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6 Commits
111 changed files with 1306 additions and 17507 deletions
-2
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@@ -57,8 +57,6 @@ examples/ex2[0-9]
examples/ex2[0-9]p
examples/ex3[0-9]
examples/ex3[0-9]p
examples/ex4[0-9]
examples/ex4[0-9]p
examples/refined.mesh
examples/displaced.mesh
-3
View File
@@ -13,9 +13,6 @@
# 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
-4
View File
@@ -9,10 +9,6 @@
# 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:
+4 -3
View File
@@ -35,8 +35,9 @@ variables:
- 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.
# pre-allocation the same way slurm does. We use pdebug queue on lassen
# to speed-up the allocation. However this would not be scalable to
# multiple builds.
.build_and_test_on_lassen:
extends: [.on_lassen]
stage: build_and_test
@@ -44,5 +45,5 @@ variables:
- 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 "${MFEM_DATA_DIR}" --data
- lalloc 1 -W 45 -q pdebug --atsdisable tests/gitlab/build_and_test --spec "${SPEC}" --data-dir "${MFEM_DATA_DIR}" --data
needs: [setup]
+1 -1
View File
@@ -52,4 +52,4 @@ variables:
- echo ${JOBID}
- echo ${MFEM_DATA_DIR}
- echo ${SPEC}
- srun $( [[ -n "${JOBID}" ]] && echo "--jobid=${JOBID}" ) --reservation=ci -t 45 -N 1 tests/gitlab/build_and_test --spec "${SPEC}" --data-dir "${MFEM_DATA_DIR}" --data
- srun $( [[ -n "${JOBID}" ]] && echo "--jobid=${JOBID}" ) -t 45 -N 1 tests/gitlab/build_and_test --spec "${SPEC}" --data-dir "${MFEM_DATA_DIR}" --data
+4 -4
View File
@@ -14,14 +14,14 @@ stages:
- build_and_test
- report
opt_mpi_cuda_gcc:
opt_mpi_cuda_xl_16_1_1_12:
variables:
SPEC: "%gcc@8.3.1 +mpi +cuda cuda_arch=70"
SPEC: "%xl@16.1.1.12 +mpi +cuda cuda_arch=70"
extends: .build_and_test_on_lassen
opt_mpi_cuda_hypre_cuda_gcc:
opt_mpi_cuda_hypre_cuda_xl:
variables:
SPEC: "%gcc@8.3.1 +mpi +cuda cuda_arch=70 ^hypre+cuda~shared cuda_arch=70"
SPEC: "%xl@16.1.1.12 +mpi +cuda cuda_arch=70 ^hypre+cuda~shared cuda_arch=70"
extends: .build_and_test_on_lassen
# Jobs report
+2 -2
View File
@@ -32,11 +32,11 @@ mkdir _${BASELINE_TEST} && cd _${BASELINE_TEST}
# run
if [[ "${MACHINE_NAME}" == "quartz" || "${MACHINE_NAME}" == "ruby" ]]; then
salloc --nodes=1 --reservation=ci ../runtest ../../mfem "${BASELINE_TEST} ${TPLS_DIR}"
salloc --nodes=1 -p pdebug ../runtest ../../mfem "${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} ${TPLS_DIR}"
lalloc 1 -q pdebug ../runtest ../../mfem "${BASELINE_TEST} ${TPLS_DIR}"
else
echo "Unknown machine: MACHINE_NAME=$MACHINE_NAME"
exit 1
-5
View File
@@ -11,11 +11,6 @@
Version 4.7.1 (development)
===========================
- Added an MFEM example for the eikonal equation. This new solver is based on
the proximal Galerkin method introduced by Keith and Surowiec.
- API change: in class GridFunction, 'fec' was renamed to 'fec_owned'.
Version 4.7, released on May 7, 2024
====================================
-102
View File
@@ -1,102 +0,0 @@
MFEM mesh v1.0
dimension
4
elements
24
1 7 4 5 8 11 13
1 7 1 4 5 7 8
1 7 1 4 5 8 11
1 7 1 5 8 11 13
1 7 1 5 7 8 13
1 7 4 5 7 8 13
1 7 1 3 4 8 11
1 7 1 3 4 5 11
1 7 1 5 10 11 13
1 7 1 8 10 11 13
1 7 1 3 5 10 11
1 7 1 2 3 5 10
1 7 0 1 3 4 8
1 7 0 1 4 7 8
1 7 1 5 6 7 13
1 7 1 6 7 8 13
1 7 6 7 8 13 15
1 7 4 7 8 13 15
1 7 4 8 12 13 15
1 7 4 8 11 12 13
1 7 6 8 13 14 15
1 7 1 6 8 13 14
1 7 1 8 9 10 13
1 7 1 8 9 13 14
boundary
48
1 4 0 1 3 4
1 4 0 1 3 8
1 4 0 3 4 8
1 4 0 1 4 7
1 4 0 1 7 8
1 4 0 4 7 8
1 4 1 4 5 7
1 4 1 3 8 11
1 4 1 3 4 5
1 4 1 5 10 13
1 4 1 8 10 11
1 4 1 3 10 11
1 4 1 2 3 5
1 4 1 2 3 10
1 4 1 2 5 10
1 4 1 5 6 7
1 4 1 5 6 13
1 4 1 6 7 8
1 4 1 6 8 14
1 4 1 6 13 14
1 4 1 8 9 10
1 4 1 9 10 13
1 4 1 8 9 14
1 4 1 9 13 14
1 4 2 3 5 10
1 4 3 4 8 11
1 4 3 4 5 11
1 4 3 5 10 11
1 4 4 5 11 13
1 4 4 5 7 13
1 4 4 7 8 15
1 4 4 7 13 15
1 4 4 8 12 15
1 4 4 12 13 15
1 4 4 8 11 12
1 4 4 11 12 13
1 4 5 10 11 13
1 4 5 6 7 13
1 4 6 7 8 15
1 4 6 7 13 15
1 4 6 8 14 15
1 4 6 13 14 15
2 4 8 10 11 13
2 4 8 12 13 15
2 4 8 11 12 13
2 4 8 13 14 15
2 4 8 9 10 13
2 4 8 9 13 14
vertices
16
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0.0000000000000000 0.0000000000000000 1.0000000000000000 1.0000000000000000
-102
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@@ -1,102 +0,0 @@
MFEM mesh v1.0
dimension
4
elements
24
17 8 4 5 8 11 13
11 8 1 4 5 7 8
15 8 1 4 5 8 11
16 8 1 5 8 11 13
12 8 1 5 7 8 13
13 8 4 5 7 8 13
7 8 1 3 4 8 11
2 8 1 3 4 5 11
4 8 1 5 10 11 13
10 8 1 8 10 11 13
3 8 1 3 5 10 11
1 8 1 2 3 5 10
6 8 0 1 3 4 8
8 8 0 1 4 7 8
5 8 1 5 6 7 13
20 8 1 6 7 8 13
19 8 6 7 8 13 15
14 8 4 7 8 13 15
21 8 4 8 12 13 15
22 8 4 8 11 12 13
23 8 6 8 13 14 15
24 8 1 6 8 13 14
9 8 1 8 9 10 13
18 8 1 8 9 13 14
boundary
48
1 4 0 1 3 4
3 4 0 1 3 8
3 4 0 3 4 8
1 4 0 1 4 7
3 4 0 1 7 8
3 4 0 4 7 8
1 4 1 4 5 7
3 4 1 3 8 11
1 4 1 3 4 5
3 4 1 5 10 13
3 4 1 8 10 11
3 4 1 3 10 11
1 4 1 2 3 5
3 4 1 2 3 10
3 4 1 2 5 10
1 4 1 5 6 7
3 4 1 5 6 13
3 4 1 6 7 8
3 4 1 6 8 14
3 4 1 6 13 14
3 4 1 8 9 10
3 4 1 9 10 13
3 4 1 8 9 14
3 4 1 9 13 14
3 4 2 3 5 10
3 4 3 4 8 11
3 4 3 4 5 11
3 4 3 5 10 11
3 4 4 5 11 13
3 4 4 5 7 13
3 4 4 7 8 15
3 4 4 7 13 15
3 4 4 8 12 15
3 4 4 12 13 15
3 4 4 8 11 12
3 4 4 11 12 13
3 4 5 10 11 13
3 4 5 6 7 13
3 4 6 7 8 15
3 4 6 7 13 15
3 4 6 8 14 15
3 4 6 13 14 15
5 4 8 10 11 13
5 4 8 12 13 15
5 4 8 11 12 13
5 4 8 13 14 15
5 4 8 9 10 13
5 4 8 9 13 14
vertices
16
4
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1.0000000000000000 1.0000000000000000 1.0000000000000000 1.0000000000000000
1.0000000000000000 0.0000000000000000 1.0000000000000000 1.0000000000000000
0.0000000000000000 0.0000000000000000 1.0000000000000000 1.0000000000000000
-231
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@@ -1,231 +0,0 @@
MFEM mesh v1.0
dimension
4
elements
96
1 8 0 1 7 8 9
1 8 1 6 7 8 9
1 8 4 5 6 8 9
1 8 4 6 7 8 9
1 8 0 1 3 8 9
1 8 1 2 3 8 9
1 8 0 4 7 8 9
1 8 0 3 4 8 9
1 8 1 2 6 8 9
1 8 2 5 6 8 9
1 8 3 4 5 8 9
1 8 2 3 5 8 9
1 8 9 10 11 17 18
1 8 9 11 16 17 18
1 8 9 14 15 16 18
1 8 9 14 16 17 18
1 8 9 10 11 13 18
1 8 9 11 12 13 18
1 8 9 10 14 17 18
1 8 9 10 13 14 18
1 8 9 11 12 16 18
1 8 9 12 15 16 18
1 8 9 13 14 15 18
1 8 9 12 13 15 18
1 8 9 12 15 16 19
1 8 9 11 12 16 19
1 8 1 6 9 11 19
1 8 6 9 11 16 19
1 8 1 2 6 9 19
1 8 2 5 6 9 19
1 8 2 5 9 15 19
1 8 2 9 12 15 19
1 8 5 6 9 16 19
1 8 5 9 15 16 19
1 8 1 9 11 12 19
1 8 1 2 9 12 19
1 8 9 10 13 14 20
1 8 9 10 14 17 20
1 8 0 9 10 17 20
1 8 0 7 9 17 20
1 8 0 3 4 9 20
1 8 0 4 7 9 20
1 8 3 4 9 13 20
1 8 4 9 13 14 20
1 8 4 7 9 14 20
1 8 7 9 14 17 20
1 8 0 3 9 10 20
1 8 3 9 10 13 20
1 8 2 5 9 15 21
1 8 2 9 12 15 21
1 8 2 3 5 9 21
1 8 3 4 5 9 21
1 8 9 13 14 15 21
