name)
{
QFieldMapIterator it = q_field_map.find(field_name);
QFieldMapIterator it = q_field_map.find(q_field_name);
if (it != q_field_map.end())
{
SaveOneQField(it);
@@ -430,9 +430,7 @@ void VisItDataCollection::RegisterField(const std::string& name,
}
DataCollection::RegisterField(name, gf);
field_info_map[name] = VisItFieldInfo("nodes", gf->VectorDim(), LOD,
gf->FESpace()->FEColl()->Name(),
gf->FESpace()->FEColl()->GetOrder());
field_info_map[name] = VisItFieldInfo("nodes", gf->VectorDim(), LOD);
visit_levels_of_detail = std::max(visit_levels_of_detail, LOD);
}
@@ -451,14 +449,7 @@ void VisItDataCollection::RegisterQField(const std::string& name,
}
DataCollection::RegisterQField(name, qf);
// For quadrature functions, use basis pattern:
// QF_{ORDER}_{VDIM}
int qf_vdim = qf->GetVDim();
int qf_order = qf->GetSpace()->GetOrder();
std::ostringstream oss;
oss << "QF_" << qf_order << "_" << qf_vdim;
field_info_map[name] = VisItFieldInfo("quadrature", qf->GetVDim(), LOD,
oss.str(), qf_order);
field_info_map[name] = VisItFieldInfo("elements", 1, LOD);
visit_levels_of_detail = std::max(visit_levels_of_detail, LOD);
}
@@ -632,8 +623,7 @@ void VisItDataCollection::LoadFields()
{
field_map.Register(it->first, new GridFunction(mesh, file), own_data);
}
else if ((it->second).association == "elements" || // old style
(it->second).association == "quadrature") // new style
else if ((it->second).association == "elements")
{
q_field_map.Register(it->first, new QuadratureFunction(mesh, file), own_data);
}
@@ -647,8 +637,7 @@ void VisItDataCollection::LoadFields()
it->first,
new ParGridFunction(dynamic_cast<ParMesh*>(mesh), file), own_data);
}
else if ((it->second).association == "elements" || // old style
(it->second).association == "quadrature") // new style
else if ((it->second).association == "elements")
{
q_field_map.Register(it->first, new QuadratureFunction(mesh, file), own_data);
}
@@ -687,8 +676,6 @@ std::string VisItDataCollection::GetVisItRootString()
ftags["assoc"] = picojson::value((it->second).association);
ftags["comps"] = picojson::value(to_string((it->second).num_components));
ftags["lod"] = picojson::value(to_string((it->second).lod));
ftags["basis"] = picojson::value((it->second).basis);
ftags["order"] = picojson::value(to_string((it->second).order));
field["path"] = picojson::value(path_str + it->first + file_ext_format);
field["tags"] = picojson::value(ftags);
fields[it->first] = picojson::value(field);
@@ -765,31 +752,9 @@ void VisItDataCollection::ParseVisItRootString(const std::string& json)
it != fields_obj.end(); ++it)
{
picojson::value tags = it->second.get("tags");
// defaults that allow us to parse older mfem_root files
int lod = 1;
std::string basis = "";
int order = -1;
if (tags.contains("lod"))
{
lod = to_int(tags.get("lod").get<std::string>());
}
if (tags.contains("basis"))
{
basis = tags.get("comps").get<std::string>();
}
if (tags.contains("order"))
{
order = to_int(tags.get("comps").get<std::string>());
}
field_info_map[it->first] =
VisItFieldInfo(tags.get("assoc").get<std::string>(),
to_int(tags.get("comps").get<std::string>()),
lod, basis, order);
to_int(tags.get("comps").get<std::string>()));
}
}
}
@@ -815,11 +780,6 @@ void ParaViewDataCollectionBase::SetHighOrderOutput(bool high_order_output_)
high_order_output = high_order_output_;
}
void ParaViewDataCollectionBase::SetBoundaryOutput(bool bdr_output_)
{
bdr_output = bdr_output_;
}
void ParaViewDataCollectionBase::SetCompressionLevel(int compression_level_)
{
MFEM_ASSERT(compression_level_ >= -1 && compression_level_ <= 9,
@@ -975,19 +935,16 @@ void ParaViewDataCollection::Save()
std::string vtu_prefix = col_path + "/" + GenerateVTUPath() + "/";
// Save the local part of the mesh and grid functions fields to the local
// VTU file. Also save coefficient fields.
// VTU file
{
std::ofstream os(vtu_prefix + GenerateVTUFileName("proc", myid));
os.precision(precision);
SaveDataVTU(os, levels_of_detail);
}
// Save the local part of the quadrature function fields.
// Save the local part of the quadrature function fields
for (const auto &qfield : q_field_map)
{
MFEM_VERIFY(!bdr_output,
"QuadratureFunction output is not supported for "
"ParaViewDataCollection on domain boundary!");
const std::string &field_name = qfield.first;
std::ofstream os(vtu_prefix + GenerateVTUFileName(field_name, myid));
qfield.second->SaveVTU(os, pv_data_format, GetCompressionLevel(), field_name);
@@ -1003,7 +960,7 @@ void ParaViewDataCollection::Save()
std::ofstream pvtu_out(vtu_prefix + GeneratePVTUFileName("data"));
WritePVTUHeader(pvtu_out);
// Grid function fields and coefficient fields
// Grid function fields
pvtu_out << "<PPointData>\n";
for (auto &field_it : field_map)
{
@@ -1014,24 +971,7 @@ void ParaViewDataCollection::Save()
<< VTKComponentLabels(vec_dim) << " "
<< "format=\"" << GetDataFormatString() << "\" />\n";
}
for (auto &field_it : coeff_field_map)
{
int vec_dim = 1;
pvtu_out << "<PDataArray type=\"" << GetDataTypeString()
<< "\" Name=\"" << field_it.first
<< "\" NumberOfComponents=\"" << vec_dim << "\" "
<< "format=\"" << GetDataFormatString() << "\" />\n";
}
for (auto &field_it : vcoeff_field_map)
{
int vec_dim = field_it.second->GetVDim();
pvtu_out << "<PDataArray type=\"" << GetDataTypeString()
<< "\" Name=\"" << field_it.first
<< "\" NumberOfComponents=\"" << vec_dim << "\" "
<< "format=\"" << GetDataFormatString() << "\" />\n";
}
pvtu_out << "</PPointData>\n";
// Element attributes
pvtu_out << "<PCellData>\n";
pvtu_out << "\t<PDataArray type=\"Int32\" Name=\"" << "attribute"
@@ -1129,8 +1069,7 @@ void ParaViewDataCollection::SaveDataVTU(std::ostream &os, int ref)
}
os << " version=\"2.2\" byte_order=\"" << VTKByteOrder() << "\">\n";
os << "<UnstructuredGrid>\n";
mesh->PrintVTU(os,ref,pv_data_format,high_order_output,GetCompressionLevel(),
bdr_output);
mesh->PrintVTU(os,ref,pv_data_format,high_order_output,GetCompressionLevel());
// dump out the grid functions as point data
os << "<PointData >\n";
@@ -1138,21 +1077,8 @@ void ParaViewDataCollection::SaveDataVTU(std::ostream &os, int ref)
// iterate over all grid functions
for (FieldMapIterator it=field_map.begin(); it!=field_map.end(); ++it)
{
MFEM_VERIFY(!bdr_output,
"GridFunction output is not supported for "
"ParaViewDataCollection on domain boundary!");
SaveGFieldVTU(os,ref,it);
}
// save the coefficient functions
// iterate over all Coefficient and VectorCoefficient functions
for (const auto &kv : coeff_field_map)
{
SaveCoeffFieldVTU(os, ref, kv.first, *kv.second);
}
for (const auto &kv : vcoeff_field_map)
{
SaveVCoeffFieldVTU(os, ref, kv.first, *kv.second);
}
os << "</PointData>\n";
// close the mesh
os << "</Piece>\n"; // close the piece open in the PrintVTU method
@@ -1175,6 +1101,7 @@ void ParaViewDataCollection::SaveGFieldVTU(std::ostream &os, int ref_,
<< "format=\"" << GetDataFormatString() << "\" >" << '\n';
if (vec_dim == 1)
{
// scalar data
for (int i = 0; i < mesh->GetNE(); i++)
{
RefG = GlobGeometryRefiner.Refine(
@@ -1204,131 +1131,11 @@ void ParaViewDataCollection::SaveGFieldVTU(std::ostream &os, int ref_,
}
}
}
if (pv_data_format != VTKFormat::ASCII)
if (IsBinaryFormat())
{
WriteBase64WithSizeAndClear(os, buf, GetCompressionLevel());
}
os << "</DataArray>" << std::endl;
}
void ParaViewDataCollection::SaveCoeffFieldVTU(std::ostream &os, int ref_,
const std::string &name, Coefficient &coeff)
{
RefinedGeometry *RefG;
real_t val;
std::vector<char> buf;
int vec_dim = 1;
os << "<DataArray type=\"" << GetDataTypeString()
<< "\" Name=\"" << name
<< "\" NumberOfComponents=\"" << vec_dim << "\""
<< " format=\"" << GetDataFormatString() << "\" >" << '\n';
{
// scalar data
if (!bdr_output)
{
for (int i = 0; i < mesh->GetNE(); i++)
{
RefG = GlobGeometryRefiner.Refine(
mesh->GetElementBaseGeometry(i), ref_, 1);
ElementTransformation *eltrans = mesh->GetElementTransformation(i);
const IntegrationRule *ir = &RefG->RefPts;
for (int j = 0; j < ir->GetNPoints(); j++)
{
const IntegrationPoint &ip = ir->IntPoint(j);
eltrans->SetIntPoint(&ip);
val = coeff.Eval(*eltrans, ip);
WriteBinaryOrASCII(os, buf, val, "\n", pv_data_format);
}
}
}
else
{
for (int i = 0; i < mesh->GetNBE(); i++)
{
RefG = GlobGeometryRefiner.Refine(
mesh->GetBdrElementBaseGeometry(i), ref_, 1);
ElementTransformation *eltrans = mesh->GetBdrElementTransformation(i);
const IntegrationRule *ir = &RefG->RefPts;
for (int j = 0; j < ir->GetNPoints(); j++)
{
const IntegrationPoint &ip = ir->IntPoint(j);
eltrans->SetIntPoint(&ip);
val = coeff.Eval(*eltrans, ip);
WriteBinaryOrASCII(os, buf, val, "\n", pv_data_format);
}
}
}
}
if (pv_data_format != VTKFormat::ASCII)
{
WriteBase64WithSizeAndClear(os, buf, GetCompressionLevel());
}
os << "</DataArray>" << std::endl;
}
void ParaViewDataCollection::SaveVCoeffFieldVTU(std::ostream &os, int ref_,
const std::string &name, VectorCoefficient &coeff)
{
RefinedGeometry *RefG;
Vector val;
std::vector<char> buf;
int vec_dim = coeff.GetVDim();
os << "<DataArray type=\"" << GetDataTypeString()
<< "\" Name=\"" << name
<< "\" NumberOfComponents=\"" << vec_dim << "\""
<< " format=\"" << GetDataFormatString() << "\" >" << '\n';
{
// vector data
if (!bdr_output)
{
for (int i = 0; i < mesh->GetNE(); i++)
{
RefG = GlobGeometryRefiner.Refine(
mesh->GetElementBaseGeometry(i), ref_, 1);
ElementTransformation *eltrans = mesh->GetElementTransformation(i);
const IntegrationRule *ir = &RefG->RefPts;
for (int j = 0; j < ir->GetNPoints(); j++)
{
const IntegrationPoint &ip = ir->IntPoint(j);
eltrans->SetIntPoint(&ip);
coeff.Eval(val, *eltrans, ip);
for (int jj = 0; jj < val.Size(); jj++)
{
WriteBinaryOrASCII(os, buf, val(jj), " ", pv_data_format);
}
if (pv_data_format == VTKFormat::ASCII) { os << '\n'; }
}
}
}
else
{
for (int i = 0; i < mesh->GetNBE(); i++)
{
RefG = GlobGeometryRefiner.Refine(
mesh->GetBdrElementBaseGeometry(i), ref_, 1);
ElementTransformation *eltrans = mesh->GetBdrElementTransformation(i);
const IntegrationRule *ir = &RefG->RefPts;
for (int j = 0; j < ir->GetNPoints(); j++)
{
const IntegrationPoint &ip = ir->IntPoint(j);
eltrans->SetIntPoint(&ip);
coeff.Eval(val, *eltrans, ip);
for (int jj = 0; jj < val.Size(); jj++)
{
WriteBinaryOrASCII(os, buf, val(jj), " ", pv_data_format);
}
if (pv_data_format == VTKFormat::ASCII) { os << '\n'; }
}
}
}
}
if (pv_data_format != VTKFormat::ASCII)
{
WriteBase64WithSizeAndClear(os, buf, GetCompressionLevel());
WriteVTKEncodedCompressed(os,buf.data(),buf.size(),GetCompressionLevel());
os << '\n';
}
os << "</DataArray>" << std::endl;
}
+17 -59
View File
@@ -133,7 +133,6 @@ private:
/// A collection of named QuadratureFunctions
typedef NamedFieldsMap<QuadratureFunction> QFieldMap;
public:
typedef GFieldMap::MapType FieldMapType;
typedef GFieldMap::iterator FieldMapIterator;
@@ -250,9 +249,10 @@ public:
{ field_map.Deregister(field_name, own_data); }
/// Add a QuadratureFunction to the collection.
virtual void RegisterQField(const std::string& field_name,
virtual void RegisterQField(const std::string& q_field_name,
QuadratureFunction *qf)
{ q_field_map.Register(field_name, qf, own_data); }
{ q_field_map.Register(q_field_name, qf, own_data); }
/// Remove a QuadratureFunction from the collection
virtual void DeregisterQField(const std::string& field_name)
@@ -280,13 +280,13 @@ public:
#endif
/// Check if a QuadratureFunction with the given name is in the collection.
bool HasQField(const std::string& field_name) const
{ return q_field_map.Has(field_name); }
bool HasQField(const std::string& q_field_name) const
{ return q_field_map.Has(q_field_name); }
/// Get a pointer to a QuadratureFunction in the collection.
/** Returns NULL if @a field_name is not in the collection. */
QuadratureFunction *GetQField(const std::string& field_name)
{ return q_field_map.Get(field_name); }
QuadratureFunction *GetQField(const std::string& q_field_name)
{ return q_field_map.Get(q_field_name); }
/// Get a const reference to the internal field map.
/** The keys in the map are the field names and the values are pointers to
@@ -302,13 +302,11 @@ public:
/// Get a pointer to the mesh in the collection
Mesh *GetMesh() { return mesh; }
/// Set/change the mesh associated with the collection
/** When passed a Mesh, assumes the serial case: MPI rank id is set to 0 and
MPI num_procs is set to 1. When passed a ParMesh, MPI info from the
ParMesh is used to set the DataCollection's MPI rank and num_procs. */
virtual void SetMesh(Mesh *new_mesh);
#ifdef MFEM_USE_MPI
/// Set/change the mesh associated with the collection.
/** For this case, @a comm is used to set the DataCollection's MPI rank id
@@ -371,7 +369,8 @@ public:
/// Save one field, assuming the collection directory already exists.
virtual void SaveField(const std::string &field_name);
/// Save one q-field, assuming the collection directory already exists.
virtual void SaveQField(const std::string &field_name);
virtual void SaveQField(const std::string &q_field_name);
/// Load the collection. Not implemented in the base class DataCollection.
virtual void Load(int cycle_ = 0);
@@ -408,18 +407,12 @@ public:
class VisItFieldInfo
{
public:
std::string association = "";
int num_components = 0;
int lod = 1;
std::string basis = "";
int order = -1;
VisItFieldInfo() = default;
VisItFieldInfo(std::string association_, int num_components_, int lod_ = 1,
std::string basis_ = "", int order_ = -1)
{
association = association_; num_components = num_components_; lod =lod_;
basis = basis_; order = order_;
}
std::string association;
int num_components;
int lod;
VisItFieldInfo() { association = ""; num_components = 0; lod = 1;}
VisItFieldInfo(std::string association_, int num_components_, int lod_ = 1)
{ association = association_; num_components = num_components_; lod =lod_;}
};
/// Data collection with VisIt I/O routines
@@ -517,9 +510,7 @@ protected:
int compression_level = -1;
bool high_order_output = false;
bool restart_mode = false;
bool bdr_output = false;
VTKFormat pv_data_format = VTKFormat::BINARY;
public:
ParaViewDataCollectionBase(const std::string &name, Mesh *mesh);
@@ -552,10 +543,6 @@ public:
/// Reading high-order data requires ParaView 5.5 or later.
void SetHighOrderOutput(bool high_order_output_);
/// @brief Configures collection to save only fields evaluated on boundaries of
/// the mesh.
void SetBoundaryOutput(bool bdr_output_);
/// If compression is enabled, return the compression level, else return 0.
int GetCompressionLevel() const;
@@ -577,6 +564,8 @@ public:
///
/// If restart is enabled, new writes will preserve timestep metadata for any
/// solutions prior to the currently defined time.