1 8 9 12 13 15 21
1 8 4 5 9 14 21
1 8 5 9 14 15 21
1 8 2 3 9 12 21
1 8 3 9 12 13 21
1 8 3 4 9 13 21
1 8 4 9 13 14 21
1 8 1 6 9 11 22
1 8 6 9 11 16 22
1 8 6 7 9 16 22
1 8 7 9 16 17 22
1 8 0 7 9 17 22
1 8 0 9 10 17 22
1 8 0 1 9 10 22
1 8 1 9 10 11 22
1 8 0 1 7 9 22
1 8 1 6 7 9 22
1 8 9 10 11 17 22
1 8 9 11 16 17 22
1 8 5 9 15 16 23
1 8 5 6 9 16 23
1 8 6 7 9 16 23
1 8 7 9 16 17 23
1 8 7 9 14 17 23
1 8 4 7 9 14 23
1 8 4 5 9 14 23
1 8 5 9 14 15 23
1 8 4 6 7 9 23
1 8 4 5 6 9 23
1 8 9 14 15 16 23
1 8 9 14 16 17 23
1 8 1 2 9 12 24
1 8 1 9 11 12 24
1 8 0 1 9 10 24
1 8 1 9 10 11 24
1 8 0 3 9 10 24
1 8 3 9 10 13 24
1 8 2 3 9 12 24
1 8 3 9 12 13 24
1 8 1 2 3 9 24
1 8 0 1 3 9 24
1 8 9 10 11 13 24
1 8 9 11 12 13 24
boundary
96
1 4 0 1 7 8
1 4 0 1 3 8
1 4 0 4 7 8
1 4 0 3 4 8
2 4 0 10 17 20
2 4 0 7 17 20
2 4 0 3 4 20
2 4 0 4 7 20
2 4 0 3 10 20
2 4 0 7 17 22
2 4 0 10 17 22
2 4 0 1 10 22
2 4 0 1 7 22
2 4 0 1 10 24
2 4 0 3 10 24
2 4 0 1 3 24
1 4 1 6 7 8
1 4 1 2 3 8
1 4 1 2 6 8
2 4 1 6 11 19
2 4 1 2 6 19
2 4 1 11 12 19
2 4 1 2 12 19
2 4 1 6 11 22
2 4 1 10 11 22
2 4 1 6 7 22
2 4 1 2 12 24
2 4 1 11 12 24
2 4 1 10 11 24
2 4 1 2 3 24
1 4 2 5 6 8
1 4 2 3 5 8
2 4 2 5 6 19
2 4 2 5 15 19
2 4 2 12 15 19
2 4 2 5 15 21
2 4 2 12 15 21
2 4 2 3 5 21
2 4 2 3 12 21
2 4 2 3 12 24
1 4 3 4 5 8
2 4 3 4 13 20
2 4 3 10 13 20
2 4 3 4 5 21
2 4 3 12 13 21
2 4 3 4 13 21
2 4 3 10 13 24
2 4 3 12 13 24
1 4 4 5 6 8
1 4 4 6 7 8
2 4 4 13 14 20
2 4 4 7 14 20
2 4 4 5 14 21
2 4 4 13 14 21
2 4 4 7 14 23
2 4 4 5 14 23
2 4 4 6 7 23
2 4 4 5 6 23
2 4 5 6 16 19
2 4 5 15 16 19
2 4 5 14 15 21
2 4 5 15 16 23
2 4 5 6 16 23
2 4 5 14 15 23
2 4 6 11 16 19
2 4 6 11 16 22
2 4 6 7 16 22
2 4 6 7 16 23
2 4 7 14 17 20
2 4 7 16 17 22
2 4 7 16 17 23
2 4 7 14 17 23
3 4 10 11 17 18
3 4 10 11 13 18
3 4 10 14 17 18
3 4 10 13 14 18
2 4 10 13 14 20
2 4 10 14 17 20
2 4 10 11 17 22
2 4 10 11 13 24
3 4 11 16 17 18
3 4 11 12 13 18
3 4 11 12 16 18
2 4 11 12 16 19
2 4 11 16 17 22
2 4 11 12 13 24
3 4 12 15 16 18
3 4 12 13 15 18
2 4 12 15 16 19
2 4 12 13 15 21
3 4 13 14 15 18
2 4 13 14 15 21
3 4 14 15 16 18
3 4 14 16 17 18
2 4 14 15 16 23
2 4 14 16 17 23
vertices
25
4
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1.0000000000000000 0.5000000000000000 0.5000000000000000 0.5000000000000000
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0.5000000000000000 0.5000000000000000 0.0000000000000000 0.5000000000000000
-36
View File
@@ -1,36 +0,0 @@
MFEM mesh v1.0
#
# MFEM Geometry Types (see mesh/geom.hpp):
#
# POINT = 0
# SEGMENT = 1
# TRIANGLE = 2
# SQUARE = 3
# TETRAHEDRON = 4
# CUBE = 5
# PRISM = 6
#
dimension
2
elements
2
1 2 2 0 1
1 2 0 2 3
boundary
4
1 1 0 1
1 1 1 2
2 1 2 3
1 1 3 0
vertices
4
2
0 0
1 0
1 1
0 1
-52
View File
@@ -1,52 +0,0 @@
MFEM mesh v1.0
#
# MFEM Geometry Types (see mesh/geom.hpp):
#
# POINT = 0
# SEGMENT = 1
# TRIANGLE = 2
# SQUARE = 3
# TETRAHEDRON = 4
# CUBE = 5
# PRISM = 6
#
dimension
3
elements
6
1 4 3 1 7 5
1 4 1 6 7 4
1 4 6 1 0 2
1 4 1 6 4 2
1 4 6 1 3 0
1 4 1 6 3 7
boundary
12
1 2 6 0 3
1 2 0 6 2
1 2 1 3 0
1 2 3 1 5
1 2 3 7 6
1 2 7 3 5
1 2 4 6 7
1 2 6 4 2
2 2 1 7 5
2 2 7 1 4
1 2 1 2 4
1 2 2 1 0
vertices
8
3
0 0 0
0 0 1
1 0 0
0 1 0
1 0 1
0 1 1
1 1 0
1 1 1
+2 -2
View File
@@ -1208,13 +1208,13 @@ STRIP_CODE_COMMENTS = NO
# entity all documented functions referencing it will be listed.
# The default value is: NO.
REFERENCED_BY_RELATION = YES
REFERENCED_BY_RELATION = NO
# If the REFERENCES_RELATION tag is set to YES then for each documented function
# all documented entities called/used by that function will be listed.
# The default value is: NO.
REFERENCES_RELATION = YES
REFERENCES_RELATION = NO
# If the REFERENCES_LINK_SOURCE tag is set to YES and SOURCE_BROWSER tag is set
# to YES then the hyperlinks from functions in REFERENCES_RELATION and
+1 -3
View File
@@ -114,9 +114,7 @@ namespace mfem {
* - <a class="el" href="ex37p_8cpp_source.html">Example 37p</a>: parallel topology optimization
* - <a class="el" href="ex38_8cpp_source.html">Example 38</a>: cut-surface and cut-volume integration
* - <a class="el" href="ex39_8cpp_source.html">Example 39</a>: named mesh attributes
* - <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="ex39p_8cpp_source.html">Example 39</a>: parallel named mesh attributes
*
* <H4>AmgX Examples</H4>
* - Variants of Examples
+3 -13
View File
@@ -45,7 +45,6 @@ list(APPEND ALL_EXE_SRCS
ex37.cpp
ex38.cpp
ex39.cpp
ex40.cpp
)
if (MFEM_USE_MPI)
@@ -73,9 +72,6 @@ if (MFEM_USE_MPI)
ex20p.cpp
ex21p.cpp
ex22p.cpp
ex1p_4d.cpp
ex3p_4d.cpp
ex4D_DivSkew.cpp
ex24p.cpp
ex25p.cpp
ex26p.cpp
@@ -91,7 +87,6 @@ if (MFEM_USE_MPI)
ex36p.cpp
ex37p.cpp
ex39p.cpp
ex40p.cpp
)
endif()
@@ -151,10 +146,10 @@ if (MFEM_ENABLE_TESTING)
# Add CUDA/HIP tests.
set(DEVICE_EXAMPLES
# serial examples with device support:
ex1 ex3 ex4 ex5 ex6 ex9 ex14 ex22 ex24 ex25 ex26 ex34
ex1 ex3 ex4 ex5 ex6 ex9 ex22 ex24 ex25 ex26 ex34
# parallel examples with device support:
ex1p ex2p ex3p ex4p ex5p ex6p ex7p ex9p ex13p ex14p ex22p ex24p ex25p
ex26p ex34p ex35p)
ex1p ex2p ex3p ex4p ex5p ex6p ex7p ex9p ex13p ex22p ex24p ex25p ex26p
ex34p ex35p)
set(MFEM_TEST_DEVICE)
if (MFEM_USE_CUDA)
set(MFEM_TEST_DEVICE "cuda")
@@ -164,11 +159,6 @@ if (MFEM_ENABLE_TESTING)
if (MFEM_TEST_DEVICE)
foreach(TEST_NAME ${DEVICE_EXAMPLES})
set(THIS_TEST_OPTIONS "-no-vis" "-d" "${MFEM_TEST_DEVICE}")
if (${TEST_NAME} MATCHES "ex14p")
list(APPEND THIS_TEST_OPTIONS "-rs" "2" "-rp" "0" "-pa")
elseif (${TEST_NAME} MATCHES "ex14")
list(APPEND THIS_TEST_OPTIONS "-r" "2" "-pa")
endif()
if (NOT (${TEST_NAME} MATCHES ".*p$"))
add_test(NAME ${TEST_NAME}_${MFEM_TEST_DEVICE}_ser
COMMAND ${TEST_NAME} ${THIS_TEST_OPTIONS})
+9 -27
View File
@@ -20,7 +20,6 @@
// ex14 -m ../data/fichera-amr.mesh
// ex14 -pa -r 1 -o 3
// ex14 -pa -r 1 -o 3 -m ../data/fichera.mesh
// ex14 -m ../data/inline-tet.mesh -o 0 -nt 4 -s 1
//
// Device sample runs:
// ex14 -pa -r 2 -d cuda -o 3
@@ -56,16 +55,10 @@ int main(int argc, char *argv[])
bool pa = false;
bool visualization = 1;
const char *device_config = "cpu";
int nt = 0;
double st = 1.0;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&nt, "-nt", "--number-of-timeslices",
"Number of slices through the hyper-prism in the 4th coordinate.");
args.AddOption(&st, "-st", "--size-time",
"Length of hyper-prims in 4th coordinate (e.g. time).");
args.AddOption(&ref_levels, "-r", "--refine",
"Number of times to refine the mesh uniformly, -1 for auto.");
args.AddOption(&order, "-o", "--order",
@@ -104,17 +97,8 @@ int main(int argc, char *argv[])
// 3. Read the mesh from the given mesh file. We can handle triangular,
// quadrilateral, tetrahedral and hexahedral meshes with the same code.
// NURBS meshes are projected to second order meshes.
Mesh *mesh = new Mesh(mesh_file, 1, 1);
int dim = mesh->Dimension();
if (dim == 3 && nt > 0)
{
Mesh* spat_mesh = mesh;
mesh = new Mesh(spat_mesh, nt, Element::PENTATOPE, true, st);
delete spat_mesh;
ref_levels = 0;
dim = 4;
}
Mesh mesh(mesh_file);
const int dim = mesh.Dimension();
// 4. Refine the mesh to increase the resolution. In this example we do
// 'ref_levels' of uniform refinement. By default, or if ref_levels < 0,
@@ -123,23 +107,23 @@ int main(int argc, char *argv[])
{
if (ref_levels < 0)
{
ref_levels = (int)floor(log(50000./mesh->GetNE())/log(2.)/(dim < 4 ? dim : 1.));
ref_levels = (int)floor(log(50000./mesh.GetNE())/log(2.)/dim);
}
for (int l = 0; l < ref_levels; l++)
{
mesh->UniformRefinement();
mesh.UniformRefinement();
}
}
if (mesh->NURBSext)
if (mesh.NURBSext)
{
mesh->SetCurvature(max(order, 1));
mesh.SetCurvature(max(order, 1));
}
// 5. Define a finite element space on the mesh. Here we use discontinuous
// finite elements of the specified order >= 0.
const auto bt = pa ? BasisType::GaussLobatto : BasisType::GaussLegendre;
DG_FECollection fec(order, dim, bt);
FiniteElementSpace fespace(mesh, &fec);
FiniteElementSpace fespace(&mesh, &fec);
cout << "Number of unknowns: " << fespace.GetVSize() << endl;
// 6. Set up the linear form b(.) which corresponds to the right-hand side of
@@ -214,7 +198,7 @@ int main(int argc, char *argv[])
// later using GLVis: "glvis -m refined.mesh -g sol.gf".
ofstream mesh_ofs("refined.mesh");
mesh_ofs.precision(8);
mesh->Print(mesh_ofs);
mesh.Print(mesh_ofs);
ofstream sol_ofs("sol.gf");
sol_ofs.precision(8);
x.Save(sol_ofs);
@@ -226,10 +210,8 @@ int main(int argc, char *argv[])
int visport = 19916;
socketstream sol_sock(vishost, visport);
sol_sock.precision(8);
sol_sock << "solution\n" << *mesh << x << flush;
sol_sock << "solution\n" << mesh << x << flush;
}
delete mesh;
return 0;
}
+8 -24
View File
@@ -19,7 +19,6 @@
// mpirun -np 4 ex14p -m ../data/amr-hex.mesh
// mpirun -np 4 ex14p -pa -rs 1 -rp 0 -o 3
// mpirun -np 4 ex14p -pa -rs 1 -rp 0 -m ../data/fichera.mesh -o 3
// mpirun -np 4 ex14p -m ../data/inline-tet.mesh -o 0 -nt 4 -s 1
//
// Device sample runs:
// mpirun -np 4 ex14p -pa -rs 2 -rp 0 -d cuda -o 3
@@ -91,16 +90,10 @@ int main(int argc, char *argv[])
bool pa = false;
bool visualization = 1;
const char *device_config = "cpu";
int nt = 0;
double st = 1.0;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&nt, "-nt", "--number-of-timeslices",
"Number of slices through the hyper-prism in the 4th coordinate.");
args.AddOption(&st, "-st", "--size-time",
"Length of hyper-prims in 4th coordinate (e.g. time).");
args.AddOption(&ser_ref_levels, "-rs", "--refine-serial",
"Number of times to refine the mesh uniformly in serial,"
" -1 for auto.");
@@ -146,17 +139,8 @@ int main(int argc, char *argv[])
// 3. Read the (serial) mesh from the given mesh file on all processors. We
// can handle triangular, quadrilateral, tetrahedral and hexahedral meshes
// with the same code. NURBS meshes are projected to second order meshes.
Mesh *mesh = new Mesh(mesh_file, 1, 1);
int dim = mesh->Dimension();
if (dim == 3 && nt > 0)
{
Mesh* spat_mesh = mesh;
mesh = new Mesh(spat_mesh, nt, Element::PENTATOPE, true, st);
delete spat_mesh;
dim = 4;
}
if (dim == 4)
ser_ref_levels = 0;
Mesh mesh(mesh_file);
int dim = mesh.Dimension();
// 4. Refine the serial mesh on all processors to increase the resolution. In
// this example we do 'ser_ref_levels' of uniform refinement. By default,
@@ -165,23 +149,23 @@ int main(int argc, char *argv[])
{
if (ser_ref_levels < 0)
{
ser_ref_levels = (int)floor(log(10000./mesh->GetNE())/log(2.)/dim);
ser_ref_levels = (int)floor(log(10000./mesh.GetNE())/log(2.)/dim);
}
for (int l = 0; l < ser_ref_levels; l++)
{
mesh->UniformRefinement();
mesh.UniformRefinement();
}
}
if (mesh->NURBSext)
if (mesh.NURBSext)
{
mesh->SetCurvature(max(order, 1));
mesh.SetCurvature(max(order, 1));
}
// 5. 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);
delete mesh;
ParMesh pmesh(MPI_COMM_WORLD, mesh);
mesh.Clear();
{
for (int l = 0; l < par_ref_levels; l++)
{
-412
View File
@@ -1,412 +0,0 @@
// MFEM Example 1 - Parallel Version
//
// 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/escher.mesh
// mpirun -np 4 ex1p -m ../data/fichera.mesh
// 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/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/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
//
// 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>
#include "./spe10_coeff.cpp"
int* LoadIterations(int NRows, int NCol)
{
ifstream in("iter_grad.txt");
//initialize
int *iters = new int[NCol*NRows];
for (int col = 0; col < NCol; col++)
{
for (int row = 0; row < NRows; row++)
{
iters[row*NCol+col] = -1;
}
}
if (!in)
{
cout << "Cannot open file.\n";
return iters;
}
for (int row = 0; row < NRows; row++)
for (int col = 0; col < NCol; col++)
{
if (in.eof())
{
in.close();
return iters;
}
in >> iters[row*NCol+col];
}
in.close();
return iters;
}
void putIterationsInArray(int iter, int row, int col, int NCol, int* iters)
{
iters[row*NCol+col] = iter;
}
void WriteIterations(int *iters, int NRows, int NCol)
{
ofstream out;
out.open("iter_grad.txt",fstream::out);
if (!out)
{
cout << "Cannot open file.\n";
delete[] iters;
return;
}
for (int row = 0; row < NRows; row++)
{
for (int col = 0; col < NCol; col++)
{
out << iters[row*NCol+col] << "\t";
}
out << endl;
}
out.close();
delete[] iters;
}
using namespace std;
using namespace mfem;
double kappa = 1.0;
double u_exact(const Vector &x)
{
int dim = x.Size();
if (dim==4)
{
return cos(M_PI*x(0))*cos(M_PI*x(1))*cos(M_PI*x(2))*cos(M_PI*x(3));
}
else { return 0.0; }
}
double f_exact(const Vector &x)
{
int dim = x.Size();
if (dim==4)
{
return (kappa + 4.0 * M_PI*M_PI) * cos(M_PI*x(0))*cos(M_PI*x(1))*cos(M_PI*x(
2))*cos(M_PI*x(3));
}
else { return 0.0; }
}
int main(int argc, char *argv[])
{
// 1. Initialize MPI.
int num_procs, myid;
MPI_Init(&argc, &argv);
MPI_Comm_size(MPI_COMM_WORLD, &num_procs);
MPI_Comm_rank(MPI_COMM_WORLD, &myid);
bool verbose = (myid==0);
// 2. Parse command-line options.
const char *mesh_file = "../data/cube4d_96.MFEM";
int order = 1;
bool static_cond = false;
bool visualization = 1;
int sequ_ref_levels = 0;
int par_ref_levels = 0;
double tol = 1e-6;
bool set_bc = true;
bool standardCG = true;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&sequ_ref_levels, "-sr", "--seqrefinement",
"Number of sequential refinement steps.");
args.AddOption(&par_ref_levels, "-pr", "--parrefinement",
"Number of parallel refinement steps.");
args.AddOption(&order, "-o", "--order",
"Polynomial order of the finite element space.");
args.AddOption(&tol, "-tol", "--tol",
"A parameter.");
args.AddOption(&set_bc, "-bc", "--impose-bc", "-no-bc", "--dont-impose-bc",
"Impose or not essential boundary conditions.");
args.AddOption(&standardCG, "-sCG", "--stdCG", "-rCG", "--resCG",
"Switch between standard PCG or recompute residuals in every step and use the residuals itself for the stopping criteria.");
args.Parse();
if (!args.Good())
{
args.PrintUsage(cout);
return 1;
}
if (verbose) { args.PrintOptions(cout); }
Mesh *mesh;
ifstream imesh(mesh_file);
if (!imesh)
{
cerr << "\nCan not open mesh file: " << mesh_file << '\n' << endl;
return 2;
}
mesh = new Mesh(imesh, 1, 1);
imesh.close();
int dim = mesh->Dimension();
int sdim = mesh->SpaceDimension();
// if(dim !=4 || sdim != 4)
// {
// MPI_Finalize();
// return 0;
// }
for (int i=0; i<sequ_ref_levels; i++) { mesh->UniformRefinement(); }
if (verbose) { mesh->PrintCharacteristics(); }
if (verbose) { cout << "now we partition the mesh..." << endl << endl; }
ParMesh *pmesh = new ParMesh(MPI_COMM_WORLD, *mesh);
delete mesh;
for (int i=0; i<par_ref_levels; i++) { pmesh->UniformRefinement(); }
pmesh->PrintInfo(std::cout);
if (verbose) { cout << endl; }
// 6. 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;
if (order > 0)
{
if (dim==4)
{
if (order==1) { fec = new LinearFECollection; }
else { fec = new QuadraticFECollection; }
}
else { fec = new H1_FECollection(order, dim); }
}
else if (pmesh->GetNodes())
{
fec = pmesh->GetNodes()->OwnFEC();
if (myid == 0)
{
cout << "Using isoparametric FEs: " << fec->Name() << endl;
}
}
else
{
fec = new H1_FECollection(order = 1, dim);
}
ParFiniteElementSpace *fespace = new ParFiniteElementSpace(pmesh, fec);
HYPRE_Int size = fespace->GlobalTrueVSize();
if (myid == 0)
{
cout << "Number of finite element unknowns: " << size << endl;
}
// 7. 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 = set_bc ? 1 : 0;
fespace->GetEssentialTrueDofs(ess_bdr, ess_tdof_list);
}
FunctionCoefficient uExact(u_exact);
ParGridFunction x(fespace);
int NExpo =8;
for (int expo=-NExpo; expo<=NExpo; expo++)
{
double weight = pow(10.0,expo);
kappa = weight;
x.ProjectCoefficient(uExact);
ParLinearForm *b = new ParLinearForm(fespace);
FunctionCoefficient ffunc(f_exact);
b->AddDomainIntegrator(new DomainLFIntegrator(ffunc));
b->Assemble();
x = 0.0;
// 10. Set up the parallel bilinear form a(.,.) on the finite element space
// corresponding to the Laplacian operator -Delta, by adding the Diffusion
// domain integrator.