///
/// Initially, restart mode is disabled.
void UseRestartMode(bool restart_mode_);
};
@@ -586,23 +575,11 @@ class ParaViewDataCollection : public ParaViewDataCollectionBase
private:
std::fstream pvd_stream;
/// A collection of named Coefficients and VectorCoefficients
using CoeffFieldMap = NamedFieldsMap<Coefficient>;
using VCoeffFieldMap = NamedFieldsMap<VectorCoefficient>;
/** A FieldMap mapping registered names to Coefficient and VectorCoefficient
pointers. */
CoeffFieldMap coeff_field_map;
VCoeffFieldMap vcoeff_field_map;
protected:
void WritePVTUHeader(std::ostream &out);
void WritePVTUFooter(std::ostream &out, const std::string &vtu_prefix);
void SaveDataVTU(std::ostream &out, int ref);
void SaveGFieldVTU(std::ostream& out, int ref_, const FieldMapIterator& it);
void SaveCoeffFieldVTU(std::ostream& out, int ref_, const std::string &name,
Coefficient &coeff);
void SaveVCoeffFieldVTU(std::ostream& out, int ref_, const std::string &name,
VectorCoefficient& coeff);
const char *GetDataFormatString() const;
const char *GetDataTypeString() const;
@@ -621,25 +598,6 @@ public:
ParaViewDataCollection(const std::string& collection_name,
Mesh *mesh_ = nullptr);
/// Get a const reference to the internal coefficient-field map.
const typename CoeffFieldMap::MapType &GetCoeffFieldMap() const
{ return coeff_field_map.GetMap(); }
const typename VCoeffFieldMap::MapType &GetVCoeffFieldMap() const
{ return vcoeff_field_map.GetMap(); }
/// Add a Coefficient or VectorCoefficient to the collection.
void RegisterCoeffField(const std::string& field_name, Coefficient *coeff)
{ coeff_field_map.Register(field_name, coeff, own_data); }
void RegisterVCoeffField(const std::string& field_name,
VectorCoefficient *vcoeff)
{ vcoeff_field_map.Register(field_name, vcoeff, own_data); }
/// Remove a Coefficient or VectorCoefficient from the collection
void DeregisterCoeffField(const std::string& field_name)
{ coeff_field_map.Deregister(field_name, own_data); }
void DeregisterVCoeffField(const std::string& field_name)
{ vcoeff_field_map.Deregister(field_name, own_data); }
/// Save the collection - the directory name is constructed based on the
/// cycle value
void Save() override;
-403
View File
@@ -1,403 +0,0 @@
// Copyright (c) 2010-2025, Lawrence Livermore National Security, LLC. Produced
// at the Lawrence Livermore National Laboratory. All Rights reserved. See files
// LICENSE and NOTICE for details. LLNL-CODE-806117.
//
// This file is part of the MFEM library. For more information and source code
// availability visit https://mfem.org.
//
// MFEM is free software; you can redistribute it and/or modify it under the
// terms of the BSD-3 license. We welcome feedback and contributions, see file
// CONTRIBUTING.md for details.
#pragma once
#include "util.hpp"
namespace mfem::future
{
/// @brief Assemble element matrix for three dimensional data.
///
/// Note: In the below layouts, total_trial_op_dim is > 1 if
/// there are more than one inputs dependent on the derivative variable.
///
/// @param A Memory for one element matrix with layout
/// [test_ndof, test_vdim, trial_ndof, trial_vdim].
/// @param fhat Memory to hold the residual computation with layout
/// [test_vdim, test_op_dim, nqp].
/// @param qpdc The quadrature point data cache with data layout
/// [test_vdim, test_op_dim, trial_vdim, total_trial_op_dim, nqp].
/// @param itod Input Trial Operator Dimension array. If the trial
/// operator is not dependent, the dimension is 0 to indicate that.
/// @param inputs The input field operator types.
/// @param output The output field operator types.
/// @param input_dtqmaps The input DofToQuad maps.
/// @param output_dtqmap The output DofToQuad maps.
/// @param scratch_shmem Scratch shared memory for computations.
/// @param q1d The number of quadrature points in one dimension.
/// @param td1d The number of trial dofs in one dimension.
template <typename input_fop_ts, size_t num_inputs, typename output_fop_t>
MFEM_HOST_DEVICE void assemble_element_mat_t3d(
const DeviceTensor<4, real_t>& A,
const DeviceTensor<3, real_t>& fhat,
const DeviceTensor<5, const real_t>& qpdc,
const DeviceTensor<1, const real_t>& itod,
const input_fop_ts& inputs,
const output_fop_t& output,
const std::array<DofToQuadMap, num_inputs>& input_dtqmaps,
const DofToQuadMap& output_dtqmap,
std::array<DeviceTensor<1>, 6>& scratch_shmem,
const int& q1d,
const int& td1d)
{
constexpr int dimension = 3;
// [test_vdim, test_op_dim, trial_vdim, total_trial_op_dim, num_qp]
const int test_vdim = qpdc.GetShape()[0];
const int test_op_dim = qpdc.GetShape()[1];
const int trial_vdim = qpdc.GetShape()[2];
// [num_test_dof, ...]
const auto num_test_dof = A.GetShape()[0];
for (int Jx = 0; Jx < td1d; Jx++)
{
for (int Jy = 0; Jy < td1d; Jy++)
{
for (int Jz = 0; Jz < td1d; Jz++)
{
const int J = Jx + td1d * (Jy + td1d * Jz);
for (int j = 0; j < trial_vdim; j++)
{
for (int tv = 0; tv < test_vdim; tv++)
{
for (int tod = 0; tod < test_op_dim; tod++)
{
MFEM_FOREACH_THREAD(qx, x, q1d)
{
MFEM_FOREACH_THREAD(qy, y, q1d)
{
MFEM_FOREACH_THREAD(qz, z, q1d)
{
const int q = qx + q1d * (qy + q1d * qz);
fhat(tv, tod, q) = 0.0;
}
}
}
}
}
// MSVC lambda capture workaround
[[maybe_unused]] const auto& inputs_ref = inputs;
int m_offset = 0;
for_constexpr<num_inputs>([&](auto s)
{
using fop_t = std::decay_t<decltype(get<s>(inputs_ref))>;
const int trial_op_dim = static_cast<int>(itod(static_cast<int>(s)));
if (trial_op_dim == 0)
{
// This is inside a lambda so we have to return
// instead of idiomatic 'continue'.
return;
}
auto& B = input_dtqmaps[s].B;
auto& G = input_dtqmaps[s].G;
if constexpr (is_value_fop<fop_t>::value)
{
MFEM_FOREACH_THREAD(qx, x, q1d)
{
MFEM_FOREACH_THREAD(qy, y, q1d)
{
MFEM_FOREACH_THREAD(qz, z, q1d)
{
const int q = qx + q1d * (qy + q1d * qz);
for (int m = 0; m < trial_op_dim; m++)
{
for (int i = 0; i < test_vdim; i++)
{
for (int k = 0; k < test_op_dim; k++)
{
const real_t f = qpdc(i, k, j, m + m_offset, q);
fhat(i, k, q) += f * B(qx, 0, Jx) * B(qy, 0, Jy) * B(qz, 0, Jz);
}
}
}
}
}
}
}
else if constexpr (is_gradient_fop<fop_t>::value)
{
MFEM_FOREACH_THREAD(qx, x, q1d)
{
MFEM_FOREACH_THREAD(qy, y, q1d)
{
MFEM_FOREACH_THREAD(qz, z, q1d)
{
const int q = qx + q1d * (qy + q1d * qz);
for (int m = 0; m < trial_op_dim; m++)
{
for (int i = 0; i < test_vdim; i++)
{
for (int k = 0; k < test_op_dim; k++)
{
const real_t f = qpdc(i, k, j, m + m_offset, q);
if (m == 0)
{
fhat(i, k, q) += f * G(qx, 0, Jx) * B(qy, 0, Jy) * B(qz, 0, Jz);
}
else if (m == 1)
{
fhat(i, k, q) += f * B(qx, 0, Jx) * G(qy, 0, Jy) * B(qz, 0, Jz);
}
else if (m == 2)
{
fhat(i, k, q) += f * B(qx, 0, Jx) * B(qy, 0, Jy) * G(qz, 0, Jz);
}
}
}
}
}
}
}
}
else
{
#if !(defined(MFEM_USE_CUDA) || defined(MFEM_USE_HIP))
MFEM_ABORT("sum factorized sparse matrix assemble routine "
"not implemented for field operator");
#endif
}
MFEM_SYNC_THREAD;
m_offset += trial_op_dim;
});
auto bvtfhat = Reshape(&A(0, 0, J, j), num_test_dof, test_vdim);
map_quadrature_data_to_fields(bvtfhat, fhat, output, output_dtqmap,
scratch_shmem, dimension, true);
}
}
}
}
}
/// @brief Assemble element matrix for two dimensional data.
///
/// Note: In the below layouts, total_trial_op_dim is > 1 if
/// there are more than one inputs dependent on the derivative variable.
///
/// @param A Memory for one element matrix with layout
/// [test_ndof, test_vdim, trial_ndof, trial_vdim].
/// @param fhat Memory to hold the residual computation with layout
/// [test_vdim, test_op_dim, nqp].
/// @param qpdc The quadrature point data cache with data layout
/// [test_vdim, test_op_dim, trial_vdim, total_trial_op_dim, nqp].
/// @param itod Input Trial Operator Dimension array. If the trial
/// operator is not dependent, the dimension is 0 to indicate that.
/// @param inputs The input field operator types.
/// @param output The output field operator types.
/// @param input_dtqmaps The input DofToQuad maps.
/// @param output_dtqmap The output DofToQuad maps.
/// @param scratch_shmem Scratch shared memory for computations.
/// @param q1d The number of quadrature points in one dimension.
/// @param td1d The number of trial dofs in one dimension.
template <typename input_fop_ts, size_t num_inputs, typename output_fop_t>
MFEM_HOST_DEVICE void assemble_element_mat_t2d(
const DeviceTensor<4, real_t>& A,
const DeviceTensor<3, real_t>& fhat,
const DeviceTensor<5, const real_t>& qpdc,
const DeviceTensor<1, const real_t>& itod,
const input_fop_ts& inputs,
const output_fop_t& output,
const std::array<DofToQuadMap, num_inputs>& input_dtqmaps,
const DofToQuadMap& output_dtqmap,
std::array<DeviceTensor<1>, 6>& scratch_shmem,
const int& q1d,
const int& td1d)
{
constexpr int dimension = 2;
// [test_vdim, test_op_dim, trial_vdim, total_trial_op_dim, num_qp]
const int test_vdim = qpdc.GetShape()[0];
const int test_op_dim = qpdc.GetShape()[1];
const int trial_vdim = qpdc.GetShape()[2];
// [num_test_dof, ...]
const auto num_test_dof = A.GetShape()[0];
for (int Jx = 0; Jx < td1d; Jx++)
{
for (int Jy = 0; Jy < td1d; Jy++)
{
const int J = Jy + Jx * td1d;
for (int j = 0; j < trial_vdim; j++)
{
for (int tv = 0; tv < test_vdim; tv++)
{
for (int tod = 0; tod < test_op_dim; tod++)
{
MFEM_FOREACH_THREAD(qx, x, q1d)
{
MFEM_FOREACH_THREAD(qy, y, q1d)
{
const int q = qy + qx * q1d;
fhat(tv, tod, q) = 0.0;
}
}
}
}
// MSVC lambda capture workaround
[[maybe_unused]] const auto& inputs_ref = inputs;
int m_offset = 0;
for_constexpr<num_inputs>([&](auto s)
{
using fop_t = std::decay_t<decltype(get<s>(inputs_ref))>;
const int trial_op_dim = static_cast<int>(itod(static_cast<int>(s)));
if (trial_op_dim == 0)
{
// This is inside a lambda so we have to return
// instead of idiomatic 'continue'.
return;
}
auto& B = input_dtqmaps[s].B;
auto& G = input_dtqmaps[s].G;
if constexpr (is_value_fop<fop_t>::value)
{
MFEM_FOREACH_THREAD(qx, x, q1d)
{
MFEM_FOREACH_THREAD(qy, y, q1d)
{
const int q = qy + qx * q1d;
for (int m = 0; m < trial_op_dim; m++)
{
for (int i = 0; i < test_vdim; i++)
{
for (int k = 0; k < test_op_dim; k++)
{
const real_t f = qpdc(i, k, j, m + m_offset, q);
fhat(i, k, q) += f * B(qx, 0, Jx) * B(qy, 0, Jy);
}
}
}
}
}
}
else if constexpr (is_gradient_fop<fop_t>::value)
{
MFEM_FOREACH_THREAD(qx, x, q1d)
{
MFEM_FOREACH_THREAD(qy, y, q1d)
{
const int q = qy + qx * q1d;
for (int m = 0; m < trial_op_dim; m++)
{
for (int i = 0; i < test_vdim; i++)
{
for (int k = 0; k < test_op_dim; k++)
{
const real_t f = qpdc(i, k, j, m + m_offset, q);
if (m == 0)
{
fhat(i, k, q) += f * B(qx, 0, Jx) * G(qy, 0, Jy);
}
else
{
fhat(i, k, q) += f * G(qx, 0, Jx) * B(qy, 0, Jy);
}
}
}
}
}
}
}
else
{
#if !(defined(MFEM_USE_CUDA) || defined(MFEM_USE_HIP))
MFEM_ABORT("sum factorized sparse matrix assemble routine "
"not implemented for field operator");
#endif
}
MFEM_SYNC_THREAD;
m_offset += trial_op_dim;
});
auto bvtfhat = Reshape(&A(0, 0, J, j), num_test_dof, test_vdim);
map_quadrature_data_to_fields(bvtfhat, fhat, output, output_dtqmap,
scratch_shmem, dimension, true);
}
}
}
}
/// @brief Assemble element matrix for two or three dimensional data.
///
/// Note: In the below layouts, total_trial_op_dim is > 1 if
/// there are more than one inputs dependent on the derivative variable.
///
/// @param A Memory for one element matrix with layout
/// [test_ndof, test_vdim, trial_ndof, trial_vdim].
/// @param fhat Memory to hold the residual computation with layout
/// [test_vdim, test_op_dim, nqp].
/// @param qpdc The quadrature point data cache with data layout
/// [test_vdim, test_op_dim, trial_vdim, total_trial_op_dim, nqp].
/// @param itod Input Trial Operator Dimension array. If the trial
/// operator is not dependent, the dimension is 0 to indicate that.
/// @param inputs The input field operator types.
/// @param output The output field operator types.
/// @param input_dtqmaps The input DofToQuad maps.
/// @param output_dtqmap The output DofToQuad maps.
/// @param scratch_shmem Scratch shared memory for computations.
/// @param dimension The spatial dimension.
/// @param q1d The number of quadrature points in one dimension.
/// @param td1d The number of trial dofs in one dimension.
/// @param use_sum_factorization Indicator if sum factorization is used.
template <typename input_fop_ts, size_t num_inputs, typename output_fop_t>
MFEM_HOST_DEVICE void assemble_element_mat_naive(
const DeviceTensor<4, real_t>& A,
const DeviceTensor<3, real_t>& fhat,
const DeviceTensor<5, const real_t>& qpdc,
const DeviceTensor<1, const real_t>& itod,
const input_fop_ts& inputs,
const output_fop_t& output,
const std::array<DofToQuadMap, num_inputs>& input_dtqmaps,
const DofToQuadMap& output_dtqmap,
std::array<DeviceTensor<1>, 6>& scratch_shmem,
const int& dimension,
const int& q1d,
const int& td1d,
const bool& use_sum_factorization)
{
if (use_sum_factorization)
{
if (dimension == 2)
{
assemble_element_mat_t2d(A, fhat, qpdc, itod, inputs, output,
input_dtqmaps, output_dtqmap, scratch_shmem, q1d, td1d);
}
else if (dimension == 3)
{
assemble_element_mat_t3d(A, fhat, qpdc, itod, inputs, output,
input_dtqmaps, output_dtqmap, scratch_shmem, q1d, td1d);
}
}
else
{
#if !(defined(MFEM_USE_CUDA) || defined(MFEM_USE_HIP))
MFEM_ABORT("element matrix assemble not implemented for non tensor "
"product basis");
#endif
}
}
} // namespace mfem::future
+74 -823
View File
File diff suppressed because it is too large Load Diff
+7 -154
View File
@@ -90,88 +90,8 @@ void map_quadrature_data_to_fields_impl(
}
else
{
MFEM_ABORT_KERNEL("quadrature data mapping to field is not implemented"
" for this field descriptor");
}
}
template <typename output_t>
MFEM_HOST_DEVICE
void map_quadrature_data_to_fields_tensor_impl_1d(
DeviceTensor<2, real_t> &y,
const DeviceTensor<3, real_t> &f,
const output_t &output,
const DofToQuadMap &dtq,
std::array<DeviceTensor<1>, 6> &scratch_mem)
{
[[maybe_unused]] auto B = dtq.B;
[[maybe_unused]] auto G = dtq.G;
if constexpr (is_value_fop<std::decay_t<output_t>>::value)
{
const auto [q1d, unused, d1d] = B.GetShape();
const int vdim = output.vdim;
const int test_dim = output.size_on_qp / vdim;
auto fqp = Reshape(&f(0, 0, 0), vdim, test_dim, q1d);
auto yd = Reshape(&y(0, 0), d1d, vdim);
for (int vd = 0; vd < vdim; vd++)
{
MFEM_FOREACH_THREAD(dx, x, d1d)
{
real_t acc = 0.0;
for (int qx = 0; qx < q1d; qx++)
{
acc += fqp(vd, 0, qx) * B(qx, 0, dx);
}
yd(dx, vd) = acc;
}
}
MFEM_SYNC_THREAD;
}
else if constexpr (is_gradient_fop<std::decay_t<output_t>>::value)
{
const auto [q1d, unused, d1d] = G.GetShape();
const int vdim = output.vdim;
const int test_dim = output.size_on_qp / vdim;
auto fqp = Reshape(&f(0, 0, 0), vdim, test_dim, q1d);
auto yd = Reshape(&y(0, 0), d1d, vdim);
for (int vd = 0; vd < vdim; vd++)
{
MFEM_FOREACH_THREAD(dx, x, d1d)
{
real_t acc = 0.0;
for (int qx = 0; qx < q1d; qx++)
{
acc += fqp(vd, 0, qx) * G(qx, 0, dx);
}
yd(dx, vd) = acc;
}
}
MFEM_SYNC_THREAD;
}
else if constexpr (is_identity_fop<std::decay_t<output_t>>::value)
{
const auto [q1d, unused, d1d] = B.GetShape();
auto fqp = Reshape(&f(0, 0, 0), output.size_on_qp, q1d);
auto yqp = Reshape(&y(0, 0), output.size_on_qp, q1d);
for (int sq = 0; sq < output.size_on_qp; sq++)
{
MFEM_FOREACH_THREAD(qx, x, q1d)
{
yqp(sq, qx) = fqp(sq, qx);
}
MFEM_SYNC_THREAD;
}
}
else
{
MFEM_ABORT_KERNEL("quadrature data mapping to field is not implemented"
"for this field descriptor with sum factorization on"
" tensor product elements");
MFEM_ABORT("quadrature data mapping to field is not implemented for"
" this field descriptor");
}
}
@@ -307,9 +227,8 @@ void map_quadrature_data_to_fields_tensor_impl_2d(
}
else
{
MFEM_ABORT_KERNEL("quadrature data mapping to field is not implemented"
" for this field descriptor with sum factorization on"
" tensor product elements");
MFEM_ABORT("quadrature data mapping to field is not implemented for"
" this field descriptor with sum factorization on tensor product elements");
}
}
@@ -494,9 +413,8 @@ void map_quadrature_data_to_fields_tensor_impl_3d(
}
else
{
MFEM_ABORT_KERNEL("quadrature data mapping to field is not implemented"
" for this field descriptor with sum factorization on"
" tensor product elements");
MFEM_ABORT("quadrature data mapping to field is not implemented for"
" this field descriptor with sum factorization on tensor product elements");
}
}
@@ -513,11 +431,7 @@ void map_quadrature_data_to_fields(
{
if (use_sum_factorization)
{
if (dimension == 1)
{
map_quadrature_data_to_fields_tensor_impl_1d(y, f, output, dtq, scratch_mem);
}
else if (dimension == 2)
if (dimension == 2)
{
map_quadrature_data_to_fields_tensor_impl_2d(y, f, output, dtq, scratch_mem);
}
@@ -533,65 +447,4 @@ void map_quadrature_data_to_fields(
}
}
template <size_t N, typename field_operator_ts>
MFEM_HOST_DEVICE
void map_quadrature_data_to_fields_conditional(
DeviceTensor<2, real_t> &y,
const DeviceTensor<3, real_t> &f,
const field_operator_ts &fops,
const DeviceTensor<1, const real_t> &op_dims,
const std::array<DofToQuadMap, N> &dtqmaps,
std::array<DeviceTensor<1>, 6> &scratch_mem,
const DeviceTensor<3> &fi_shmem,
const std::array<bool, N> &conditions,
const int &dimension,
const bool &use_sum_factorization)
{
int offset = 0;
for_constexpr<N>([&](auto i)
{
if (conditions[i])
{
[[maybe_unused]] const auto [K, unused, M] = f.GetShape();
const int L = static_cast<int>(op_dims(static_cast<size_t>(i)));
auto fi = Reshape(&fi_shmem(0, 0, 0), K, L, M);
for (int k = 0; k < K; k++)
{
for (int l = 0; l < L; l++)
{
for (int m = 0; m < M; m++)
{
fi(k, l, m) = f(k, l + offset, m);
}
}
}
if (use_sum_factorization)
{
if (dimension == 1)
{
map_quadrature_data_to_fields_tensor_impl_1d(
y, fi, get<i>(fops), dtqmaps[i], scratch_mem);
}
else if (dimension == 2)
{
map_quadrature_data_to_fields_tensor_impl_2d(
y, fi, get<i>(fops), dtqmaps[i], scratch_mem);
}
else if (dimension == 3)
{
map_quadrature_data_to_fields_tensor_impl_3d(
y, fi, get<i>(fops), dtqmaps[i], scratch_mem);
}
else { MFEM_ABORT_KERNEL("dimension not supported"); }
}
else
{
map_quadrature_data_to_fields_impl(y, fi, get<i>(fops), dtqmaps[i]);
}
offset += L;
}
});
}
} // namespace mfem::future
+24 -124
View File
@@ -338,92 +338,6 @@ void map_field_to_quadrature_data_tensor_product_2d(
}
}
template <typename field_operator_t>
MFEM_HOST_DEVICE inline
void map_field_to_quadrature_data_tensor_product_1d(
DeviceTensor<2> &field_qp,
const DofToQuadMap &dtq,
const DeviceTensor<1> &field_e,
const field_operator_t &input,
const DeviceTensor<1, const real_t> &integration_weights,
const std::array<DeviceTensor<1>, 6> &scratch_mem)
{
[[maybe_unused]] auto B = dtq.B;
[[maybe_unused]] auto G = dtq.G;
if constexpr (is_value_fop<std::decay_t<field_operator_t>>::value)
{
auto [q1d, unused, d1d] = B.GetShape();
const int vdim = input.vdim;
const auto field = Reshape(&field_e[0], d1d, vdim);
auto fqp = Reshape(&field_qp[0], vdim, q1d);
for (int vd = 0; vd < vdim; vd++)
{
MFEM_FOREACH_THREAD(qx, x, q1d)
{
real_t acc = 0.0;
for (int dx = 0; dx < d1d; dx++)
{
acc += B(qx, 0, dx) * field(dx, vd);
}
fqp(vd, qx) = acc;
}
}
MFEM_SYNC_THREAD;
}
else if constexpr (
is_gradient_fop<std::decay_t<field_operator_t>>::value)
{
const auto [q1d, unused, d1d] = B.GetShape();
const int vdim = input.vdim;
const int dim = input.dim;
const auto field = Reshape(&field_e[0], d1d, vdim);
auto fqp = Reshape(&field_qp[0], vdim, dim, q1d);
for (int vd = 0; vd < vdim; vd++)
{
MFEM_FOREACH_THREAD(qx, x, q1d)
{
real_t acc = 0.0;
for (int dx = 0; dx < d1d; dx++)
{
acc += G(qx, 0, dx) * field(dx, vd);
}
fqp(vd, 0, qx) = acc;
}
MFEM_SYNC_THREAD;
}
}
// TODO: Create separate function for clarity
else if constexpr (
std::is_same_v<std::decay_t<field_operator_t>, Weight>)
{
const int num_qp = integration_weights.GetShape()[0];
// TODO: eeek
const int q1d = (int)floor(std::pow(num_qp, 1.0/input.dim) + 0.5);
auto w = Reshape(&integration_weights[0], q1d);
auto f = Reshape(&field_qp[0], q1d);
MFEM_FOREACH_THREAD(qx, x, q1d)
{
f(qx) = w(qx);
}
MFEM_SYNC_THREAD;
}
else if constexpr (is_identity_fop<std::decay_t<field_operator_t>>::value)
{
const int q1d = B.GetShape()[0];
auto field = Reshape(&field_e[0], input.size_on_qp, q1d);
field_qp = field;
}
else
{
static_assert(dfem::always_false<std::decay_t<field_operator_t>>,
"can't map field to quadrature data");
}
}
template <typename field_operator_t>
MFEM_HOST_DEVICE
void map_field_to_quadrature_data(
@@ -505,13 +419,13 @@ void map_field_to_quadrature_data(
}
}
template <typename field_operator_ts, size_t N, size_t M>
template <typename field_operator_ts, size_t num_inputs, size_t num_fields>
MFEM_HOST_DEVICE inline
void map_fields_to_quadrature_data(
std::array<DeviceTensor<2>, N> &fields_qp,
const std::array<DeviceTensor<1>, M> &fields_e,
const std::array<DofToQuadMap, N> &dtqmaps,
const std::array<size_t, N> &input_to_field,
std::array<DeviceTensor<2>, num_inputs> &fields_qp,
const std::array<DeviceTensor<1>, num_fields> &fields_e,
const std::array<DofToQuadMap, num_inputs> &dtqmaps,
const std::array<int, num_inputs> &input_to_field,
const field_operator_ts &fops,
const DeviceTensor<1, const real_t> &integration_weights,
const std::array<DeviceTensor<1>, 6> &scratch_mem,
@@ -523,21 +437,14 @@ void map_fields_to_quadrature_data(
// attached to them and we create a dummy field which is not accessed
// inside the functions it is passed to.
const auto dummy_field_weight = DeviceTensor<1>(nullptr, 0);
for_constexpr<N>([&](auto i)
for_constexpr<num_inputs>([&](auto i)
{
const DeviceTensor<1> &field_e =
(input_to_field[i] == SIZE_MAX) ? dummy_field_weight :
fields_e[input_to_field[i]];
(input_to_field[i] == -1) ? dummy_field_weight : fields_e[input_to_field[i]];
if (use_sum_factorization)
{
if (dimension == 1)
{
map_field_to_quadrature_data_tensor_product_1d(
fields_qp[i], dtqmaps[i], field_e, get<i>(fops),
integration_weights, scratch_mem);
}
else if (dimension == 2)
if (dimension == 2)
{
map_field_to_quadrature_data_tensor_product_2d(
fields_qp[i], dtqmaps[i], field_e, get<i>(fops),
@@ -549,7 +456,12 @@ void map_fields_to_quadrature_data(
fields_qp[i], dtqmaps[i], field_e, get<i>(fops),
integration_weights, scratch_mem);
}
else { MFEM_ABORT_KERNEL("unsupported dimension"); }
else
{
#if !(defined(MFEM_USE_CUDA) || defined(MFEM_USE_HIP))
MFEM_ABORT("unsupported dimension");
#endif
}
}
else
{
@@ -577,20 +489,14 @@ void map_field_to_quadrature_data_conditional(
{
if (use_sum_factorization)
{
if (dimension == 1)
if (dimension == 2)
{
map_field_to_quadrature_data_tensor_product_1d(
field_qp, dtqmap, field_e, fop, integration_weights, scratch_mem);
}
else if (dimension == 2)
{
map_field_to_quadrature_data_tensor_product_2d(
map_field_to_quadrature_data_tensor_product_3d(
field_qp, dtqmap, field_e, fop, integration_weights, scratch_mem);
}
else if (dimension == 3)
{
map_field_to_quadrature_data_tensor_product_3d(
map_field_to_quadrature_data_tensor_product_2d(
field_qp, dtqmap, field_e, fop, integration_weights, scratch_mem);
}
}
@@ -622,32 +528,26 @@ void map_fields_to_quadrature_data_conditional(
});
}
template <size_t N, typename field_operator_ts>
template <size_t num_inputs, typename field_operator_ts>
MFEM_HOST_DEVICE
void map_direction_to_quadrature_data_conditional(
std::array<DeviceTensor<2>, N> &directions_qp,
std::array<DeviceTensor<2>, num_inputs> &directions_qp,
const DeviceTensor<1> &direction_e,
const std::array<DofToQuadMap, N> &dtqmaps,
const std::array<DofToQuadMap, num_inputs> &dtqmaps,
field_operator_ts fops,
const DeviceTensor<1, const real_t> &integration_weights,
const std::array<DeviceTensor<1>, 6> &scratch_mem,
const std::array<bool, N> &conditions,
const std::array<bool, num_inputs> &conditions,
const int &dimension,
const bool &use_sum_factorization)
const bool &use_sum_factorization = false)
{
for_constexpr<N>([&](auto i)
for_constexpr<num_inputs>([&](auto i)
{
if (conditions[i])
{
if (use_sum_factorization)
{
if (dimension == 1)
{
map_field_to_quadrature_data_tensor_product_1d(
directions_qp[i], dtqmaps[i], direction_e, get<i>(fops),
integration_weights, scratch_mem);
}
else if (dimension == 2)
if (dimension == 2)
{
map_field_to_quadrature_data_tensor_product_2d(
directions_qp[i], dtqmaps[i], direction_e, get<i>(fops),
+16 -387
View File
@@ -44,20 +44,11 @@ void call_qfunction(
{
if (use_sum_factorization)
{
if (dimension == 1)
if (dimension == 2)
{
MFEM_FOREACH_THREAD_DIRECT(q, x, q1d)
MFEM_FOREACH_THREAD(qx, x, q1d)
{
auto qf_args = decay_tuple<qf_param_ts> {};
auto r = Reshape(&residual_shmem(0, q), rs_qp);
apply_kernel(r, qfunc, qf_args, input_shmem, q);
}
}
else if (dimension == 2)
{
MFEM_FOREACH_THREAD_DIRECT(qx, x, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qy, y, q1d)
MFEM_FOREACH_THREAD(qy, y, q1d)
{
const int q = qx + q1d * qy;
auto qf_args = decay_tuple<qf_param_ts> {};
@@ -68,11 +59,11 @@ void call_qfunction(
}
else if (dimension == 3)
{
MFEM_FOREACH_THREAD_DIRECT(qx, x, q1d)
MFEM_FOREACH_THREAD(qx, x, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qy, y, q1d)
MFEM_FOREACH_THREAD(qy, y, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qz, z, q1d)
MFEM_FOREACH_THREAD(qz, z, q1d)
{
const int q = qx + q1d * (qy + q1d * qz);
auto qf_args = decay_tuple<qf_param_ts> {};
@@ -92,7 +83,7 @@ void call_qfunction(
}
else
{
MFEM_FOREACH_THREAD_DIRECT(q, x, num_qp)
MFEM_FOREACH_THREAD(q, x, num_qp)
{
auto qf_args = decay_tuple<qf_param_ts> {};
auto r = Reshape(&residual_shmem(0, q), rs_qp);
@@ -132,26 +123,11 @@ void call_qfunction_derivative_action(
{
if (use_sum_factorization)
{
if (dimension == 1)
if (dimension == 2)
{
MFEM_FOREACH_THREAD_DIRECT(q, x, q1d)
MFEM_FOREACH_THREAD(qx, x, q1d)
{
auto r = Reshape(&residual_shmem(0, q), das_qp);
auto qf_args = decay_tuple<qf_param_ts> {};
#ifdef MFEM_USE_ENZYME
auto qf_shadow_args = decay_tuple<qf_param_ts> {};
apply_kernel_fwddiff_enzyme(r, qfunc, qf_args, qf_shadow_args, input_shmem,
shadow_shmem, q);
#else
apply_kernel_native_dual(r, qfunc, qf_args, input_shmem, shadow_shmem, q);
#endif
}
}
else if (dimension == 2)
{
MFEM_FOREACH_THREAD_DIRECT(qx, x, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qy, y, q1d)
MFEM_FOREACH_THREAD(qy, y, q1d)
{
const int q = qx + q1d * qy;
auto r = Reshape(&residual_shmem(0, q), das_qp);
@@ -168,11 +144,11 @@ void call_qfunction_derivative_action(
}
else if (dimension == 3)
{
MFEM_FOREACH_THREAD_DIRECT(qx, x, q1d)
MFEM_FOREACH_THREAD(qx, x, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qy, y, q1d)
MFEM_FOREACH_THREAD(qy, y, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qz, z, q1d)
MFEM_FOREACH_THREAD(qz, z, q1d)
{
const int q = qx + q1d * (qy + q1d * qz);
auto r = Reshape(&residual_shmem(0, q), das_qp);
@@ -188,14 +164,11 @@ void call_qfunction_derivative_action(
}
}
}
else
{
MFEM_ABORT_KERNEL("unsupported dimension");
}
MFEM_SYNC_THREAD;
}
else
{
MFEM_FOREACH_THREAD_DIRECT(q, x, num_qp)
MFEM_FOREACH_THREAD(q, x, num_qp)
{
auto r = Reshape(&residual_shmem(0, q), das_qp);
auto qf_args = decay_tuple<qf_param_ts> {};
@@ -207,351 +180,7 @@ void call_qfunction_derivative_action(
apply_kernel_native_dual(r, qfunc, qf_args, input_shmem, shadow_shmem, q);
#endif
}
}
MFEM_SYNC_THREAD;
}
namespace detail
{
template <
typename qf_param_ts,
typename qfunc_t,
std::size_t num_fields>
MFEM_HOST_DEVICE inline
void call_qfunction_derivative(
qfunc_t &qfunc,
const std::array<DeviceTensor<2>, num_fields> &input_shmem,
const std::array<DeviceTensor<2>, num_fields> &shadow_shmem,
DeviceTensor<2> &residual_shmem,
DeviceTensor<5> &qpdc,
const DeviceTensor<1, const real_t> &itod,
const int &das_qp,
const int &q)
{
const int test_vdim = qpdc.GetShape()[0];
const int test_op_dim = qpdc.GetShape()[1];
const int trial_vdim = qpdc.GetShape()[2];
const int num_qp = qpdc.GetShape()[4];
const size_t num_inputs = itod.GetShape()[0];
for (int j = 0; j < trial_vdim; j++)
{
int m_offset = 0;
for (size_t s = 0; s < num_inputs; s++)
{
const int trial_op_dim = static_cast<int>(itod(s));
if (trial_op_dim == 0)
{
continue;
}
auto d_qp = Reshape(&(shadow_shmem[s])[0], trial_vdim, trial_op_dim, num_qp);
for (int m = 0; m < trial_op_dim; m++)
{
d_qp(j, m, q) = 1.0;
auto r = Reshape(&residual_shmem(0, q), das_qp);
auto qf_args = decay_tuple<qf_param_ts> {};
#ifdef MFEM_USE_ENZYME
auto qf_shadow_args = decay_tuple<qf_param_ts> {};
apply_kernel_fwddiff_enzyme(r, qfunc, qf_args, qf_shadow_args, input_shmem,
shadow_shmem, q);
#else
apply_kernel_native_dual(r, qfunc, qf_args, input_shmem, shadow_shmem, q);
#endif
d_qp(j, m, q) = 0.0;
auto f = Reshape(&r(0), test_vdim, test_op_dim);
for (int i = 0; i < test_vdim; i++)
{
for (int k = 0; k < test_op_dim; k++)
{
qpdc(i, k, j, m + m_offset, q) = f(i, k);
}
}
}
m_offset += trial_op_dim;
}
}
}
}
/// @brief Call a qfunction with the given parameters and
/// compute it's derivative represented by the Jacobian on
/// each quadrature point.