// std::string permFile = "spe_perm.dat";
// InversePermeabilityFunction::ReadPermeabilityFile(permFile, MPI_COMM_WORLD);
// FunctionCoefficient *cspe10 = new FunctionCoefficient(InversePermeabilityFunction::Norm2Permeability);
Coefficient *beta = new ConstantCoefficient(weight);
ParBilinearForm *a = new ParBilinearForm(fespace);
a->AddDomainIntegrator(new DiffusionIntegrator);
a->AddDomainIntegrator(new MassIntegrator(*beta));
// 11. 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();
HypreParMatrix A;
Vector B, X;
a->FormLinearSystem(ess_tdof_list, x, *b, A, X, B);
if (myid == 0)
{
cout << "Size of linear system: " << A.GetGlobalNumRows() << endl;
}
// 12. Define and apply a parallel PCG solver for AX=B with the BoomerAMG
// preconditioner from hypre.
HypreSolver *amg = new HypreBoomerAMG(A);
int iter = -1;
if (standardCG)
{
IterativeSolver *pcg = new CGSolver(MPI_COMM_WORLD);
pcg->SetOperator(A);
pcg->SetRelTol(tol);
pcg->SetMaxIter(5000);
pcg->SetPrintLevel(1);
pcg->SetPreconditioner(*amg);
pcg->Mult(B, X);
iter = pcg->GetNumIterations();
delete pcg;
}
else
{
HyprePCG *pcg = new HyprePCG(A);
pcg->SetTol(tol);
pcg->SetMaxIter(5000);
pcg->SetResidualConvergenceOptions(1,tol);
pcg->SetPrintLevel(2);
pcg->SetPreconditioner(*amg);
pcg->Mult(B, X);
pcg->GetNumIterations(iter);
delete pcg;
}
if (myid==0)
{
cout << "Weigth: " << weight << " " << iter << endl;
int *iters = LoadIterations(10, 2*NExpo+1);
putIterationsInArray(iter, sequ_ref_levels+par_ref_levels, expo+NExpo,
2*NExpo+1, iters);
WriteIterations(iters, 10, 2*NExpo+1);
}
// 13. Recover the parallel grid function corresponding to X. This is the
// local finite element solution on each processor.
a->RecoverFEMSolution(X, *b, x);
{
double err = x.ComputeL2Error(uExact);
if (myid == 0)
{
cout << "\n|| u - u_h ||_{L^2} = " << err << '\n' << endl;
}
}
// 14. 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);
// }
// 15. 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;
// }
delete amg;
delete a;
delete beta;
delete b;
}
// 16. Free the used memory.
delete fespace;
if (order > 0) { delete fec; }
delete pmesh;
MPI_Finalize();
return 0;
}
+9 -222
View File
@@ -58,180 +58,6 @@ void f_exact(const Vector &, Vector &);
real_t freq = 1.0, kappa;
int dim;
class Curl4dPrec : public Solver
{
private:
HypreParMatrix *A;
ParFiniteElementSpace *fespace;
HypreParMatrix *idMat;
HypreParMatrix *H1VecLaplaceMat;
HypreBoomerAMG *amgVecH1;
HypreParMatrix *gradMat;
HypreParMatrix *H1LaplaceMat;
HypreBoomerAMG *amgH1;
HypreSmoother * smoother;
CGSolver *pcgGrad;
CGSolver *pcgH1Vec;
Vector *f;
Vector *fGrad, *uGrad;
Vector *fH1Vec, *uH1Vec;
bool exactSolves;
public:
Curl4dPrec(HypreParMatrix *AUser, ParFiniteElementSpace *fespaceUser,
const Array<int> &essBnd, int orderKernel=1, bool exactSolvesUser=false)
{
A = AUser;
fespace = fespaceUser;
ParMesh *pmesh = fespace->GetParMesh();
int dim = pmesh->Dimension();
exactSolves = exactSolvesUser;
int orderIm=1; //vecH1 --> H(curl)
int orderKer=orderKernel; //grad V --> H(curl)
smoother = new HypreSmoother(*A, 16, 3);
// //for the pure dirichlet case
// Array<int> essBnd(pmesh->bdr_attributes.Max()); essBnd = 1;
Array<int> HCurl_essDof(fespace->GetVSize()); HCurl_essDof = 0;
fespace->GetEssentialVDofs(essBnd, HCurl_essDof);
//setup the H1 FESpace
FiniteElementCollection* fecH1;
if (orderKer==1) { fecH1 = new LinearFECollection; }
else { fecH1 = new QuadraticFECollection; }
ParFiniteElementSpace *H1FESpace = new ParFiniteElementSpace(pmesh, fecH1);
Array<int> H1_essDof(H1FESpace->GetVSize()); H1_essDof = 0;
H1FESpace->GetEssentialVDofs(essBnd, H1_essDof);
//setup the discrete gradient
ParDiscreteLinearOperator *disGrad = new ParDiscreteLinearOperator(H1FESpace,
fespace);
disGrad->AddDomainInterpolator(new GradientInterpolator);
disGrad->Assemble();
disGrad->Finalize();
SparseMatrix* smat = &(disGrad->SpMat());
smat->EliminateCols(H1_essDof);
for (int dof=0; dof<HCurl_essDof.Size(); dof++) if (HCurl_essDof[dof]<0) { smat->EliminateRow(dof); }
gradMat = disGrad->ParallelAssemble();
delete disGrad;
//setup the H1 preconditioner
ParBilinearForm* H1Varf = new ParBilinearForm(H1FESpace);
H1Varf->AddDomainIntegrator(new DiffusionIntegrator);
H1Varf->AddDomainIntegrator(new MassIntegrator);
H1Varf->Assemble();
H1Varf->Finalize();
SparseMatrix &matH1(H1Varf->SpMat());
for (int dof=0; dof<H1_essDof.Size(); dof++) if (H1_essDof[dof]<0) { matH1.EliminateRowCol(dof); }
H1LaplaceMat = H1Varf->ParallelAssemble();
delete H1Varf;
amgH1 = new HypreBoomerAMG(*H1LaplaceMat);
//setup the H1 injection
FiniteElementCollection* fecH1Vec;
if (orderIm==1) { fecH1Vec = new LinearFECollection; }
else { fecH1Vec = new QuadraticFECollection; }
ParFiniteElementSpace *H1VecFESpace = new ParFiniteElementSpace(pmesh, fecH1Vec,
dim, Ordering::byVDIM);
Array<int> H1Vec_essDof(H1VecFESpace->GetVSize()); H1Vec_essDof = 0;
H1VecFESpace->GetEssentialVDofs(essBnd, H1Vec_essDof);
//setup the discrete gradient
ParDiscreteLinearOperator *disInterpol = new ParDiscreteLinearOperator(
H1VecFESpace, fespace);
disInterpol->AddDomainInterpolator(new IdentityInterpolator);
disInterpol->Assemble();
disInterpol->Finalize();
SparseMatrix* smatID = &(disInterpol->SpMat());
smatID->EliminateCols(H1Vec_essDof);
for (int dof=0; dof<HCurl_essDof.Size(); dof++) if (HCurl_essDof[dof]<0) { smatID->EliminateRow(dof); }
idMat = disInterpol->ParallelAssemble();
delete disInterpol;
//setup the H1-vec preconditioner
ParBilinearForm* H1VecVarf = new ParBilinearForm(H1VecFESpace);
H1VecVarf->AddDomainIntegrator(new VectorDiffusionIntegrator);
H1VecVarf->AddDomainIntegrator(new VectorMassIntegrator);
H1VecVarf->Assemble();
H1VecVarf->Finalize();
SparseMatrix &matH1Vec(H1VecVarf->SpMat());
for (int dof=0; dof<H1Vec_essDof.Size(); dof++) if (H1Vec_essDof[dof]<0) { matH1Vec.EliminateRowCol(dof); }
H1VecLaplaceMat = H1VecVarf->ParallelAssemble();
delete H1VecVarf;
amgVecH1 = new HypreBoomerAMG(*H1VecLaplaceMat);
amgVecH1->SetSystemsOptions(dim);
f = new Vector(fespace->GetTrueVSize());
fGrad = new Vector(H1FESpace->GetTrueVSize());
uGrad = new Vector(H1FESpace->GetTrueVSize());
fH1Vec = new Vector(H1VecFESpace->GetTrueVSize());
uH1Vec = new Vector(H1VecFESpace->GetTrueVSize());;
amgH1->Mult(*fGrad, *uGrad);
amgVecH1->Mult(*fH1Vec, *uH1Vec);
pcgGrad = new CGSolver(MPI_COMM_WORLD);
pcgGrad->SetOperator(*H1LaplaceMat);
pcgGrad->SetPreconditioner(*amgH1);
pcgGrad->SetRelTol(1e-16);
pcgGrad->SetMaxIter(100000000);
pcgGrad->SetPrintLevel(-2);
pcgH1Vec = new CGSolver(MPI_COMM_WORLD);
pcgH1Vec->SetOperator(*H1VecLaplaceMat);
pcgH1Vec->SetPreconditioner(*amgVecH1);
pcgH1Vec->SetRelTol(1e-16);
pcgH1Vec->SetMaxIter(100000000);
pcgH1Vec->SetPrintLevel(-2);
}
void setExactSolve(bool exSol)
{
exactSolves = exSol;
}
virtual void Mult(const Vector &x, Vector &y) const
{
smoother->Mult(x,y);
idMat->MultTranspose(x,*fH1Vec);
*uH1Vec = 0.0;
if (exactSolves) { pcgH1Vec->Mult(*fH1Vec, *uH1Vec); }
else { amgVecH1->Mult(*fH1Vec, *uH1Vec); }
idMat->Mult(1.0, *uH1Vec, 1.0, y);
gradMat->MultTranspose(x,*fGrad);
*uGrad = 0.0;
if (exactSolves) { pcgGrad->Mult(*fGrad, *uGrad); }
else { amgH1->Mult(*fGrad, *uGrad); }
gradMat->Mult(1.0, *uGrad, 1.0, y);
}
virtual void SetOperator(const Operator &op) {};
};
int main(int argc, char *argv[])
{
// 1. Initialize MPI and HYPRE.
@@ -336,13 +162,7 @@ int main(int argc, char *argv[])
// 7. Define a parallel finite element space on the parallel mesh. Here we
// use the Nedelec finite elements of the specified order.
FiniteElementCollection *fec;
if (dim==4)
{
if (order==1) { fec = new ND1_4DFECollection; }
else { fec = new ND2_4DFECollection; }
}
else { fec = new ND_FECollection(order, dim); }
FiniteElementCollection *fec = new ND_FECollection(order, dim);
ParFiniteElementSpace *fespace = new ParFiniteElementSpace(pmesh, fec);
HYPRE_BigInt size = fespace->GlobalTrueVSize();
if (myid == 0)
@@ -428,29 +248,15 @@ int main(int argc, char *argv[])
ParFiniteElementSpace *prec_fespace =
(a->StaticCondensationIsEnabled() ? a->SCParFESpace() : fespace);
Solver *prec;
HypreAMS ams(*A.As<HypreParMatrix>(), prec_fespace);
if (dim <= 3)
{
prec = new HypreAMS(*A.As<HypreParMatrix>(), prec_fespace);
}
else if (dim == 4)
{
prec = new Curl4dPrec(A.As<HypreParMatrix>(), fespace, ess_bdr, order, false);
}
IterativeSolver *pcg = new CGSolver(MPI_COMM_WORLD);
pcg->SetOperator(*A.As<HypreParMatrix>());
pcg->SetTol(1e-12);
pcg->SetMaxIter(500);
pcg->SetPrintLevel(2);
pcg->SetPreconditioner(*prec);
pcg->Mult(B, X);
delete pcg;
delete prec;
HyprePCG pcg(*A.As<HypreParMatrix>());
pcg.SetTol(1e-12);
pcg.SetMaxIter(500);
pcg.SetPrintLevel(2);
pcg.SetPreconditioner(ams);
pcg.Mult(B, X);
}
// 13. Recover the parallel grid function corresponding to X. This is the
// 14. Recover the parallel grid function corresponding to X. This is the
// local finite element solution on each processor.
a->RecoverFEMSolution(X, *b, x);
@@ -506,14 +312,7 @@ int main(int argc, char *argv[])
void E_exact(const Vector &x, Vector &E)
{
if (dim==4)
{
E(0) = sin(M_PI*x(0))*cos(M_PI*x(1))*cos(M_PI*x(2))*cos(M_PI*x(3));
E(1) = -cos(M_PI*x(0))*sin(M_PI*x(1))*cos(M_PI*x(2))*cos(M_PI*x(3));
E(2) = cos(M_PI*x(0))*cos(M_PI*x(1))*sin(M_PI*x(2))*cos(M_PI*x(3));
E(3) = -cos(M_PI*x(0))*cos(M_PI*x(1))*cos(M_PI*x(2))*sin(M_PI*x(3));
}
else if (dim == 3)
if (dim == 3)
{
E(0) = sin(kappa * x(1));
E(1) = sin(kappa * x(2));
@@ -529,19 +328,7 @@ void E_exact(const Vector &x, Vector &E)
void f_exact(const Vector &x, Vector &f)
{
//f_exact = E + DivSkew P( curl E ), where P is the 4d permutation operator
if (dim==4)
{
f(0) = (1.0+4.0*M_PI*M_PI)*sin(M_PI*x(0))*cos(M_PI*x(1))*cos(M_PI*x(2))*cos(
M_PI*x(3));
f(1) = -(1.0+4.0*M_PI*M_PI)*cos(M_PI*x(0))*sin(M_PI*x(1))*cos(M_PI*x(2))*cos(
M_PI*x(3));
f(2) = (1.0+4.0*M_PI*M_PI)*cos(M_PI*x(0))*cos(M_PI*x(1))*sin(M_PI*x(2))*cos(
M_PI*x(3));
f(3) = -(1.0+4.0*M_PI*M_PI)*cos(M_PI*x(0))*cos(M_PI*x(1))*cos(M_PI*x(2))*sin(
M_PI*x(3));
}
else if (dim == 3)
if (dim == 3)
{
f(0) = (1. + kappa * kappa) * sin(kappa * x(1));
f(1) = (1. + kappa * kappa) * sin(kappa * x(2));
-650
View File
@@ -1,650 +0,0 @@
// MFEM Example 3 - Parallel Version
//
// Compile with: make ex3p
//
// Sample runs: mpirun -np 4 ex3p -m ../data/star.mesh
// mpirun -np 4 ex3p -m ../data/square-disc.mesh -o 2
// mpirun -np 4 ex3p -m ../data/beam-tet.mesh
// mpirun -np 4 ex3p -m ../data/beam-hex.mesh
// mpirun -np 4 ex3p -m ../data/escher.mesh
// mpirun -np 4 ex3p -m ../data/fichera.mesh
// mpirun -np 4 ex3p -m ../data/fichera-q2.vtk
// mpirun -np 4 ex3p -m ../data/fichera-q3.mesh
// mpirun -np 4 ex3p -m ../data/square-disc-nurbs.mesh
// mpirun -np 4 ex3p -m ../data/beam-hex-nurbs.mesh
// mpirun -np 4 ex3p -m ../data/amr-quad.mesh -o 2
// mpirun -np 4 ex3p -m ../data/amr-hex.mesh
// mpirun -np 4 ex3p -m ../data/star-surf.mesh -o 2
// mpirun -np 4 ex3p -m ../data/mobius-strip.mesh -o 2 -f 0.1
// mpirun -np 4 ex3p -m ../data/klein-bottle.mesh -o 2 -f 0.1
//
// Description: This example code solves a simple electromagnetic diffusion
// problem corresponding to the second order definite Maxwell
// equation curl curl E + E = f with boundary condition
// E x n = <given tangential field>. Here, we use a given exact
// solution E and compute the corresponding r.h.s. f.
// We discretize with Nedelec finite elements in 2D or 3D.
//
// The example demonstrates the use of H(curl) finite element
// spaces with the curl-curl and the (vector finite element) mass
// bilinear form, as well as the computation of discretization
// error when the exact solution is known. Static condensation is
// also illustrated.
//
// We recommend viewing examples 1-2 before viewing this example.
#include "mfem.hpp"
#include <fstream>
#include <iostream>
#include "./spe10_coeff.cpp"
using namespace std;
using namespace mfem;
int* LoadIterations(int NRows, int NCol)
{
ifstream in("iter_curl.txt");
//initialize
int *iters = new int[NCol*NRows];
for (int col = 0; col < NCol; col++)
{
for (int row = 0; row < NRows; row++)
{
iters[row*NCol+col] = -1;
}
}
if (!in)
{
cout << "Cannot open file.\n";
return iters;
}
for (int row = 0; row < NRows; row++)
for (int col = 0; col < NCol; col++)
{
if (in.eof())
{
in.close();
return iters;
}
in >> iters[row*NCol+col];
}
in.close();
return iters;
}
void putIterationsInArray(int iter, int row, int col, int NCol, int* iters)
{
iters[row*NCol+col] = iter;
}
void WriteIterations(int *iters, int NRows, int NCol)
{
ofstream out;
out.open("iter_curl.txt",fstream::out);
if (!out)
{
cout << "Cannot open file.\n";
delete[] iters;
return;
}
for (int row = 0; row < NRows; row++)
{
for (int col = 0; col < NCol; col++)
{
out << iters[row*NCol+col] << "\t";
}
out << endl;
}
out.close();
delete[] iters;
}
// Exact solution, E, and r.h.s., f. See below for implementation.