///
/// @param qfunc the qfunction to call.
/// @param input_shmem the input shared memory.
/// @param shadow_shmem the shadow shared memory.
/// @param residual_shmem the residual shared memory.
/// @param qpdc the quadrature point data cache holding the resulting
/// Jacobians on each quadrature point.
/// @param itod inputs trial operator dimension.
/// If input is dependent the value corresponds to the spatial dimension, otherwise
/// a zero indicates non-dependence on the variable.
/// @param das_qp the size of the derivative action.
/// @param q1d the number of quadrature points in 1D.
/// @param dimension the spatial dimension.
/// @param use_sum_factorization whether to use sum factorization.
/// @tparam qf_param_ts the tuple type of the qfunction parameters.
template <
typename qf_param_ts,
typename qfunc_t,
std::size_t num_fields>
MFEM_HOST_DEVICE inline
void call_qfunction_derivative(
qfunc_t &qfunc,
const std::array<DeviceTensor<2>, num_fields> &input_shmem,
const std::array<DeviceTensor<2>, num_fields> &shadow_shmem,
DeviceTensor<2> &residual_shmem,
DeviceTensor<5> &qpdc,
const DeviceTensor<1, const real_t> &itod,
const int &das_qp,
const int &q1d,
const int &dimension,
const bool &use_sum_factorization)
{
if (use_sum_factorization)
{
if (dimension == 1)
{
MFEM_FOREACH_THREAD_DIRECT(q, x, q1d)
{
detail::call_qfunction_derivative<qf_param_ts>(
qfunc, input_shmem, shadow_shmem, residual_shmem, qpdc, itod, das_qp, q);
}
}
else if (dimension == 2)
{
MFEM_FOREACH_THREAD_DIRECT(qx, x, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qy, y, q1d)
{
const int q = qx + q1d * qy;
detail::call_qfunction_derivative<qf_param_ts>(
qfunc, input_shmem, shadow_shmem, residual_shmem, qpdc, itod, das_qp, q);
}
}
}
else if (dimension == 3)
{
MFEM_FOREACH_THREAD_DIRECT(qx, x, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qy, y, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qz, z, q1d)
{
const int q = qx + q1d * (qy + q1d * qz);
detail::call_qfunction_derivative<qf_param_ts>(
qfunc, input_shmem, shadow_shmem, residual_shmem, qpdc, itod, das_qp, q);
}
}
}
}
else
{
MFEM_ABORT_KERNEL("unsupported dimension");
}
}
else
{
const int num_qp = qpdc.GetShape()[4];
MFEM_FOREACH_THREAD_DIRECT(q, x, num_qp)
{
detail::call_qfunction_derivative<qf_param_ts>(
qfunc, input_shmem, shadow_shmem, residual_shmem, qpdc, itod, das_qp, q);
}
}
MFEM_SYNC_THREAD;
}
namespace detail
{
/// @brief Apply the quadrature point data cache (qpdc) to a vector
/// (usually a direction) on quadrature point q.
///
/// The qpdc consists of compatible data to be used for integration with a test
/// operator, e.g. Jacobians of a linearization from a FE operation with a trial
/// function including integration weights and necessesary transformations.
///
/// @param fhat the qpdc applied to a vector in shadow_memory.
/// @param shadow_shmem the shadow shared memory.
/// @param qpdc the quadrature point data cache holding the resulting
/// Jacobians on each quadrature point.
/// @param op_dims operator dimensions.
/// If an operator is dependent, the value corresponds to the spatial dimension.
/// Otherwise a zero indicates indepence on the variable.
/// @param q the current quadrature point index.
/// @param transpose switch to use transpose action.
template <size_t N>
MFEM_HOST_DEVICE inline
void apply_qpdc(
DeviceTensor<3> &fhat,
const std::array<DeviceTensor<2>, N> &shadow_shmem,
const DeviceTensor<5, const real_t> &qpdc,
const DeviceTensor<1, const real_t> &op_dims,
const int &q,
bool transpose)
{
const size_t num_ops = op_dims.GetShape()[0];
const int test_vdim = qpdc.GetShape()[0];
const int test_op_dim = qpdc.GetShape()[1];
const int trial_vdim = qpdc.GetShape()[2];
const int total_trial_op_dim = qpdc.GetShape()[3];
const int num_qp = qpdc.GetShape()[4];
if (transpose)
{
for (int j = 0; j < trial_vdim; j++)
{
for (int m = 0; m < total_trial_op_dim; m++)
{
fhat(j, m, q) = 0.0;
}
}
// Since we don't support more than output space right now
// shadow_shmem will always be of size 1.
constexpr int shadow_idx_tr = 0;
auto d_qp = Reshape(&(shadow_shmem[shadow_idx_tr])[0], test_vdim, test_op_dim,
num_qp);
int m_offset = 0;
for (size_t s = 0; s < num_ops; s++)
{
const int trial_op_dim = static_cast<int>(op_dims(s));
if (trial_op_dim == 0) { continue; }
for (int j = 0; j < trial_vdim; j++)
{
for (int m = 0; m < trial_op_dim; m++)
{
real_t sum = 0.0;
for (int i = 0; i < test_vdim; i++)
{
for (int k = 0; k < test_op_dim; k++)
{
const real_t contrib = qpdc(i, k, j, m + m_offset, q) * d_qp(i, k, q);
sum += contrib;
}
}
fhat(j, m + m_offset, q) += sum;
}
}
m_offset += trial_op_dim;
}
}
else
{
for (int i = 0; i < test_vdim; i++)
{
for (int k = 0; k < test_op_dim; k++)
{
real_t sum = 0.0;
int m_offset = 0;
for (size_t s = 0; s < num_ops; s++)
{
const int trial_op_dim = static_cast<int>(op_dims(s));
if (trial_op_dim == 0) { continue; }
const auto d_qp =
Reshape(&(shadow_shmem[s])[0], trial_vdim, trial_op_dim, num_qp);
for (int j = 0; j < trial_vdim; j++)
{
for (int m = 0; m < trial_op_dim; m++)
{
sum += qpdc(i, k, j, m + m_offset, q) * d_qp(j, m, q);
}
}
m_offset += trial_op_dim;
}
fhat(i, k, q) = sum;
}
}
}
}
} // namespace detail
/// @brief Apply the quadrature point data cache (qpdc) to a vector
/// (usually a direction).
///
/// The qpdc consists of compatible data to be used for integration with a test
/// operator, e.g. Jacobians of a linearization from a FE operation with a trial
/// function including integration weights and necessesary transformations.
///
/// @param fhat the qpdc applied to a vector in shadow_memory.
/// @param shadow_shmem the shadow shared memory.
/// @param qpdc the quadrature point data cache holding the resulting
/// Jacobians on each quadrature point.
/// @param itod inputs trial operator dimension.
/// If input is dependent the value corresponds to the spatial dimension, otherwise
/// a zero indicates non-dependence on the variable.
/// @param q1d number of quadrature points in 1D.
/// @param dimension spatial dimension.
/// @param use_sum_factorization whether to use sum factorization.
/// @param T switch to use transpose application.
template <size_t N>
MFEM_HOST_DEVICE inline
void apply_qpdc(
DeviceTensor<3> &fhat,
const std::array<DeviceTensor<2>, N> &shadow_shmem,
const DeviceTensor<5, const real_t> &qpdc,
const DeviceTensor<1, const real_t> &itod,
const int &q1d,
const int &dimension,
const bool &use_sum_factorization,
const bool T = false)
{
if (use_sum_factorization)
{
if (dimension == 1)
{
MFEM_FOREACH_THREAD_DIRECT(q, x, q1d)
{
detail::apply_qpdc(fhat, shadow_shmem, qpdc, itod, q, T);
}
}
else if (dimension == 2)
{
MFEM_FOREACH_THREAD_DIRECT(qx, x, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qy, y, q1d)
{
const int q = qx + q1d * qy;
detail::apply_qpdc(fhat, shadow_shmem, qpdc, itod, q, T);
}
}
}
else if (dimension == 3)
{
MFEM_FOREACH_THREAD_DIRECT(qx, x, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qy, y, q1d)
{
MFEM_FOREACH_THREAD_DIRECT(qz, z, q1d)
{
const int q = qx + q1d * (qy + q1d * qz);
detail::apply_qpdc(fhat, shadow_shmem, qpdc, itod, q, T);
}
}
}
}
else
{
MFEM_ABORT_KERNEL("unsupported dimension");
}
}
else
{
const int num_qp = qpdc.GetShape()[4];
MFEM_FOREACH_THREAD_DIRECT(q, x, num_qp)
{
detail::apply_qpdc(fhat, shadow_shmem, qpdc, itod, q, T);
}
MFEM_SYNC_THREAD;
}
}
+20 -41
View File
@@ -44,7 +44,7 @@ void process_qf_arg(
{
for (int j = 0; j < n; j++)
{
arg(j, i).value = u((i * n) + j);
arg(j, i).value = u((i * m) + j);
}
}
}
@@ -94,8 +94,8 @@ void process_qf_arg(
{
for (int j = 0; j < n; j++)
{
arg(j, i).value = u((i * n) + j);
arg(j, i).gradient = v((i * n) + j);
arg(j, i).value = u((i * m) + j);
arg(j, i).gradient = v((i * m) + j);
}
}
}
@@ -181,14 +181,6 @@ void process_derivative_from_native_dual(
}
}
template <typename T>
MFEM_HOST_DEVICE inline
void process_derivative_from_native_dual(
DeviceTensor<1, T> &r,
const dual<T, T> &x)
{
r(0) = x.gradient;
}
template <typename T0, typename T1>
MFEM_HOST_DEVICE inline
@@ -238,36 +230,7 @@ void process_qf_arg(
{
for (int j = 0; j < n; j++)
{
arg(j, i) = u((i * n) + j);
}
}
}
template <typename T, int n>
MFEM_HOST_DEVICE inline
void process_qf_arg(
const DeviceTensor<1, T> &u,
const DeviceTensor<1, T> &v,
tensor<T, n> &arg)
{
for (int i = 0; i < n; i++)
{
arg(i) = u(i);
}
}
template <typename T, int n, int m>
MFEM_HOST_DEVICE inline
void process_qf_arg(
const DeviceTensor<1, T> &u,
const DeviceTensor<1, T> &v,
tensor<T, n, m> &arg)
{
for (int i = 0; i < m; i++)
{
for (int j = 0; j < n; j++)
{
arg(j, i) = u((i * n) + j);
arg(j, i) = u((i * m) + j);
}
}
}
@@ -356,4 +319,20 @@ void process_qf_result(
}
}
template <typename T, int n, int m>
MFEM_HOST_DEVICE inline
void process_qf_arg(
const DeviceTensor<1, T> &u,
const DeviceTensor<1, T> &v,
tensor<T, n, m> &arg)
{
for (int i = 0; i < m; i++)
{
for (int j = 0; j < n; j++)
{
arg(j, i) = u((i * m) + j);
}
}
}
} // namespace mfem::future
+4 -4
View File
@@ -10,7 +10,7 @@
// CONTRIBUTING.md for details.