void E_exact(const Vector &, Vector &);
void f_exact(const Vector &, Vector &);
double freq = 1.0, kappa = 1.0;
int dim;
double osziCoeff(const Vector &x)
{
return 1.0001 + sin(100*x(0))*sin(200*x(1))*sin(300*x(2))*sin(400*x(3));
}
class Curl4dPrec : public Solver
{
private:
HypreParMatrix *A;
ParFiniteElementSpace *fespace;
Coefficient *alpha_, *beta_, *neg_beta_;
HypreParMatrix *idMat;
HypreParMatrix *H1VecLaplaceMat;
HypreBoomerAMG *amgVecH1;
HypreParMatrix *gradMat;
HypreParMatrix *H1LaplaceMat;
HypreBoomerAMG *amgH1;
HypreSmoother * smoother;
CGSolver *pcgGrad;
CGSolver *pcgH1Vec;
Vector *f;
Vector *fGrad, *uGrad;
Vector *fH1Vec, *uH1Vec;
bool exactSolves;
public:
~Curl4dPrec()
{
delete pcgH1Vec;
delete pcgGrad;
delete f, fGrad, uGrad, fH1Vec, uH1Vec;
delete smoother;
delete amgVecH1, H1VecLaplaceMat;
delete idMat;
delete amgH1, H1LaplaceMat;
delete gradMat;
}
Curl4dPrec(HypreParMatrix *AUser, ParFiniteElementSpace *fespaceUser,
Coefficient *alpha, Coefficient *beta, Coefficient *neg_beta,
const Array<int> &essBnd, int orderKernel=1, bool exactSolvesUser=false)
{
A = AUser;
fespace = fespaceUser;
alpha_ = alpha;
beta_ = beta;
neg_beta_=neg_beta;
ParMesh *pmesh = fespace->GetParMesh();
int dim = pmesh->Dimension();
exactSolves = exactSolvesUser;
int orderIm=1; //vecH1 --> H(curl)
int orderKer=orderKernel; //grad V --> H(curl)
smoother = new HypreSmoother(*A, 16, 3);
// //for the pure dirichlet case
// Array<int> essBnd(pmesh->bdr_attributes.Max()); essBnd = 1;
Array<int> HCurl_essDof(fespace->GetVSize()); HCurl_essDof = 0;
fespace->GetEssentialVDofs(essBnd, HCurl_essDof);
//setup the H1 FESpace
FiniteElementCollection* fecH1;
if (orderKer==1) { fecH1 = new LinearFECollection; }
else { fecH1 = new QuadraticFECollection; }
ParFiniteElementSpace *H1FESpace = new ParFiniteElementSpace(pmesh, fecH1);
Array<int> H1_essDof(H1FESpace->GetVSize()); H1_essDof = 0;
H1FESpace->GetEssentialVDofs(essBnd, H1_essDof);
//setup the discrete gradient
ParDiscreteLinearOperator *disGrad = new ParDiscreteLinearOperator(H1FESpace,
fespace);
disGrad->AddDomainInterpolator(new GradientInterpolator);
disGrad->Assemble();
disGrad->Finalize();
SparseMatrix* smat = &(disGrad->SpMat());
smat->EliminateCols(H1_essDof);
for (int dof=0; dof<HCurl_essDof.Size(); dof++) if (HCurl_essDof[dof]<0) { smat->EliminateRow(dof); }
gradMat = disGrad->ParallelAssemble();
delete disGrad;
//setup the H1 preconditioner
ParBilinearForm* H1Varf = new ParBilinearForm(H1FESpace);
H1Varf->AddDomainIntegrator(new DiffusionIntegrator(*beta_));
// H1Varf->AddDomainIntegrator(new MassIntegrator);
H1Varf->Assemble();
H1Varf->Finalize();
SparseMatrix &matH1(H1Varf->SpMat());
for (int dof=0; dof<H1_essDof.Size(); dof++) if (H1_essDof[dof]<0) { matH1.EliminateRowCol(dof); }
H1LaplaceMat = H1Varf->ParallelAssemble();
delete H1Varf;
amgH1 = new HypreBoomerAMG(*H1LaplaceMat);
//setup the H1 injection
FiniteElementCollection* fecH1Vec;
if (orderIm==1) { fecH1Vec = new LinearFECollection; }
else { fecH1Vec = new QuadraticFECollection; }
ParFiniteElementSpace *H1VecFESpace = new ParFiniteElementSpace(pmesh, fecH1Vec,
dim, Ordering::byVDIM);
Array<int> H1Vec_essDof(H1VecFESpace->GetVSize()); H1Vec_essDof = 0;
H1VecFESpace->GetEssentialVDofs(essBnd, H1Vec_essDof);
//setup the discrete gradient
ParDiscreteLinearOperator *disInterpol = new ParDiscreteLinearOperator(
H1VecFESpace, fespace);
disInterpol->AddDomainInterpolator(new IdentityInterpolator);
disInterpol->Assemble();
disInterpol->Finalize();
SparseMatrix* smatID = &(disInterpol->SpMat());
smatID->EliminateCols(H1Vec_essDof);
for (int dof=0; dof<HCurl_essDof.Size(); dof++) if (HCurl_essDof[dof]<0) { smatID->EliminateRow(dof); }
idMat = disInterpol->ParallelAssemble();
delete disInterpol;
//setup the H1-vec preconditioner
ParBilinearForm* H1VecVarf = new ParBilinearForm(H1VecFESpace);
H1VecVarf->AddDomainIntegrator(new VectorDiffusionIntegrator(*alpha_));
H1VecVarf->AddDomainIntegrator(new VectorMassIntegrator(*neg_beta_));
H1VecVarf->Assemble();
H1VecVarf->Finalize();
SparseMatrix &matH1Vec(H1VecVarf->SpMat());
for (int dof=0; dof<H1Vec_essDof.Size(); dof++) if (H1Vec_essDof[dof]<0) { matH1Vec.EliminateRowCol(dof); }
H1VecLaplaceMat = H1VecVarf->ParallelAssemble();
delete H1VecVarf;
amgVecH1 = new HypreBoomerAMG(*H1VecLaplaceMat);
amgVecH1->SetSystemsOptions(dim);
f = new Vector(fespace->GetTrueVSize());
fGrad = new Vector(H1FESpace->GetTrueVSize());
uGrad = new Vector(H1FESpace->GetTrueVSize());
fH1Vec = new Vector(H1VecFESpace->GetTrueVSize());
uH1Vec = new Vector(H1VecFESpace->GetTrueVSize());
amgH1->Mult(*fGrad, *uGrad);
amgVecH1->Mult(*fH1Vec, *uH1Vec);
pcgGrad = new CGSolver(MPI_COMM_WORLD);
pcgGrad->SetOperator(*H1LaplaceMat);
pcgGrad->SetPreconditioner(*amgH1);
pcgGrad->SetRelTol(1e-16);
pcgGrad->SetMaxIter(100000000);
pcgGrad->SetPrintLevel(-2);
pcgH1Vec = new CGSolver(MPI_COMM_WORLD);
pcgH1Vec->SetOperator(*H1VecLaplaceMat);
pcgH1Vec->SetPreconditioner(*amgVecH1);
pcgH1Vec->SetRelTol(1e-16);
pcgH1Vec->SetMaxIter(100000000);
pcgH1Vec->SetPrintLevel(-2);
delete H1FESpace; delete fecH1;
delete H1VecFESpace; delete fecH1Vec;
}
void setExactSolve(bool exSol)
{
exactSolves = exSol;
}
virtual void Mult(const Vector &x, Vector &y) const
{
smoother->Mult(x,y);
idMat->MultTranspose(x,*fH1Vec);
*uH1Vec = 0.0;
if (exactSolves) { pcgH1Vec->Mult(*fH1Vec, *uH1Vec); }
else { amgVecH1->Mult(*fH1Vec, *uH1Vec); }
idMat->Mult(1.0, *uH1Vec, 1.0, y);
gradMat->MultTranspose(x,*fGrad);
*uGrad = 0.0;
if (exactSolves) { pcgGrad->Mult(*fGrad, *uGrad); }
else { amgH1->Mult(*fGrad, *uGrad); }
gradMat->Mult(1.0, *uGrad, 1.0, y);
}
virtual void SetOperator(const Operator &op) {};
};
int main(int argc, char *argv[])
{
// 1. Initialize MPI.
int num_procs, myid;
MPI_Init(&argc, &argv);
MPI_Comm_size(MPI_COMM_WORLD, &num_procs);
MPI_Comm_rank(MPI_COMM_WORLD, &myid);
bool verbose = (myid==0);
// 2. Parse command-line options.
const char *mesh_file = "../data/cube4d_96.MFEM";
int order = 1;
bool set_bc = true;
bool static_cond = false;
bool visualization = 1;
int sequ_ref_levels = 0;
int par_ref_levels = 0;
double tol = 1e-6;
double coeffWeight = 1.0;
bool exactH1Solver = false;
bool spe10Coeff = false;
bool standardCG = true;
int NExpo = 8;
int weightStart = -NExpo;
int weightEnd = NExpo;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&sequ_ref_levels, "-sr", "--seqrefinement",
"Number of sequential refinement steps.");
args.AddOption(&par_ref_levels, "-pr", "--parrefinement",
"Number of parallel refinement steps.");
args.AddOption(&order, "-o", "--order",
"Polynomial order of the finite element space.");
args.AddOption(&set_bc, "-bc", "--impose-bc", "-no-bc", "--dont-impose-bc",
"Impose or not essential boundary conditions.");
args.AddOption(&tol, "-tol", "--tol",
"A parameter.");
args.AddOption(&freq, "-f", "--frequency", "Set the frequency for the exact"
" solution.");
args.AddOption(&coeffWeight, "-c", "--coeffMass",
"the weight for the mass term.");
args.AddOption(&exactH1Solver, "-exH1Sol", "--exactH1Solver", "-H1prec",
"--H1preconditioner",
"Use exact H1 solvers for the preconditioner.");
args.AddOption(&spe10Coeff, "-spe10", "--useSPE10Coeff", "-constCoeff",
"--constCoeff",
"Switch between the coefficients for the mass bilinear form.");
args.AddOption(&standardCG, "-sCG", "--stdCG", "-rCG", "--resCG",
"Switch between standard PCG or recompute residuals in every step and use the residuals itself for the stopping criteria.");
args.AddOption(&weightStart, "-ws", "--weightStart",
"the exponent for the starting weight (for the mass term).");
args.AddOption(&weightEnd, "-we", "--weightEnd",
"the exponent for the weight at the end (for the mass term).");
args.Parse();
if (!args.Good())
{
args.PrintUsage(cout);
return 1;
}
if (verbose) { args.PrintOptions(cout); }
kappa = freq * M_PI;
Mesh *mesh;
ifstream imesh(mesh_file);
if (!imesh)
{
cerr << "\nCan not open mesh file: " << mesh_file << '\n' << endl;
return 2;
}
mesh = new Mesh(imesh, 1, 1);
imesh.close();
dim = mesh->Dimension();
int sdim = mesh->SpaceDimension();
if (dim !=4 || sdim != 4)
{
MPI_Finalize();
return 0;
}
for (int i=0; i<sequ_ref_levels; i++) { mesh->UniformRefinement(); }
if (verbose) { mesh->PrintCharacteristics(); }
if (verbose) { cout << "now we partition the mesh..." << endl << endl; }
ParMesh *pmesh = new ParMesh(MPI_COMM_WORLD, *mesh);
delete mesh;
for (int i=0; i<par_ref_levels; i++) { pmesh->UniformRefinement(); }
pmesh->ReorientTetMesh();
pmesh->PrintInfo(std::cout);
if (verbose) { cout << endl; }
// 6. Define a parallel finite element space on the parallel mesh. Here we
// use the Nedelec finite elements of the specified order.