#pragma once
// This is smith's tuple implementation
// This is serac's tuple implementation
#include <ostream>
#include "../../config/config.hpp"
@@ -454,7 +454,7 @@ MFEM_HOST_DEVICE constexpr auto operator+=(tuple<T...>& x,
*
* @tparam T the types stored in the tuples x and y
* @tparam i integer sequence used to index the tuples
* @param x tuple of values to be subtracted from
* @param x tuple of values to be subracted from
* @param y tuple of values to subtract from x
*/
template <typename... T, int... i>
@@ -596,7 +596,7 @@ MFEM_HOST_DEVICE constexpr auto div_helper(const real_t a,
* @tparam T the types stored in the tuple y
* @tparam i The integer sequence to i
* @param x tuple of values
* @param a the constant denominator
* @param a the constant denomenator
* @return the returned tuple ratio
*/
template <typename... T, int... i>
@@ -726,7 +726,7 @@ MFEM_HOST_DEVICE constexpr auto operator*(const tuple<T...>& x, const real_t a)
/**
* @tparam T the types stored in the tuple
* @tparam i a list of indices used to access each element of the tuple
* @tparam i a list of indices used to acces each element of the tuple
* @param out the ostream to write the output to
* @param A the tuple of values
* @brief helper used to implement printing a tuple of values
+38 -115
View File
@@ -20,7 +20,6 @@
#include <vector>
#include <type_traits>
#include <numeric>
#include <iomanip>
#include "../../general/communication.hpp"
#include "../../general/forall.hpp"
@@ -108,33 +107,26 @@ constexpr void for_constexpr_with_arg(lambda&& f, arg_t&& arg)
indices{});
}
template <std::size_t I, typename Tuple, std::size_t... Is>
std::array<bool, sizeof...(Is)>
make_dependency_array(const Tuple& inputs, std::index_sequence<Is...>)
{
return { (get<I>(inputs).GetFieldId() == get<Is>(inputs).GetFieldId())... };
}
template <typename... input_ts, std::size_t... Is>
auto make_dependency_map_impl(tuple<input_ts...> inputs,
std::index_sequence<Is...>)
auto make_dependency_map_impl(
tuple<input_ts...> inputs,
std::index_sequence<Is...>)
{
constexpr std::size_t N = sizeof...(input_ts);
if constexpr (N == 0)
return std::unordered_map<int, std::array<bool, 0>> {};
std::unordered_map<int, std::array<bool, N>> map;
(void)std::initializer_list<int>
auto make_dependency_array = [&](auto i)
{
(
map[get<Is>(inputs).GetFieldId()] =
make_dependency_array<Is>(inputs, std::make_index_sequence<N>{}),
0
)...
return std::array<bool, sizeof...(input_ts)>
{
(get<i>(inputs).GetFieldId() == get<Is>(inputs).GetFieldId())...
};
};
std::unordered_map<int, std::array<bool, sizeof...(input_ts)>> map;
for_constexpr<sizeof...(input_ts)>([&](auto i)
{
map[get<i>(inputs).GetFieldId()] =
make_dependency_array(std::integral_constant<std::size_t, i> {});
});
return map;
}
@@ -208,45 +200,24 @@ void print_tuple(const std::tuple<Args...>& t)
/// ..., vmn]]
/// which is compatible with numpy syntax.
///
/// @param out ostream to print to
/// @param A mfem::DenseMatrix to print
/// @param m mfem::DenseMatrix to print
inline
void pretty_print(std::ostream &out, const mfem::DenseMatrix &A)
void pretty_print(const mfem::DenseMatrix& m)
{
// Determine the max width of any entry in scientific notation
int max_width = 0;
for (int i = 0; i < A.NumRows(); ++i)
out << "[";
for (int i = 0; i < m.NumRows(); i++)
{
for (int j = 0; j < A.NumCols(); ++j)
for (int j = 0; j < m.NumCols(); j++)
{
std::ostringstream oss;
oss << std::scientific << std::setprecision(2) << A(i, j);
max_width = std::max(max_width, static_cast<int>(oss.str().length()));
}
}
out << "[\n";
for (int i = 0; i < A.NumRows(); ++i)
{
out << " [";
for (int j = 0; j < A.NumCols(); ++j)
{
out << std::setw(max_width) << std::scientific << std::setprecision(2) <<
A(i, j);
if (j < A.NumCols() - 1)
out << m(i, j);
if (j < m.NumCols() - 1)
{
out << ", ";
}
}
out << "]";
if (i < A.NumRows() - 1)
if (i < m.NumRows() - 1)
{
out << ",\n";
}
else
{
out << "\n";
out << ", ";
}
}
out << "]\n";
@@ -385,7 +356,7 @@ void print_mpi_sync(const std::string& msg)
else
{
// Other ranks: Send message to rank 0
MPI_Send(const_cast<char*>(msg.c_str()), static_cast<int>(msg_len), MPI_CHAR,
MPI_Send(msg.c_str(), static_cast<int>(msg_len), MPI_CHAR,
0, 0, MPI_COMM_WORLD);
}
@@ -973,44 +944,7 @@ const Operator *get_element_restriction(const FieldDescriptor &f,
}
else
{
static_assert(dfem::always_false<T>,
"can't use get_element_restriction on type");
}
return nullptr; // Unreachable, but avoids compiler warning
}, f.data);
}
/// @brief Get the face restriction operator for a field descriptor.
///
/// @param f the field descriptor.
/// @param o the face dof ordering.
/// @param ft the face type
/// @param m indicator if single or double valued
/// @returns the face restriction operator for the field descriptor in
/// specified ordering.
inline
const Operator *get_face_restriction(const FieldDescriptor &f,
ElementDofOrdering o,
FaceType ft,
L2FaceValues m)
{
return std::visit([&o, &ft, &m](auto&& arg) -> const Operator*
{
using T = std::decay_t<decltype(arg)>;
if constexpr (std::is_same_v<T, const FiniteElementSpace *> ||
std::is_same_v<T, const ParFiniteElementSpace *>)
{
return arg->GetFaceRestriction(o, ft, m);
}
else if constexpr (std::is_same_v<T, const ParameterSpace *>)
{
// ParameterSpace does not support face restrictions
MFEM_ABORT("internal error");
}
else
{
static_assert(dfem::always_false<T>,
"can't use get_face_restriction on type");
static_assert(dfem::always_false<T>, "can't use GetElementRestriction on type");
}
return nullptr; // Unreachable, but avoids compiler warning
}, f.data);
@@ -1031,11 +965,6 @@ const Operator *get_restriction(const FieldDescriptor &f,
{
return get_element_restriction(f, o);
}
else if constexpr (std::is_same_v<entity_t, Entity::BoundaryElement>)
{
return get_face_restriction(f, o, FaceType::Boundary,
L2FaceValues::SingleValued);
}
MFEM_ABORT("restriction not implemented for Entity");
return nullptr;
}
@@ -1045,7 +974,7 @@ const Operator *get_restriction(const FieldDescriptor &f,
/// @param f the field descriptor.
/// @param o the element dof ordering.
/// @param fop the field operator.
/// @returns a tuple containing a std::function with the transpose
/// @returns a tuple containting a std::function with the transpose
/// restriction callback and it's height.
template <typename entity_t, typename fop_t>
inline std::tuple<std::function<void(const Vector&, Vector&)>, int>
@@ -1202,14 +1131,7 @@ std::function<void(const Vector&, Vector&)> get_prolongation_transpose(
const Operator *P = get_prolongation(f);
auto PT = [=](const Vector &r_local, Vector &y)
{
if (P)
{
P->MultTranspose(r_local, y);
}
else
{
y = r_local;
}
P->MultTranspose(r_local, y);
};
return PT;
}
@@ -1440,12 +1362,12 @@ int GetSizeOnQP(const field_operator_t &, const FieldDescriptor &f)
/// @tparam entity_t the entity type (see Entity).
/// @returns an array mapping field operator types to field descriptor indices.
template <typename entity_t, typename field_operator_ts>
std::array<size_t, tuple_size<field_operator_ts>::value>
std::array<int, tuple_size<field_operator_ts>::value>
create_descriptors_to_fields_map(
const std::vector<FieldDescriptor> &fields,
field_operator_ts &fops)
{
std::array<size_t, tuple_size<field_operator_ts>::value> map;
std::array<int, tuple_size<field_operator_ts>::value> map;
auto find_id = [](const std::vector<FieldDescriptor> &fields, std::size_t i)
{
@@ -1457,9 +1379,9 @@ create_descriptors_to_fields_map(
if (it == fields.end())
{
return SIZE_MAX;
return -1;
}
return static_cast<size_t>(it - fields.begin());
return static_cast<int>(it - fields.begin());
};
auto f = [&](auto &fop, auto &map)
@@ -1467,10 +1389,10 @@ create_descriptors_to_fields_map(
if constexpr (std::is_same_v<std::decay_t<decltype(fop)>, Weight>)
{
// TODO-bug: stealing dimension from the first field
fop.dim = GetDimension<entity_t>(fields[0]);
fop.dim = GetDimension<Entity::Element>(fields[0]);
fop.vdim = 1;
fop.size_on_qp = 1;
map = SIZE_MAX;
map = -1;
}
else
{
@@ -1587,13 +1509,14 @@ struct SharedMemoryInfo
std::array<int, 6> temp_sizes;
};
template <typename entity_t, std::size_t num_fields, std::size_t num_inputs, std::size_t num_outputs>
template <typename entity_t, std::size_t num_fields, std::size_t num_inputs, std::size_t num_outputs, typename input_t>
SharedMemoryInfo<num_fields, num_inputs, num_outputs>
get_shmem_info(
const std::array<DofToQuadMap, num_inputs> &input_dtq_maps,
const std::array<DofToQuadMap, num_outputs> &output_dtq_maps,
const std::vector<FieldDescriptor> &fields,
const int &num_entities,
const input_t &inputs,
const int &num_qp,
const std::vector<int> &input_size_on_qp,
const int &residual_size_on_qp,
@@ -2255,7 +2178,7 @@ template <
std::array<DofToQuadMap, N> create_dtq_maps_impl(
field_operator_ts &fops,
std::vector<const DofToQuad*> &dtqs,
const std::array<size_t, N> &field_map,
const std::array<int, N> &field_map,
std::index_sequence<Is...>)
{
auto f = [&](auto fop, std::size_t idx)
@@ -2340,7 +2263,7 @@ template <
std::array<DofToQuadMap, num_fields> create_dtq_maps(
field_operator_ts &fops,
std::vector<const DofToQuad*> &dtqmaps,
const std::array<size_t, num_fields> &to_field_map)
const std::array<int, num_fields> &to_field_map)
{
return create_dtq_maps_impl<entity_t>(
fops, dtqmaps,
+165
View File
@@ -12,6 +12,7 @@
#include "dgmassinv.hpp"
#include "bilinearform.hpp"
#include "dgmassinv_kernels.hpp"
#include "../general/forall.hpp"
namespace mfem
{
@@ -118,6 +119,151 @@ void DGMassInverse::Update()
DGMassInverse::~DGMassInverse() = default;
template<int DIM, int D1D, int Q1D>
void DGMassInverse::DGMassCGIteration(const Vector &b_, Vector &u_) const
{
using namespace internal; // host/device kernel functions
const int NE = fes.GetNE();
const int d1d = m->dofs1D;
const int q1d = m->quad1D;
const int ND = static_cast<int>(pow(d1d, DIM));
const auto B = m->maps->B.Read();
const auto Bt = m->maps->Bt.Read();
const auto pa_data = m->pa_data.Read();
const auto dinv = diag_inv.Read();
auto r = r_.Write();
auto d = d_.Write();
auto z = z_.Write();
auto u = u_.ReadWrite();
const real_t RELTOL = rel_tol;
const real_t ABSTOL = abs_tol;
const int MAXIT = max_iter;
const bool IT_MODE = iterative_mode;
const bool CHANGE_BASIS = (d2q != nullptr);
// b is the right-hand side (if no change of basis, this just points to the
// incoming RHS vector, if we have to change basis, this points to the
// internal b2 vector where we put the transformed RHS)
const real_t *b;
// the following are non-null if we have to change basis
real_t *b2 = nullptr; // non-const access to b2
const real_t *b_orig = nullptr; // RHS vector in "original" basis
const real_t *d2q_B = nullptr; // matrix to transform initial guess
const real_t *q2d_B = nullptr; // matrix to transform solution
const real_t *q2d_Bt = nullptr; // matrix to transform RHS
if (CHANGE_BASIS)
{
d2q_B = d2q->B.Read();
q2d_B = B_.Read();
q2d_Bt = Bt_.Read();
b2 = b2_.Write();
b_orig = b_.Read();
b = b2;
}
else
{
b = b_.Read();
}
static constexpr int NB = Q1D ? Q1D : 1; // block size
mfem::forall_2D(NE, NB, NB, [=] MFEM_HOST_DEVICE (int e)
{
// Perform change of basis if needed
if (CHANGE_BASIS)
{
// Transform RHS
DGMassBasis<DIM,D1D>(e, NE, q2d_Bt, b_orig, b2, d1d);
if (IT_MODE)
{
// Transform initial guess
DGMassBasis<DIM,D1D>(e, NE, d2q_B, u, u, d1d);
}
}
const int tid = MFEM_THREAD_ID(x) + NB*MFEM_THREAD_ID(y);
// Compute first residual
if (IT_MODE)
{
DGMassApply<DIM,D1D,Q1D>(e, NE, B, Bt, pa_data, u, r, d1d, q1d);
DGMassAxpy(e, NE, ND, 1.0, b, -1.0, r, r); // r = b - r
}
else
{
// if not in iterative mode, use zero initial guess
const int BX = MFEM_THREAD_SIZE(x);
const int BY = MFEM_THREAD_SIZE(y);
const int bxy = BX*BY;
const auto B = ConstDeviceMatrix(b, ND, NE);
auto U = DeviceMatrix(u, ND, NE);
auto R = DeviceMatrix(r, ND, NE);
for (int i = tid; i < ND; i += bxy)
{
U(i, e) = 0.0;
R(i, e) = B(i, e);
}
MFEM_SYNC_THREAD;
}
DGMassPreconditioner(e, NE, ND, dinv, r, z);
DGMassAxpy(e, NE, ND, 1.0, z, 0.0, z, d); // d = z
real_t nom = DGMassDot<NB>(e, NE, ND, d, r);
if (nom < 0.0) { return; /* Not positive definite */ }
real_t r0 = fmax(nom*RELTOL*RELTOL, ABSTOL*ABSTOL);
if (nom <= r0) { return; /* Converged */ }
DGMassApply<DIM,D1D,Q1D>(e, NE, B, Bt, pa_data, d, z, d1d, q1d);
real_t den = DGMassDot<NB>(e, NE, ND, z, d);
if (den <= 0.0)
{
DGMassDot<NB>(e, NE, ND, d, d);
// d2 > 0 => not positive definite
if (den == 0.0) { return; }
}
// start iteration
int i = 1;
while (true)
{
const real_t alpha = nom/den;
DGMassAxpy(e, NE, ND, 1.0, u, alpha, d, u); // u = u + alpha*d
DGMassAxpy(e, NE, ND, 1.0, r, -alpha, z, r); // r = r - alpha*A*d
DGMassPreconditioner(e, NE, ND, dinv, r, z);
real_t betanom = DGMassDot<NB>(e, NE, ND, r, z);
if (betanom < 0.0) { return; /* Not positive definite */ }
if (betanom <= r0) { break; /* Converged */ }
if (++i > MAXIT) { break; }
const real_t beta = betanom/nom;
DGMassAxpy(e, NE, ND, 1.0, z, beta, d, d); // d = z + beta*d
DGMassApply<DIM,D1D,Q1D>(e, NE, B, Bt, pa_data, d, z, d1d, q1d); // z = A d
den = DGMassDot<NB>(e, NE, ND, d, z);
if (den <= 0.0)
{
DGMassDot<NB>(e, NE, ND, d, d);
// d2 > 0 => not positive definite
if (den == 0.0) { break; }
}
nom = betanom;
}
if (CHANGE_BASIS)
{
DGMassBasis<DIM,D1D>(e, NE, q2d_B, u, u, d1d);
}
});
}
void DGMassInverse::Mult(const Vector &Mu, Vector &u) const
{
// Dispatch to templated version based on dim, d1d, and q1d.
@@ -160,4 +306,23 @@ DGMassInvKernels::DGMassInvKernels()
k::Specialization<3,6,7>::Add();
}
/// @cond Suppress_Doxygen_warnings
template <int DIM, int D1D, int Q1D>
DGMassInverse::CGKernelType DGMassInverse::CGKernels::Kernel()
{
return &DGMassInverse::DGMassCGIteration<DIM,D1D,Q1D>;
}
DGMassInverse::CGKernelType DGMassInverse::CGKernels::Fallback(
int dim, int, int)
{
if (dim == 1) { return &DGMassInverse::DGMassCGIteration<1>; }
else if (dim == 2) { return &DGMassInverse::DGMassCGIteration<2>; }
else if (dim == 3) { return &DGMassInverse::DGMassCGIteration<3>; }
else { MFEM_ABORT("Unsupported dimension."); }
}
/// @endcond
} // namespace mfem
-165
View File
@@ -15,7 +15,6 @@
#include "../linalg/kernels.hpp"
#include "kernels.hpp"
#include "integ/bilininteg_mass_kernels.hpp"
#include "dgmassinv.hpp"
namespace mfem
{
@@ -334,170 +333,6 @@ void DGMassBasis(const int e,
} // namespace internal
template<int DIM, int D1D, int Q1D>
void DGMassInverse::DGMassCGIteration(const Vector &b_, Vector &u_) const
{
using namespace internal; // host/device kernel functions
const int NE = fes.GetNE();
const int d1d = m->dofs1D;
const int q1d = m->quad1D;
const int ND = static_cast<int>(pow(d1d, DIM));
const auto B = m->maps->B.Read();
const auto Bt = m->maps->Bt.Read();
const auto pa_data = m->pa_data.Read();
const auto dinv = diag_inv.Read();
auto r = r_.Write();
auto d = d_.Write();
auto z = z_.Write();
auto u = u_.ReadWrite();
const real_t RELTOL = rel_tol;
const real_t ABSTOL = abs_tol;
const int MAXIT = max_iter;
const bool IT_MODE = iterative_mode;
const bool CHANGE_BASIS = (d2q != nullptr);
// b is the right-hand side (if no change of basis, this just points to the
// incoming RHS vector, if we have to change basis, this points to the
// internal b2 vector where we put the transformed RHS)
const real_t *b;
// the following are non-null if we have to change basis
real_t *b2 = nullptr; // non-const access to b2
const real_t *b_orig = nullptr; // RHS vector in "original" basis
const real_t *d2q_B = nullptr; // matrix to transform initial guess
const real_t *q2d_B = nullptr; // matrix to transform solution
const real_t *q2d_Bt = nullptr; // matrix to transform RHS
if (CHANGE_BASIS)
{
d2q_B = d2q->B.Read();
q2d_B = B_.Read();
q2d_Bt = Bt_.Read();
b2 = b2_.Write();
b_orig = b_.Read();
b = b2;
}
else
{
b = b_.Read();
}
static constexpr int NB = Q1D ? Q1D : 1; // block size
mfem::forall_2D<NB*NB>(NE, NB, NB, [=] MFEM_HOST_DEVICE (int e)
{
// Perform change of basis if needed
if (CHANGE_BASIS)
{
// Transform RHS
DGMassBasis<DIM,D1D>(e, NE, q2d_Bt, b_orig, b2, d1d);
if (IT_MODE)
{
// Transform initial guess
DGMassBasis<DIM,D1D>(e, NE, d2q_B, u, u, d1d);
}
}
const int tid = MFEM_THREAD_ID(x) + NB*MFEM_THREAD_ID(y);
// Compute first residual
if (IT_MODE)
{
DGMassApply<DIM,D1D,Q1D>(e, NE, B, Bt, pa_data, u, r, d1d, q1d);
DGMassAxpy(e, NE, ND, 1.0, b, -1.0, r, r); // r = b - r
}
else
{
// if not in iterative mode, use zero initial guess
const int BX = MFEM_THREAD_SIZE(x);
const int BY = MFEM_THREAD_SIZE(y);
const int bxy = BX*BY;
const auto B = ConstDeviceMatrix(b, ND, NE);
auto U = DeviceMatrix(u, ND, NE);
auto R = DeviceMatrix(r, ND, NE);
for (int i = tid; i < ND; i += bxy)
{
U(i, e) = 0.0;
R(i, e) = B(i, e);
}
MFEM_SYNC_THREAD;
}
DGMassPreconditioner(e, NE, ND, dinv, r, z);
DGMassAxpy(e, NE, ND, 1.0, z, 0.0, z, d); // d = z
real_t nom = DGMassDot<NB>(e, NE, ND, d, r);
if (nom < 0.0) { return; /* Not positive definite */ }
real_t r0 = fmax(nom*RELTOL*RELTOL, ABSTOL*ABSTOL);
if (nom <= r0) { return; /* Converged */ }
DGMassApply<DIM,D1D,Q1D>(e, NE, B, Bt, pa_data, d, z, d1d, q1d);
real_t den = DGMassDot<NB>(e, NE, ND, z, d);
if (den <= 0.0)
{
DGMassDot<NB>(e, NE, ND, d, d);
// d2 > 0 => not positive definite
if (den == 0.0) { return; }
}
// start iteration
int i = 1;
while (true)
{
const real_t alpha = nom/den;
DGMassAxpy(e, NE, ND, 1.0, u, alpha, d, u); // u = u + alpha*d
DGMassAxpy(e, NE, ND, 1.0, r, -alpha, z, r); // r = r - alpha*A*d
DGMassPreconditioner(e, NE, ND, dinv, r, z);
real_t betanom = DGMassDot<NB>(e, NE, ND, r, z);
if (betanom < 0.0) { return; /* Not positive definite */ }
if (betanom <= r0) { break; /* Converged */ }
if (++i > MAXIT) { break; }
const real_t beta = betanom/nom;
DGMassAxpy(e, NE, ND, 1.0, z, beta, d, d); // d = z + beta*d
DGMassApply<DIM,D1D,Q1D>(e, NE, B, Bt, pa_data, d, z, d1d, q1d); // z = A d
den = DGMassDot<NB>(e, NE, ND, d, z);
if (den <= 0.0)
{
DGMassDot<NB>(e, NE, ND, d, d);
// d2 > 0 => not positive definite
if (den == 0.0) { break; }
}
nom = betanom;
}
if (CHANGE_BASIS)
{
DGMassBasis<DIM,D1D>(e, NE, q2d_B, u, u, d1d);
}
});
}
/// @cond Suppress_Doxygen_warnings
template <int DIM, int D1D, int Q1D>
inline DGMassInverse::CGKernelType DGMassInverse::CGKernels::Kernel()
{
return &DGMassInverse::DGMassCGIteration<DIM,D1D,Q1D>;
}
inline DGMassInverse::CGKernelType DGMassInverse::CGKernels::Fallback(
int dim, int, int)
{
if (dim == 1) { return &DGMassInverse::DGMassCGIteration<1>; }
else if (dim == 2) { return &DGMassInverse::DGMassCGIteration<2>; }
else if (dim == 3) { return &DGMassInverse::DGMassCGIteration<3>; }
else { MFEM_ABORT("Unsupported dimension."); }
}
/// @endcond
} // namespace mfem
#endif
+3 -3
View File
@@ -69,9 +69,9 @@ inline int ToLexOrdering2D(const int face_id, const int size1d, const int i)
}
/// @brief Given a face DOF index on a shared face, ordered lexicographically
/// relative to the element (where the local face is face_id), return the
/// corresponding face DOF index ordered lexicographically relative to the face
/// itself.
/// relative to element the element (where the local face is face_id), and
/// return the corresponding face DOF index ordered lexicographically relative
/// to the face itself.
MFEM_HOST_DEVICE
inline int PermuteFace2D(const int face_id, const int orientation,
const int size1d, const int index)
+69 -152
View File
@@ -231,7 +231,7 @@ void FiniteElement::CalcPhysLaplacian(ElementTransformation &Trans,
{
for (int nd = 0; nd < dof; nd++)
{
Laplacian[nd] = hess(nd,0) + hess(nd,3) + hess(nd,5);
Laplacian[nd] = hess(nd,0) + hess(nd,4) + hess(nd,5);
}
}
else if (dim == 2)
@@ -268,9 +268,11 @@ void FiniteElement::CalcPhysLinLaplacian(ElementTransformation &Trans,
scale[0] = Gij(0,0);
scale[1] = 2*Gij(0,1);
scale[2] = 2*Gij(0,2);
scale[3] = Gij(1,1);
scale[4] = 2*Gij(1,2);
scale[5] = Gij(2,2);
scale[3] = 2*Gij(1,2);
scale[4] = Gij(2,2);
scale[5] = Gij(1,1);
}
else if (dim == 2)
{
@@ -307,12 +309,12 @@ void FiniteElement::CalcPhysHessian(ElementTransformation &Trans,
map[2] = 2;
map[3] = 1;
map[4] = 3;
map[5] = 4;
map[4] = 5;
map[5] = 3;
map[6] = 2;
map[7] = 4;
map[8] = 5;
map[7] = 3;
map[8] = 4;
}
else if (dim == 2)
{
@@ -380,7 +382,11 @@ const DofToQuad &FiniteElement::GetDofToQuad(const IntegrationRule &ir,
#pragma omp critical (DofToQuad)
#endif
{
d2q = DofToQuad::SearchArray(dof2quad_array, ir, mode);
for (int i = 0; i < dof2quad_array.Size(); i++)
{
d2q = dof2quad_array[i];
if (d2q->IntRule != &ir || d2q->mode != mode) { d2q = nullptr; }
}
if (!d2q)
{
#ifdef MFEM_THREAD_SAFE
@@ -655,81 +661,65 @@ void ScalarFiniteElement::ScalarLocalL2Restriction(
void NodalFiniteElement::CreateLexicographicFullMap(const IntegrationRule &ir)
const
{
// Get the FULL version of the map. This call contains omp critical region,
// so it is done before the critical region below.
// Get the FULL version of the map.
auto &d2q = GetDofToQuad(ir, DofToQuad::FULL);
//Undo the native ordering which is what FiniteElement::GetDofToQuad returns.
auto *d2q_new = new DofToQuad(d2q);
d2q_new->mode = DofToQuad::LEXICOGRAPHIC_FULL;
const int nqpt = ir.GetNPoints();
#if defined(MFEM_THREAD_SAFE) && defined(MFEM_USE_OPENMP)
#pragma omp critical (DofToQuad)
#endif
const int b_dim = (range_type == VECTOR) ? dim : 1;
for (int i = 0; i < nqpt; i++)
{
// Do not run if the new Dof2Quad is already present, e.g. added in a
// previous call or added by another omp thread.
if (DofToQuad::SearchArray(dof2quad_array, ir,
DofToQuad::LEXICOGRAPHIC_FULL) == nullptr)
for (int d = 0; d < b_dim; d++)
{
// Undo the native ordering which is what FiniteElement::GetDofToQuad
// returns.
auto *d2q_new = new DofToQuad(d2q);
d2q_new->mode = DofToQuad::LEXICOGRAPHIC_FULL;
const int nqpt = ir.GetNPoints();
const int b_dim = (range_type == VECTOR) ? dim : 1;
for (int i = 0; i < nqpt; i++)
for (int j = 0; j < dof; j++)
{
for (int d = 0; d < b_dim; d++)
{
for (int j = 0; j < dof; j++)
{
const double val = d2q.B[i + nqpt*(d+b_dim*lex_ordering[j])];
d2q_new->B[i+nqpt*(d+b_dim*j)] = val;
d2q_new->Bt[j+dof*(i+nqpt*d)] = val;
}
}
const double val = d2q.B[i + nqpt*(d+b_dim*lex_ordering[j])];
d2q_new->B[i+nqpt*(d+b_dim*j)] = val;
d2q_new->Bt[j+dof*(i+nqpt*d)] = val;
}
const int g_dim = [this]()
{
switch (deriv_type)
{
case GRAD: return dim;
case DIV: return 1;
case CURL: return cdim;
default: return 0;
}
}();
for (int i = 0; i < nqpt; i++)
{
for (int d = 0; d < g_dim; d++)
{
for (int j = 0; j < dof; j++)
{
const double val = d2q.G[i + nqpt*(d+g_dim*lex_ordering[j])];
d2q_new->G[i+nqpt*(d+g_dim*j)] = val;
d2q_new->Gt[j+dof*(i+nqpt*d)] = val;
}
}
}
dof2quad_array.Append(d2q_new);
}
}
const int g_dim = [this]()
{
switch (deriv_type)
{
case GRAD: return dim;
case DIV: return 1;
case CURL: return cdim;
default: return 0;
}
}();
for (int i = 0; i < nqpt; i++)
{
for (int d = 0; d < g_dim; d++)
{
for (int j = 0; j < dof; j++)
{
const double val = d2q.G[i + nqpt*(d+g_dim*lex_ordering[j])];
d2q_new->G[i+nqpt*(d+g_dim*j)] = val;
d2q_new->Gt[j+dof*(i+nqpt*d)] = val;
}
}
}
dof2quad_array.Append(d2q_new);
}
const DofToQuad &NodalFiniteElement::GetDofToQuad(const IntegrationRule &ir,
DofToQuad::Mode mode) const
{
DofToQuad *d2q = nullptr;
#if defined(MFEM_THREAD_SAFE) && defined(MFEM_USE_OPENMP)
#pragma omp critical (DofToQuad)
#endif
//Should make this loop a function of FiniteElement
for (int i = 0; i < dof2quad_array.Size(); i++)
{
d2q = DofToQuad::SearchArray(dof2quad_array, ir, mode);
const DofToQuad &d2q = *dof2quad_array[i];
if (d2q.IntRule == &ir && d2q.mode == mode) { return d2q; }
}
if (d2q) { return *d2q; }
if (mode != DofToQuad::LEXICOGRAPHIC_FULL)
{
return FiniteElement::GetDofToQuad(ir, mode);
@@ -1044,50 +1034,9 @@ void VectorFiniteElement::SetDerivMembers()
switch (map_type)
{
case H_DIV:
switch (dim)
{
case 3: // div: 3D H_DIV -> 3D INTEGRAL
deriv_type = DIV;
deriv_range_type = SCALAR;
deriv_map_type = INTEGRAL;
break;
case 2: // div: 2D H_DIV -> 2D INTEGRAL
deriv_type = DIV;
deriv_range_type = SCALAR;
deriv_map_type = INTEGRAL;
break;
default:
MFEM_ABORT("Invalid dimension, Dim = " << dim);
}
break;
case H_DIV_R2D:
switch (dim)
{
case 2: // div: 2D H_DIV_R2D -> 2D INTEGRAL
deriv_type = DIV;
deriv_range_type = SCALAR;
deriv_map_type = INTEGRAL;
break;
case 1: // div: 1D H_DIV_R2D -> 1D INTEGRAL
deriv_type = DIV;
deriv_range_type = SCALAR;
deriv_map_type = INTEGRAL;
break;
default:
MFEM_ABORT("Invalid dimension, Dim = " << dim);
}
break;
case H_DIV_R1D:
switch (dim)
{
case 1: // div: 1D H_DIV_R1D -> 1D INTEGRAL
deriv_type = DIV;
deriv_range_type = SCALAR;
deriv_map_type = INTEGRAL;
break;
default:
MFEM_ABORT("Invalid dimension, Dim = " << dim);
}
deriv_type = DIV;
deriv_range_type = SCALAR;
deriv_map_type = INTEGRAL;
break;
case H_CURL:
switch (dim)
@@ -1105,49 +1054,13 @@ void VectorFiniteElement::SetDerivMembers()
break;
case 1:
deriv_type = NONE;
deriv_range_type = UNKNOWN_RANGE_TYPE;
deriv_map_type = UNKNOWN_MAP_TYPE;
deriv_range_type = SCALAR;
deriv_map_type = INTEGRAL;
break;
default:
MFEM_ABORT("Invalid dimension, Dim = " << dim);
}
break;
case H_CURL_R2D:
switch (dim)
{
case 2:
// curl: 2D H_CURL_R2D -> H_DIV_R2D
deriv_type = CURL;
deriv_range_type = VECTOR;
deriv_map_type = H_DIV_R2D;
break;
case 1:
// curl: 1D H_CURL_R2D -> H_DIV_R2D
deriv_type = CURL;
deriv_range_type = VECTOR;
deriv_map_type = H_DIV_R2D;
break;
default:
MFEM_ABORT("Invalid dimension, Dim = " << dim);
}
break;
case H_CURL_R1D:
switch (dim)
{
case 1:
// curl: 1D H_CURL_R1D -> H_DIV_R1D
deriv_type = CURL;
deriv_range_type = VECTOR;
deriv_map_type = H_DIV_R1D;
break;
case 0:
deriv_type = NONE;
deriv_range_type = UNKNOWN_RANGE_TYPE;
deriv_map_type = UNKNOWN_MAP_TYPE;
default:
MFEM_ABORT("Invalid dimension, Dim = " << dim);
}
break;
default:
MFEM_ABORT("Invalid MapType = " << map_type);
}
@@ -2705,7 +2618,11 @@ const DofToQuad &TensorBasisElement::GetTensorDofToQuad(
#pragma omp critical (DofToQuad)
#endif
{
d2q = DofToQuad::SearchArray(dof2quad_array, ir, mode);
for (int i = 0; i < dof2quad_array.Size(); i++)
{
d2q = dof2quad_array[i];
if (d2q->IntRule != &ir || d2q->mode != mode) { d2q = nullptr; }
}
if (!d2q)
{
d2q = new DofToQuad;
+6 -56
View File
@@ -44,7 +44,7 @@ public:
NumBasisTypes = 9 /**< Keep track of maximum types to prevent
hard-coding */
};
/** @brief If the input does not represent a valid BasisType, abort with an
/** @brief If the input does not represents a valid BasisType, abort with an
error; otherwise return the input. */
static int Check(int b_type)
{
@@ -52,7 +52,7 @@ public:
"unknown BasisType: " << b_type);
return b_type;
}
/** @brief If the input does not represent a valid nodal BasisType, abort
/** @brief If the input does not represents a valid nodal BasisType, abort
with an error; otherwise return the input. */
static int CheckNodal(int b_type)
{
@@ -222,12 +222,6 @@ public:
/// Returns absolute value of the maps
DofToQuad Abs() const;
/// Auxiliary function for searching DofToQuad arrays.