FiniteElementCollection *fec;
if (dim==4)
{
if (order==1) { fec = new ND1_4DFECollection; }
else { fec = new ND2_4DFECollection; }
}
else { fec = new ND_FECollection(order, dim); }
ParFiniteElementSpace *fespace = new ParFiniteElementSpace(pmesh, fec);
HYPRE_Int size = fespace->GlobalTrueVSize();
if (myid == 0)
{
cout << "Number of finite element unknowns: " << size << endl;
}
// 7. 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;
Array<int> ess_bdr(pmesh->bdr_attributes.Max());
ess_bdr = set_bc ? 1 : 0;
if (pmesh->bdr_attributes.Size())
{
fespace->GetEssentialTrueDofs(ess_bdr, ess_tdof_list);
}
// 8. Set up the parallel linear form b(.) which corresponds to the
// right-hand side of the FEM linear system, which in this case is
// (f,phi_i) where f is given by the function f_exact and phi_i are the
// basis functions in the finite element fespace.
// 9. Define the solution vector x as a parallel finite element grid function
// corresponding to fespace. Initialize x by projecting the exact
// solution. Note that only values from the boundary edges will be used
// when eliminating the non-homogeneous boundary condition to modify the
// r.h.s. vector b.
ParGridFunction x(fespace);
VectorFunctionCoefficient E(sdim, E_exact);
for (int expo=weightStart; expo<=weightEnd; expo++)
{
double weight = pow(10.0,expo);
kappa = weight;
VectorFunctionCoefficient f(sdim, f_exact);
ParLinearForm *b = new ParLinearForm(fespace);
b->AddDomainIntegrator(new VectorFEDomainLFIntegrator(f));
b->Assemble();
x.ProjectCoefficient(E);
// 10. Set up the parallel bilinear form corresponding to the EM diffusion
// operator curl muinv curl + sigma I, by adding the curl-curl and the
// mass domain integrators.
// std::string permFile = "spe_perm.dat";
// InversePermeabilityFunction::ReadPermeabilityFile(permFile, MPI_COMM_WORLD);
Coefficient *alpha = new ConstantCoefficient(1.0);
Coefficient *beta;
// if(spe10Coeff) beta = new FunctionCoefficient(InversePermeabilityFunction::Norm2Permeability);
// else
beta = new ConstantCoefficient(weight);
Coefficient *neg_beta = new ConstantCoefficient(-weight);
ParBilinearForm *a = new ParBilinearForm(fespace);
a->AddDomainIntegrator(new CurlCurlIntegrator(*alpha));
a->AddDomainIntegrator(new VectorFEMassIntegrator(*beta));
// 11. 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();
HypreParMatrix A;
Vector B, X;
a->FormLinearSystem(ess_tdof_list, x, *b, A, X, B);
if (myid == 0)
{
cout << "Size of linear system: " << A.GetGlobalNumRows() << endl;
}
// 12. Define and apply a parallel PCG solver for AX=B with the AMS
// preconditioner from hypre.
ParFiniteElementSpace *prec_fespace =
(a->StaticCondensationIsEnabled() ? a->SCParFESpace() : fespace);
Solver *prec;
if (dim<=3) { prec = new HypreAMS(A, prec_fespace); }
else if (dim==4) { prec = new Curl4dPrec(&A, fespace, alpha, beta, neg_beta, ess_bdr, order, false); }
IterativeSolver *pcg = new CGSolver(MPI_COMM_WORLD);
pcg->SetOperator(A);
pcg->SetRelTol(tol);
pcg->SetMaxIter(5000);
pcg->SetPrintLevel(1);
pcg->SetPreconditioner(*prec);
pcg->Mult(B, X);
int iter = pcg->GetNumIterations();
if (myid==0)
{
cout << "Weigth: " << weight << " " << iter << endl;
int *iters = LoadIterations(10, 2*NExpo+1);
putIterationsInArray(iter, sequ_ref_levels+par_ref_levels, expo+NExpo,
2*NExpo+1, iters);
WriteIterations(iters, 10, 2*NExpo+1);
}
// 13. Recover the parallel grid function corresponding to X. This is the
// local finite element solution on each processor.
a->RecoverFEMSolution(X, *b, x);
// 14. Compute and print the L^2 norm of the error.
{
double err = x.ComputeL2Error(E);
if (myid == 0)
{
cout << "\n|| E_h - E ||_{L^2} = " << err << '\n' << endl;
}
}
// 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;
// }
delete pcg;
delete prec;
delete a;
delete alpha;
delete beta;
delete b;
}
// 17. Free the used memory.
delete fespace;
delete fec;
delete pmesh;
MPI_Finalize();
return 0;
}
void E_exact(const Vector &x, Vector &E)
{
if (dim==4)
{
E(0) = sin(M_PI*x(0))*cos(M_PI*x(1))*cos(M_PI*x(2))*cos(M_PI*x(3));
E(1) = -cos(M_PI*x(0))*sin(M_PI*x(1))*cos(M_PI*x(2))*cos(M_PI*x(3));
E(2) = cos(M_PI*x(0))*cos(M_PI*x(1))*sin(M_PI*x(2))*cos(M_PI*x(3));
E(3) = -cos(M_PI*x(0))*cos(M_PI*x(1))*cos(M_PI*x(2))*sin(M_PI*x(3));
}
else if (dim == 3)
{
E(0) = sin(kappa * x(1));
E(1) = sin(kappa * x(2));
E(2) = sin(kappa * x(0));
}
else
{
E(0) = sin(kappa * x(1));
E(1) = sin(kappa * x(0));
if (x.Size() == 3) { E(2) = 0.0; }
}
}
void f_exact(const Vector &x, Vector &f)
{
//f_exact = E + DivSkew P( curl E ), where P is the 4d permutation operator
if (dim==4)
{
f(0) = (kappa+4.0*M_PI*M_PI)*sin(M_PI*x(0))*cos(M_PI*x(1))*cos(M_PI*x(2))*cos(
M_PI*x(3));
f(1) = -(kappa+4.0*M_PI*M_PI)*cos(M_PI*x(0))*sin(M_PI*x(1))*cos(M_PI*x(2))*cos(
M_PI*x(3));
f(2) = (kappa+4.0*M_PI*M_PI)*cos(M_PI*x(0))*cos(M_PI*x(1))*sin(M_PI*x(2))*cos(
M_PI*x(3));
f(3) = -(kappa+4.0*M_PI*M_PI)*cos(M_PI*x(0))*cos(M_PI*x(1))*cos(M_PI*x(2))*sin(
M_PI*x(3));
}
else if (dim == 3)
{
f(0) = (1. + kappa * kappa) * sin(kappa * x(1));
f(1) = (1. + kappa * kappa) * sin(kappa * x(2));
f(2) = (1. + kappa * kappa) * sin(kappa * x(0));
}
else
{
f(0) = (1. + kappa * kappa) * sin(kappa * x(1));
f(1) = (1. + kappa * kappa) * sin(kappa * x(0));
if (x.Size() == 3) { f(2) = 0.0; }
}
}
-374
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@@ -1,374 +0,0 @@
// MFEM Example 40
//
// Compile with: make ex40
//
// Sample runs: ex40 -step 10 -gr 2.0
// ex40 -step 10 -gr 2.0 -o 3 -r 1
// ex40 -step 10 -gr 2.0 -r 4 -m ../data/l-shape.mesh
// ex40 -step 10 -gr 2.0 -r 2 -m ../data/fichera.mesh
//
// Description: This example code demonstrates how to use MFEM to solve the
// eikonal equation,
//
// |∇𝑢| = 1 in Ω, 𝑢 = g on ∂Ω.
//
// The solution of this problem coincides with the unique optimum of
// the nonlinear program
//
// maximize ∫_Ω 𝑢 d𝑥 subject to |∇𝑢| ≤ 1, 𝑢 = g on Ω, (⋆)
//
// which is the foundation for method implemented below.
//
// Following the proximal Galerkin methodology [1] (see also Example
// 36), we construct a Legendre function for the unit ball
// 𝐵₁ := {𝑥 ∈ Rⁿ | |𝑥| < 1}. Our choice is the Hellinger entropy,
//
// h(𝑥) = ( 1 |𝑥|² )^{1/2},
//
// although other choices are possible, each leading to a slightly
// different algorithm. We then adaptively regularize the optimization
// problem (⋆) with the Bregman divergence of the Hellinger entropy,
//
// maximize ∫_Ω 𝑢 d𝑥 - αₖ⁻¹ Dₕ(∇𝑢,∇𝑢ₖ₋₁) subject to 𝑢 = g on Ω.
//
// This results in a sequence of functions ( 𝜓ₖ , 𝑢ₖ ),
//
// 𝑢ₖ → 𝑢, 𝜓ₖ/|𝜓ₖ| → ∇𝑢 as k → \infty,
//
// defined by the nonlinear saddle-point problems
//
// Find 𝜓ₖ ∈ H(div,Ω) and 𝑢ₖ ∈ L²(Ω) such that
// ( Zₖ(𝜓ₖ) , τ ) + ( 𝑢ₖ , ∇⋅τ ) = ⟨ g , τ⋅n ⟩ ∀ τ ∈ H(div,Ω)
// ( ∇⋅𝜓ₖ , v ) = ( ∇⋅𝜓ₖ₋₁ - 1 , v ) ∀ v ∈ L²(Ω)
//
// where Zₖ(𝜓) := ∇h⁻¹(αₖ 𝜓) = 𝜓 / ( αₖ⁻² + |𝜓|² )^{1/2} and step size
// αₖ > 0. These saddle-point problems are solved using a damped Newton's
// method. This example assumes that g = 0 and allows the step size to
// grow geometrically, αₖ = α₀rᵏ, where r ≥ 1 is the growth rate.
//
// [1] Keith, B. and Surowiec, T. (2023) Proximal Galerkin: A structure-
// preserving finite element method for pointwise bound constraints.