static inline DofToQuad *SearchArray(
const Array<DofToQuad*> &dof2quad_array,
const IntegrationRule &ir,
DofToQuad::Mode mode);
};
/// Describes the function space on each element
@@ -295,20 +289,10 @@ public:
$ u(x) = (1/w) \hat u(\hat x) $ */
H_DIV, /**< For vector fields; preserves surface integrals of the
normal component $ u(x) = (J/w) \hat u(\hat x) $ */
H_CURL, /**< For vector fields; preserves line integrals of the
H_CURL /**< For vector fields; preserves line integrals of the
tangential component
$ u(x) = J^{-t} \hat u(\hat x) $ (square J),
$ u(x) = J(J^t J)^{-1} \hat u(\hat x) $ (general J) */
H_DIV_R2D, /**< For 3-component vector fields in 2D; equivalent to a
direct sum of an H_DIV basis and an INTEGRAL basis */
H_CURL_R2D,/**< For 3-component vector fields in 2D; equivalent to a
direct sum of an H_CURL basis and a VALUE basis */
H_DIV_R1D, /**< For 3-component vector fields in 1D; equivalent to a
direct sum of a VALUE basis and a pair of INTEGRAL
bases */
H_CURL_R1D /**< For 3-component vector fields in 1D; equivalent to a
direct sum of an INTEGRAL basis and a pair of VALUE
bases */
};
/** @brief Enumeration for DerivType: defines which derivative method
@@ -340,28 +324,12 @@ public:
int GetDim() const { return dim; }
/** @brief Returns the vector dimension for vector-valued finite elements,
which is also the dimension of the interpolation operation and the
width of the DenseMatrix argument in
CalcVShape(const IntegrationPoint &ip, DenseMatrix &shape). */
which is also the dimension of the interpolation operation. */
int GetRangeDim() const { return vdim; }
/** @brief Returns the vector dimension, in physical space, for
vector-valued finite elements, which is also the width of the
DenseMatrix argument in
CalcPhysVShape(ElementTransformation &Trans, DenseMatrix &shape). */
int GetPhysRangeDim(int /* space_dim */) const { return vdim; }
/** Returns the dimension of the curl for vector-valued finite elements,
which is also the width of the DenseMatrix argument in
CalcCurlShape(const IntegrationPoint &ip, DenseMatrix &curl_shape). */
/// Returns the dimension of the curl for vector-valued finite elements.
int GetCurlDim() const { return cdim; }
/** Returns the dimension, in physical space, of the curl for vector-valued
finite elements, which is also the width of the DenseMatrix argument in
CalcPhysCurlShape(ElementTransformation &Trans, DenseMatrix &curl_shape).
*/
int GetPhysCurlDim(int /* space_dim */) const { return cdim; }
/// Returns the Geometry::Type of the reference element.
Geometry::Type GetGeomType() const { return geom_type; }
@@ -439,7 +407,6 @@ public:
/** Each row of the result DenseMatrix @a Hessian contains upper triangular
part of the Hessian of one shape function.
The order in 2D is {u_xx, u_xy, u_yy}.
The order in 3D is {u_xx, u_xy, u_xz, u_yy, u_yz, u_zz}.
The size (#dof x (#dim (#dim+1)/2) of @a Hessian must be set in advance.*/
virtual void CalcHessian(const IntegrationPoint &ip,
DenseMatrix &Hessian) const;
@@ -1016,8 +983,6 @@ protected:
public:
VectorFiniteElement(int D, Geometry::Type G, int Do, int O, int M,
int F = FunctionSpace::Pk);
int GetPhysRangeDim(int space_dim) const { return space_dim; }
};
/// @brief Class for computing 1D special polynomials and their associated basis
@@ -1155,7 +1120,7 @@ public:
return GetPoints(p, btype, on_device);
}
/// Get coordinates of a closed (GaussLobatto) set of points if degree @a p
/// Get coordinates of a closed (GaussLegendre) set of points if degree @a p
const real_t *ClosedPoints(const int p,
const int btype = BasisType::GaussLobatto,
bool on_device = false)
@@ -1411,21 +1376,6 @@ public:
void InvertLinearTrans(ElementTransformation &trans,
const IntegrationPoint &pt, Vector &x);
// static inline method
inline DofToQuad *DofToQuad::SearchArray(
const Array<DofToQuad*> &dof2quad_array,
const IntegrationRule &ir,
DofToQuad::Mode mode)
{
for (int i = 0; i < dof2quad_array.Size(); i++)
{
DofToQuad *d2q = dof2quad_array[i];
if (d2q->IntRule == &ir && d2q->mode == mode) { return d2q; }
}
return nullptr;
}
} // namespace mfem
#endif
-48
View File
@@ -60,12 +60,6 @@ void Linear1DFiniteElement::CalcDShape(const IntegrationPoint &ip,
dshape(1,0) = 1.;
}
void Linear1DFiniteElement::CalcHessian(const IntegrationPoint &ip,
DenseMatrix &h) const
{
h = 0.0;
}
Linear2DFiniteElement::Linear2DFiniteElement()
: NodalFiniteElement(2, Geometry::TRIANGLE, 3, 1)
{
@@ -93,11 +87,6 @@ void Linear2DFiniteElement::CalcDShape(const IntegrationPoint &ip,
dshape(2,0) = 0.; dshape(2,1) = 1.;
}
void Linear2DFiniteElement::CalcHessian(const IntegrationPoint &ip,
DenseMatrix &h) const
{
h = 0.0;
}
BiLinear2DFiniteElement::BiLinear2DFiniteElement()
: NodalFiniteElement(2, Geometry::SQUARE, 4, 1, FunctionSpace::Qk)
@@ -1267,12 +1256,6 @@ void Linear3DFiniteElement::CalcDShape(const IntegrationPoint &ip,
}
}
void Linear3DFiniteElement::CalcHessian(const IntegrationPoint &ip,
DenseMatrix &h) const
{
h = 0.0;
}
void Linear3DFiniteElement::GetFaceDofs (int face, int **dofs, int *ndofs)
const
{
@@ -1649,37 +1632,6 @@ void TriLinear3DFiniteElement::CalcDShape(const IntegrationPoint &ip,
dshape(7,2) = ox * y;
}
void TriLinear3DFiniteElement::CalcHessian(const IntegrationPoint &ip,
DenseMatrix &h) const
{
real_t x = ip.x, y = ip.y, z = ip.z;
real_t ox = 1.-x, oy = 1.-y, oz = 1.-z;
h(0,0) = 0.; h(0,1) = oz; h(0,2) = oy;
h(0,3) = 0.; h(0,4) = ox; h(0,5) = 0.;
h(1,0) = 0.; h(1,1) = -oz; h(1,2) = -oy;
h(1,3) = 0.; h(1,4) = x; h(1,5) = 0.;
h(2,0) = 0.; h(2,1) = oz; h(2,2) = -y;
h(2,3) = 0.; h(2,4) = -x; h(2,5) = 0.;
h(3,0) = 0.; h(3,1) = -oz; h(3,2) = y;
h(3,3) = 0.; h(3,4) = -ox; h(3,5) = 0.;
h(4,0) = 0.; h(4,1) = z; h(4,2) = -oy;
h(4,3) = 0.; h(4,4) = -ox; h(4,5) = 0.;
h(5,0) = 0.; h(5,1) = -z; h(5,2) = oy;
h(5,3) = 0.; h(5,4) = -x; h(5,5) = 0.;
h(6,0) = 0.; h(6,1) = z; h(6,2) = y;
h(6,3) = 0.; h(6,4) = x; h(6,5) = 0.;
h(7,0) = 0.; h(7,1) = -z; h(7,2) = -y;
h(7,3) = 0.; h(7,4) = ox; h(7,5) = 0.;
}
P0SegmentFiniteElement::P0SegmentFiniteElement(int Ord)
: NodalFiniteElement(1, Geometry::SEGMENT, 1, Ord) // default Ord = 0
+1 -9
View File
@@ -50,8 +50,6 @@ public:
contains the derivative of one shape function */
void CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const override;
void CalcHessian(const IntegrationPoint &ip,
DenseMatrix &h) const override;
};
/// A 2D linear element on triangle with nodes at the vertices of the triangle
@@ -72,8 +70,6 @@ public:
so that each row contains the derivatives of one shape function */
void CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const override;
void CalcHessian(const IntegrationPoint &ip,
DenseMatrix &h) const override;
void ProjectDelta(int vertex, Vector &dofs) const override
{ dofs = 0.0; dofs(vertex) = 1.0; }
};
@@ -408,9 +404,6 @@ public:
void CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const override;
void CalcHessian(const IntegrationPoint &ip,
DenseMatrix &h) const override;
void ProjectDelta(int vertex, Vector &dofs) const override
{ dofs = 0.0; dofs(vertex) = 1.0; }
@@ -452,8 +445,7 @@ public:
so that each row contains the derivatives of one shape function */
void CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const override;
void CalcHessian(const IntegrationPoint &ip,
DenseMatrix &h) const override;
void ProjectDelta(int vertex, Vector &dofs) const override
{ dofs = 0.0; dofs(vertex) = 1.0; }
};
+1 -1
View File
@@ -589,7 +589,7 @@ void H1_TriangleElement::CalcHessian(const IntegrationPoint &ip,
Vector shape_x(p + 1), shape_y(p + 1), shape_l(p + 1);
Vector dshape_x(p + 1), dshape_y(p + 1), dshape_l(p + 1);
Vector ddshape_x(p + 1), ddshape_y(p + 1), ddshape_l(p + 1);
DenseMatrix ddu(dof, (dim*(dim+1))/2);
DenseMatrix ddu(dof, dim);
#endif
poly1d.CalcBasis(p, ip.x, shape_x, dshape_x, ddshape_x);
+4 -4
View File
@@ -2531,7 +2531,7 @@ void ND_FuentesPyramidElement::calcCurlBasis(const int p,
ND_R1D_PointElement::ND_R1D_PointElement(int p)
: VectorFiniteElement(1, Geometry::POINT, 2, p,
H_CURL_R1D, FunctionSpace::Pk)
H_CURL, FunctionSpace::Pk)
{
// VectorFiniteElement::SetDerivMembers doesn't support 0D H_CURL elements
// so we mimic a 1D element and then correct the dimension here.
@@ -2562,7 +2562,7 @@ ND_R1D_SegmentElement::ND_R1D_SegmentElement(const int p,
const int cb_type,
const int ob_type)
: VectorFiniteElement(1, Geometry::SEGMENT, 3 * p + 2, p,
H_CURL_R1D, FunctionSpace::Pk),
H_CURL, FunctionSpace::Pk),
dof2tk(dof),
cbasis1d(poly1d.GetBasis(p, VerifyClosed(cb_type))),
obasis1d(poly1d.GetBasis(p - 1, VerifyOpen(ob_type)))
@@ -2839,7 +2839,7 @@ ND_R2D_SegmentElement::ND_R2D_SegmentElement(const int p,
const int cb_type,
const int ob_type)
: VectorFiniteElement(1, Geometry::SEGMENT, 2 * p + 1, p,
H_CURL_R2D, FunctionSpace::Pk),
H_CURL, FunctionSpace::Pk),
dof2tk(dof),
cbasis1d(poly1d.GetBasis(p, VerifyClosed(cb_type))),
obasis1d(poly1d.GetBasis(p - 1, VerifyOpen(ob_type)))
@@ -3023,7 +3023,7 @@ void ND_R2D_SegmentElement::Project(VectorCoefficient &vc,
ND_R2D_FiniteElement::ND_R2D_FiniteElement(int p, Geometry::Type G, int Do,
const real_t *tk_fe)
: VectorFiniteElement(2, G, Do, p,
H_CURL_R2D, FunctionSpace::Pk),
H_CURL, FunctionSpace::Pk),
tk(tk_fe),
dof_map(dof),
dof2tk(dof)
-6
View File
@@ -663,9 +663,6 @@ public:
const int cb_type = BasisType::GaussLobatto,
const int ob_type = BasisType::GaussLegendre);
int GetPhysRangeDim(int space_dim) const { return 2; }
int GetPhysCurlDim(int space_dim) const { return 1; }
void CalcVShape(const IntegrationPoint &ip,
DenseMatrix &shape) const override;
@@ -708,9 +705,6 @@ private:
DenseMatrix &I) const;
public:
int GetPhysRangeDim(int space_dim) const { return 3; }
int GetPhysCurlDim(int space_dim) const { return 3; }
using FiniteElement::CalcVShape;
using FiniteElement::CalcPhysCurlShape;
+5 -519
View File
@@ -84,46 +84,6 @@ void NURBS1DFiniteElement::CalcHessian (const IntegrationPoint &ip,
add(1.0, hess, (-d2sum + 2*dsum*dsum*sum)*sum*sum, shape_x, hess);
}
void NURBS1DFiniteElement::Project(Coefficient &coeff,
ElementTransformation &Trans,
Vector &dofs) const
{
IntegrationPoint ip;
for (int i = 0; i <= order; i++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+order)) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+order);
Trans.SetIntPoint(&ip);
dofs(i) = coeff.Eval(Trans, ip);
}
}
void NURBS1DFiniteElement::Project(VectorCoefficient &vc,
ElementTransformation &Trans,
Vector &dofs) const
{
MFEM_ASSERT(dofs.Size() == vc.GetVDim()*dof, "");
Vector x(vc.GetVDim());
IntegrationPoint ip;
for (int i = 0; i <= order; i++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+order)) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+order);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
for (int j = 0; j < x.Size(); j++)
{
dofs(dof*j+i) = x(j);
}
}
}
void NURBS2DFiniteElement::SetOrder() const
{
@@ -255,63 +215,6 @@ void NURBS2DFiniteElement::CalcHessian (const IntegrationPoint &ip,
}
}
void NURBS2DFiniteElement::Project(Coefficient &coeff,
ElementTransformation &Trans,
Vector &dofs) const
{
IntegrationPoint ip;
for (int o = 0, j = 0; j <= orders[1]; j++)
{
real_t ky = kv[1]->GetBotella(ijk[1] + j);
if (!kv[1]->inSpan(ky, ijk[1]+orders[1]))
{
o += orders[0] + 1;
continue;
}
ip.y = kv[1]->GetRefPoint(ky, ijk[1]+orders[1]);
for (int i = 0; i <= orders[0]; i++, o++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+orders[0])) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+orders[0]);
Trans.SetIntPoint(&ip);
dofs(o) = coeff.Eval(Trans, ip);
}
}
}
void NURBS2DFiniteElement::Project(VectorCoefficient &vc,
ElementTransformation &Trans,
Vector &dofs) const
{
MFEM_ASSERT(dofs.Size() == vc.GetVDim()*dof, "");
Vector x(vc.GetVDim());
IntegrationPoint ip;
for (int o = 0, j = 0; j <= orders[1]; j++)
{
real_t ky = kv[1]->GetBotella(ijk[1] + j);
if (!kv[1]->inSpan(ky, ijk[1]+orders[1]))
{
o += orders[0] + 1;
continue;
}
ip.y = kv[1]->GetRefPoint(ky, ijk[1]+orders[1]);
for (int i = 0; i <= orders[0]; i++, o++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+orders[0])) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+orders[0]);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
for (int v = 0; v < x.Size(); v++)
{
dofs(dof*v+o) = x(v);
}
}
}
}
void NURBS3DFiniteElement::SetOrder() const
{
@@ -445,10 +348,11 @@ void NURBS3DFiniteElement::CalcHessian (const IntegrationPoint &ip,
d2sum[0] += ( hessian(o,0) = d2sx*sy*sz*weights(o) );
d2sum[1] += ( hessian(o,1) = dsx*dsy*sz*weights(o) );
d2sum[2] += ( hessian(o,2) = dsx*sy*dsz*weights(o) );
d2sum[3] += ( hessian(o,3) = sx*d2sy*sz*weights(o) );
d2sum[4] += ( hessian(o,4) = sx*dsy*dsz*weights(o) );
d2sum[5] += ( hessian(o,5) = sx*sy*d2sz*weights(o) );
d2sum[3] += ( hessian(o,3) = sx*dsy*dsz*weights(o) );
d2sum[4] += ( hessian(o,4) = sx*sy*d2sz*weights(o) );
d2sum[5] += ( hessian(o,5) = sx*d2sy*sz*weights(o) );
}
}
}
@@ -497,85 +401,6 @@ void NURBS3DFiniteElement::CalcHessian (const IntegrationPoint &ip,
}
}
void NURBS3DFiniteElement::Project(Coefficient &coeff,
ElementTransformation &Trans,
Vector &dofs) const
{
IntegrationPoint ip;
for (int o = 0, k = 0; k <= orders[2]; k++)
{
real_t kz = kv[2]->GetBotella(ijk[2] + k);
if (!kv[2]->inSpan(kz, ijk[2]+orders[2]))
{
o += (orders[0] + 1)*(orders[1] + 1);
continue;
}
ip.z = kv[2]->GetRefPoint(kz, ijk[2]+orders[2]);
for (int j = 0; j <= orders[1]; j++)
{
real_t ky = kv[1]->GetBotella(ijk[1] + j);
if (!kv[1]->inSpan(ky, ijk[1]+orders[1]))
{
o += orders[0] + 1;
continue;
}
ip.y = kv[1]->GetRefPoint(ky, ijk[1]+orders[1]);
for (int i = 0; i <= orders[0]; i++, o++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+orders[0])) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+orders[0]);
Trans.SetIntPoint(&ip);
dofs(o) = coeff.Eval(Trans, ip);
}
}
}
}
void NURBS3DFiniteElement::Project(VectorCoefficient &vc,
ElementTransformation &Trans,
Vector &dofs) const
{
MFEM_ASSERT(dofs.Size() == vc.GetVDim()*dof, "");
Vector x(vc.GetVDim());
IntegrationPoint ip;
for (int o = 0, k = 0; k <= orders[2]; k++)
{
real_t kz = kv[2]->GetBotella(ijk[2] + k);
if (!kv[2]->inSpan(kz, ijk[2]+orders[2]))
{
o += (orders[0] + 1)*(orders[1] + 1);
continue;
}
ip.z = kv[2]->GetRefPoint(kz, ijk[2]+orders[2]);
for (int j = 0; j <= orders[1]; j++)
{
real_t ky = kv[1]->GetBotella(ijk[1] + j);
if (!kv[1]->inSpan(ky, ijk[1]+orders[1]))
{
o += orders[0] + 1;
continue;
}
ip.y = kv[1]->GetRefPoint(ky, ijk[1]+orders[1]);
for (int i = 0; i <= orders[0]; i++, o++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+orders[0])) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+orders[0]);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
for (int v = 0; v < x.Size(); v++)
{
dofs(dof*v+o) = x(v);
}
}
}
}
}
void NURBS_HDiv2DFiniteElement::SetOrder() const
{
@@ -692,63 +517,6 @@ void NURBS_HDiv2DFiniteElement::CalcDivShape(const IntegrationPoint &ip,
}
}
void NURBS_HDiv2DFiniteElement::Project(VectorCoefficient &vc,
ElementTransformation &Trans,
Vector &dofs) const
{
MFEM_ASSERT(dofs.Size() == dof, "");
MFEM_ASSERT(vc.GetVDim() == 2, "");
Vector x(2), mx(2);
IntegrationPoint ip;
int o = 0;
for (int j = 0; j <= orders[1]; j++)
{
real_t ky = kv[1]->GetBotella(ijk[1] + j);
if (!kv[1]->inSpan(ky, ijk[1]+orders[1]))
{
o += orders[0] + 2;
continue;
}
ip.y = kv[1]->GetRefPoint(ky, ijk[1]+orders[1]);
for (int i = 0; i <= orders[0]+1; i++, o++)
{
real_t kx = kv1[0]->GetBotella(ijk[0] + i);
if (!kv1[0]->inSpan(kx, ijk[0]+orders[0]+1)) { continue; }
ip.x = kv1[0]->GetRefPoint(kx, ijk[0]+orders[0]+1);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
Trans.AdjugateJacobian().Mult(x,mx);
dofs(o) = mx(0);
}
}
for (int j = 0; j <= orders[1]+1; j++)
{
real_t ky = kv1[1]->GetBotella(ijk[1] + j);
if (!kv1[1]->inSpan(ky, ijk[1]+orders[1]+1))
{
o += orders[0] + 1;
continue;
}
ip.y = kv1[1]->GetRefPoint(ky, ijk[1]+orders[1]+1);
for (int i = 0; i <= orders[0]; i++, o++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+orders[0])) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+orders[0]);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
Trans.AdjugateJacobian().Mult(x,mx);
dofs(o) = mx(1);
}
}
}
NURBS_HDiv2DFiniteElement::~NURBS_HDiv2DFiniteElement()
{
if (kv1[0]) { delete kv1[0]; }
@@ -928,120 +696,6 @@ void NURBS_HDiv3DFiniteElement::CalcDivShape(const IntegrationPoint &ip,
}
}
void NURBS_HDiv3DFiniteElement::Project(VectorCoefficient &vc,
ElementTransformation &Trans,
Vector &dofs) const
{
MFEM_ASSERT(dofs.Size() == dof, "");
MFEM_ASSERT(vc.GetVDim() == 3, "");
Vector x(2), mx(3);
IntegrationPoint ip;
int o = 0;
for (int k = 0; k <= orders[2]; k++)
{
real_t kz = kv[2]->GetBotella(ijk[2] + k);
if (!kv[2]->inSpan(kz, ijk[2]+orders[2]))
{
o += (orders[0] + 2)*(orders[1] + 1);
continue;
}
ip.z = kv[2]->GetRefPoint(kz, ijk[2]+orders[2]);
for (int j = 0; j <= orders[1]; j++)
{
real_t ky = kv[1]->GetBotella(ijk[1] + j);
if (!kv[1]->inSpan(ky, ijk[1]+orders[1]))
{
o += orders[0] + 2;
continue;
}
ip.y = kv[1]->GetRefPoint(ky, ijk[1]+orders[1]);
for (int i = 0; i <= orders[0]+1; i++, o++)
{
real_t kx = kv1[0]->GetBotella(ijk[0] + i);
if (!kv1[0]->inSpan(kx, ijk[0]+orders[0]+1)) { continue; }
ip.x = kv1[0]->GetRefPoint(kx, ijk[0]+orders[0]+1);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
Trans.AdjugateJacobian().Mult(x,mx);
dofs(o) = mx(0);
}
}
}
for (int k = 0; k <= orders[2]; k++)
{
real_t kz = kv[2]->GetBotella(ijk[2] + k);
if (!kv[2]->inSpan(kz, ijk[2]+orders[2]))
{
o += (orders[0] + 1)*(orders[1] + 2);
continue;
}
ip.z = kv[2]->GetRefPoint(kz, ijk[2]+orders[2]);
for (int j = 0; j <= orders[1]+1; j++)
{
real_t ky = kv1[1]->GetBotella(ijk[1] + j);
if (!kv1[1]->inSpan(ky, ijk[1]+orders[1]+1))
{
o += orders[0] + 1;
continue;
}
ip.y = kv1[1]->GetRefPoint(ky, ijk[1]+orders[1]+1);
for (int i = 0; i <= orders[0]; i++, o++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+orders[0])) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+orders[0]);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
Trans.AdjugateJacobian().Mult(x,mx);
dofs(o) = mx(1);
}
}
}
for (int k = 0; k <= orders[2]+1; k++)
{
real_t kz = kv1[2]->GetBotella(ijk[2] + k);
if (!kv1[2]->inSpan(kz, ijk[2]+orders[2]+1))
{
o += (orders[0] + 1)*(orders[1] + 1);
continue;
}
ip.z = kv1[2]->GetRefPoint(kz, ijk[2]+orders[2]+1);
for (int j = 0; j <= orders[1]; j++)
{
real_t ky = kv[1]->GetBotella(ijk[1] + j);
if (!kv[1]->inSpan(ky, ijk[1]+orders[1]))
{
o += orders[0] + 1;
continue;
}
ip.y = kv[1]->GetRefPoint(ky, ijk[1]+orders[1]);
for (int i = 0; i <= orders[0]; i++, o++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+orders[0])) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+orders[0]);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
Trans.AdjugateJacobian().Mult(x,mx);
dofs(o) = mx(2);
}
}
}
}
NURBS_HDiv3DFiniteElement::~NURBS_HDiv3DFiniteElement()
{
if (kv1[0]) { delete kv1[0]; }
@@ -1163,68 +817,13 @@ void NURBS_HCurl2DFiniteElement::CalcCurlShape(const IntegrationPoint &ip,
}
}
void NURBS_HCurl2DFiniteElement::Project(VectorCoefficient &vc,
ElementTransformation &Trans,
Vector &dofs) const
{
MFEM_ASSERT(dofs.Size() == dof, "");
MFEM_ASSERT(vc.GetVDim() == 2, "");
Vector x(2), xm(2);
IntegrationPoint ip;
int i, j, o;
for (o = 0, j = 0; j <= orders[1]+1; j++)
{
real_t ky = kv1[1]->GetBotella(ijk[1] + j);
if (!kv1[1]->inSpan(ky, ijk[1]+orders[1]+1))
{
o += orders[0] + 1;
continue;
}
ip.y = kv1[1]->GetRefPoint(ky, ijk[1]+orders[1]+1);
for (i = 0; i <= orders[0]; i++, o++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+orders[0])) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+orders[0]);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
Trans.Jacobian().MultTranspose(x,xm);
dofs(o) = xm(0);
}
}
for (j = 0; j <= orders[1]; j++)
{
real_t ky = kv[1]->GetBotella(ijk[1] + j);
if (!kv[1]->inSpan(ky, ijk[1]+orders[1]))
{
o += orders[0] + 2;
continue;
}
ip.y = kv[1]->GetRefPoint(ky, ijk[1]+orders[1]);
for (i = 0; i <= orders[0]+1; i++, o++)
{
real_t kx = kv1[0]->GetBotella(ijk[0] + i);
if (!kv1[0]->inSpan(kx, ijk[0]+orders[0]+1)) { continue; }
ip.x = kv1[0]->GetRefPoint(kx, ijk[0]+orders[0]+1);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
Trans.Jacobian().MultTranspose(x,xm);
dofs(o) = xm(1);
}
}
}
NURBS_HCurl2DFiniteElement::~NURBS_HCurl2DFiniteElement()
{
if (kv1[0]) { delete kv1[0]; }
if (kv1[1]) { delete kv1[1]; }
}
void NURBS_HCurl3DFiniteElement::SetOrder() const
{
orders[0] = kv[0]->GetOrder();
@@ -1404,124 +1003,11 @@ void NURBS_HCurl3DFiniteElement::CalcCurlShape(const IntegrationPoint &ip,
curl_shape(o,0) = shape1_x(i)*dsy1_sz;
curl_shape(o,1) = -dshape1_x(i)*sy1_sz;
curl_shape(o,2) = 0.0;
}
}
}
}
void NURBS_HCurl3DFiniteElement::Project(VectorCoefficient &vc,
ElementTransformation &Trans,
Vector &dofs) const
{
MFEM_ASSERT(dofs.Size() == dof, "");
MFEM_ASSERT(vc.GetVDim() == 3, "");
Vector x(3), xm(3);
IntegrationPoint ip;
int o = 0;
for (int k = 0; k <= orders[2]+1; k++)
{
real_t kz = kv1[2]->GetBotella(ijk[2] + k);
if (!kv1[2]->inSpan(kz, ijk[2]+orders[2]+1))
{
o += (orders[0] + 1)*(orders[1] + 2);
continue;
}
ip.z = kv1[2]->GetRefPoint(kz, ijk[2]+orders[2]+1);
for (int j = 0; j <= orders[1]+1; j++)
{
real_t ky = kv1[1]->GetBotella(ijk[1] + j);
if (!kv1[1]->inSpan(ky, ijk[1]+orders[1]+1))
{
o += orders[0] + 1;
continue;
}
ip.y = kv1[1]->GetRefPoint(ky, ijk[1]+orders[1]+1);
for (int i = 0; i <= orders[0]; i++, o++)
{
real_t kx = kv[0]->GetBotella(ijk[0] + i);
if (!kv[0]->inSpan(kx, ijk[0]+orders[0])) { continue; }
ip.x = kv[0]->GetRefPoint(kx, ijk[0]+orders[0]);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
Trans.Jacobian().MultTranspose(x,xm);
dofs(o) = xm(0);
}
}
}
for (int k = 0; k <= orders[2]+1; k++)
{
real_t kz = kv1[2]->GetBotella(ijk[2] + k);
if (!kv1[2]->inSpan(kz, ijk[2]+orders[2]+1))
{
o += (orders[0] + 2)*(orders[1] + 1);
continue;
}
ip.z = kv1[2]->GetRefPoint(kz, ijk[2]+orders[2]+1);
for (int j = 0; j <= orders[1]; j++)
{
real_t ky = kv[1]->GetBotella(ijk[1] + j);
if (!kv[1]->inSpan(ky, ijk[1]+orders[1]))
{
o += orders[0] + 2;
continue;
}
ip.y = kv[1]->GetRefPoint(ky, ijk[1]+orders[1]);
for (int i = 0; i <= orders[0]+1; i++, o++)
{
real_t kx = kv1[0]->GetBotella(ijk[0] + i);
if (!kv1[0]->inSpan(kx, ijk[0]+orders[0]+1)) { continue; }
ip.x = kv1[0]->GetRefPoint(kx, ijk[0]+orders[0]+1);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
Trans.Jacobian().MultTranspose(x,xm);
dofs(o) = xm(1);
}
}
}
for (int k = 0; k <= orders[2]; k++)
{
real_t kz = kv[2]->GetBotella(ijk[2] + k);
if (!kv[2]->inSpan(kz, ijk[2]+orders[2]))
{
o += (orders[0] + 2)*(orders[1] + 2);
continue;
}
ip.z = kv[2]->GetRefPoint(kz, ijk[2]+orders[2]);
for (int j = 0; j <= orders[1]+1; j++)
{
real_t ky = kv1[1]->GetBotella(ijk[1] + j);
if (!kv1[1]->inSpan(ky, ijk[1]+orders[1]+1))
{
o += orders[0] + 2;
continue;
}
ip.y = kv1[1]->GetRefPoint(ky, ijk[1]+orders[1]+1);
for (int i = 0; i <= orders[0]+1; i++, o++)
{
real_t kx = kv1[0]->GetBotella(ijk[0] + i);
if (!kv1[0]->inSpan(kx, ijk[0]+orders[0]+1)) { continue; }
ip.x = kv1[0]->GetRefPoint(kx, ijk[0]+orders[0]+1);
Trans.SetIntPoint(&ip);
vc.Eval(x, Trans, ip);
Trans.Jacobian().MultTranspose(x,xm);
dofs(o) = xm(2);
}
}
}
}
NURBS_HCurl3DFiniteElement::~NURBS_HCurl3DFiniteElement()
{
if (kv1[0]) { delete kv1[0]; }

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