// arXiv:2307.12444 [math.NA]
#include "mfem.hpp"
#include <fstream>
#include <iostream>
using namespace std;
using namespace mfem;
class ZCoefficient : public VectorCoefficient
{
protected:
GridFunction *psi;
real_t alpha;
public:
ZCoefficient(int vdim, GridFunction &psi_, real_t alpha_ = 1.0)
: VectorCoefficient(vdim), psi(&psi_), alpha(alpha_) { }
virtual void Eval(Vector &V, ElementTransformation &T,
const IntegrationPoint &ip);
void SetAlpha(real_t alpha_) { alpha = alpha_; }
};
class DZCoefficient : public MatrixCoefficient
{
protected:
GridFunction *psi;
real_t alpha;
public:
DZCoefficient(int height, GridFunction &psi_, real_t alpha_ = 1.0)
: MatrixCoefficient(height), psi(&psi_), alpha(alpha_) { }
virtual void Eval(DenseMatrix &K, ElementTransformation &T,
const IntegrationPoint &ip);
void SetAlpha(real_t alpha_) { alpha = alpha_; }
};
int main(int argc, char *argv[])
{
// 1. Parse command-line options.
const char *mesh_file = "../data/star.mesh";
int order = 1;
int max_it = 5;
int ref_levels = 3;
real_t alpha = 1.0;
real_t growth_rate = 1.0;
real_t newton_scaling = 0.9;
real_t tichonov = 1e-1;
real_t tol = 1e-4;
bool visualization = true;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&order, "-o", "--order",
"Finite element order (polynomial degree).");
args.AddOption(&ref_levels, "-r", "--refs",
"Number of h-refinements.");
args.AddOption(&max_it, "-mi", "--max-it",
"Maximum number of iterations");
args.AddOption(&tol, "-tol", "--tol",
"Stopping criteria based on the difference between"
"successive solution updates");
args.AddOption(&alpha, "-step", "--step",
"Initial size alpha");
args.AddOption(&growth_rate, "-gr", "--growth-rate",
"Growth rate of the step size alpha");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
args.Parse();
if (!args.Good())
{
args.PrintUsage(cout);
return 1;
}
args.PrintOptions(cout);
// 2. Read the mesh from the mesh file.
Mesh mesh(mesh_file, 1, 1);
int dim = mesh.Dimension();
int sdim = mesh.SpaceDimension();
MFEM_ASSERT(mesh.bdr_attributes.Size(),
"This example does not currently support meshes"
" without boundary attributes."
)
// 3. Postprocess the mesh.
// 3A. Refine the mesh to increase the resolution.
for (int l = 0; l < ref_levels; l++)
{
mesh.UniformRefinement();
}
// 3B. Interpolate the geometry after refinement to control geometry error.
// NOTE: Minimum second-order interpolation is used to improve the accuracy.
int curvature_order = max(order,2);
mesh.SetCurvature(curvature_order);
// 4. Define the necessary finite element spaces on the mesh.
RT_FECollection RTfec(order, dim);
FiniteElementSpace RTfes(&mesh, &RTfec);
L2_FECollection L2fec(order, dim);
FiniteElementSpace L2fes(&mesh, &L2fec);
cout << "Number of H(div) dofs: "
<< RTfes.GetTrueVSize() << endl;
cout << "Number of L² dofs: "
<< L2fes.GetTrueVSize() << endl;
// 5. Define the offsets for the block matrices
Array<int> offsets(3);
offsets[0] = 0;
offsets[1] = RTfes.GetVSize();
offsets[2] = L2fes.GetVSize();
offsets.PartialSum();
BlockVector x(offsets), rhs(offsets);
x = 0.0; rhs = 0.0;
// 6. Define the solution vectors as a finite element grid functions
// corresponding to the fespaces.
GridFunction u_gf, delta_psi_gf;
delta_psi_gf.MakeRef(&RTfes,x,offsets[0]);
u_gf.MakeRef(&L2fes,x,offsets[1]);
GridFunction psi_old_gf(&RTfes);
GridFunction psi_gf(&RTfes);
GridFunction u_old_gf(&L2fes);
// 7. Define initial guesses for the solution variables.
delta_psi_gf = 0.0;
psi_gf = 0.0;
u_gf = 0.0;
psi_old_gf = psi_gf;
u_old_gf = u_gf;
// 8. Prepare for glvis output.
char vishost[] = "localhost";
int visport = 19916;
socketstream sol_sock;
if (visualization)
{
sol_sock.open(vishost,visport);
sol_sock.precision(8);
}
// 9. Coefficients to be used later.
ConstantCoefficient neg_one(-1.0);
ConstantCoefficient zero(0.0);
ConstantCoefficient tichonov_cf(tichonov);
ConstantCoefficient neg_tichonov_cf(-1.0*tichonov);
ZCoefficient Z(sdim, psi_gf, alpha);
DZCoefficient DZ(sdim, psi_gf, alpha);
ScalarVectorProductCoefficient neg_Z(-1.0, Z);
DivergenceGridFunctionCoefficient div_psi_cf(&psi_gf);
DivergenceGridFunctionCoefficient div_psi_old_cf(&psi_old_gf);
SumCoefficient psi_old_minus_psi(div_psi_old_cf, div_psi_cf, 1.0, -1.0);
// 10. Assemble constant matrices/vectors to avoid reassembly in the loop.
LinearForm b0, b1;
b0.MakeRef(&RTfes,rhs.GetBlock(0),0);
b1.MakeRef(&L2fes,rhs.GetBlock(1),0);
b0.AddDomainIntegrator(new VectorFEDomainLFIntegrator(neg_Z));
b1.AddDomainIntegrator(new DomainLFIntegrator(neg_one));
b1.AddDomainIntegrator(new DomainLFIntegrator(psi_old_minus_psi));
BilinearForm a00(&RTfes);
a00.AddDomainIntegrator(new VectorFEMassIntegrator(DZ));
a00.AddDomainIntegrator(new VectorFEMassIntegrator(tichonov_cf));
MixedBilinearForm a10(&RTfes,&L2fes);
a10.AddDomainIntegrator(new VectorFEDivergenceIntegrator());
a10.Assemble();
a10.Finalize();
SparseMatrix &A10 = a10.SpMat();
SparseMatrix *A01 = Transpose(A10);
BilinearForm a11(&L2fes);
a11.AddDomainIntegrator(new MassIntegrator(neg_tichonov_cf));
a11.Assemble();
a11.Finalize();
SparseMatrix &A11 = a11.SpMat();
// 11. Iterate.
int k;
int total_iterations = 0;
real_t increment_u = 0.1;
GridFunction u_tmp(&L2fes);
for (k = 0; k < max_it; k++)
{
u_tmp = u_old_gf;
Z.SetAlpha(alpha);
DZ.SetAlpha(alpha);
mfem::out << "\nOUTER ITERATION " << k+1 << endl;
int j;
for ( j = 0; j < 5; j++)
{
total_iterations++;
b0.Assemble();
b1.Assemble();
a00.Assemble(false);
a00.Finalize(false);
SparseMatrix &A00 = a00.SpMat();
// Construct Schur-complement preconditioner
Vector A00_diag(a00.Height());
A00.GetDiag(A00_diag);
A00_diag.Reciprocal();
SparseMatrix *S = Mult_AtDA(*A01, A00_diag);
BlockDiagonalPreconditioner prec(offsets);
prec.SetDiagonalBlock(0,new DSmoother(A00));
#ifndef MFEM_USE_SUITESPARSE
prec.SetDiagonalBlock(1,new GSSmoother(*S));
#else
prec.SetDiagonalBlock(1,new UMFPackSolver(*S));
#endif
prec.owns_blocks = 1;
BlockOperator A(offsets);
A.SetBlock(0,0,&A00);
A.SetBlock(1,0,&A10);
A.SetBlock(0,1,A01);
A.SetBlock(1,1,&A11);
GMRES(A,prec,rhs,x,0,2000,500,1e-12,0.0);
delete S;
u_tmp -= u_gf;
real_t Newton_update_size = u_tmp.ComputeL2Error(zero);
u_tmp = u_gf;
// Damped Newton update
psi_gf.Add(newton_scaling, delta_psi_gf);
a00.Update();
if (visualization)
{
sol_sock << "solution\n" << mesh << u_gf << "window_title 'Discrete solution'"
<< flush;
}
mfem::out << "Newton_update_size = " << Newton_update_size << endl;
if (Newton_update_size < increment_u)
{
break;
}
}
u_tmp = u_gf;
u_tmp -= u_old_gf;
increment_u = u_tmp.ComputeL2Error(zero);
mfem::out << "Number of Newton iterations = " << j+1 << endl;
mfem::out << "Increment (|| uₕ - uₕ_prvs||) = " << increment_u << endl;
u_old_gf = u_gf;
psi_old_gf = psi_gf;
if (increment_u < tol || k == max_it-1)
{
break;
}
alpha *= max(growth_rate, 1_r);
}
mfem::out << "\n Outer iterations: " << k+1
<< "\n Total iterations: " << total_iterations
<< "\n Total dofs: " << RTfes.GetTrueVSize() + L2fes.GetTrueVSize()
<< endl;
delete A01;
return 0;
}
void ZCoefficient::Eval(Vector &V, ElementTransformation &T,
const IntegrationPoint &ip)
{
MFEM_ASSERT(psi != NULL, "grid function is not set");
MFEM_ASSERT(alpha > 0, "alpha is not positive");
Vector psi_vals(vdim);
psi->GetVectorValue(T, ip, psi_vals);
real_t norm = psi_vals.Norml2();
real_t phi = 1.0 / sqrt(1.0/(alpha*alpha) + norm*norm);
V = psi_vals;
V *= phi;
}
void DZCoefficient::Eval(DenseMatrix &K, ElementTransformation &T,
const IntegrationPoint &ip)
{
MFEM_ASSERT(psi != NULL, "grid function is not set");
MFEM_ASSERT(alpha > 0, "alpha is not positive");
Vector psi_vals(height);
psi->GetVectorValue(T, ip, psi_vals);
real_t norm = psi_vals.Norml2();
real_t phi = 1.0 / sqrt(1.0/(alpha*alpha) + norm*norm);
K = 0.0;
for (int i = 0; i < height; i++)
{
K(i,i) = phi;
for (int j = 0; j < height; j++)
{
K(i,j) -= psi_vals(i) * psi_vals(j) * pow(phi, 3);
}
}
}
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// MFEM Example 40 - Parallel Version
//
// Compile with: make ex40p
//
// Sample runs: mpirun -np 4 ex40p -step 10 -gr 2.0
// mpirun -np 4 ex40p -step 10 -gr 2.0 -o 3 -r 1
// mpirun -np 4 ex40p -step 10 -gr 2.0 -r 4 -m ../data/l-shape.mesh
// mpirun -np 4 ex40p -step 10 -gr 2.0 -r 2 -m ../data/fichera.mesh
//
// Description: This example code demonstrates how to use MFEM to solve the
// eikonal equation,
//
// |∇𝑢| = 1 in Ω, 𝑢 = g on ∂Ω.
//
// The solution of this problem coincides with the unique optimum of
// the nonlinear program
//
// maximize ∫_Ω 𝑢 d𝑥 subject to |∇𝑢| ≤ 1, 𝑢 = g on Ω, (⋆)
//
// which is the foundation for method implemented below.
//
// Following the proximal Galerkin methodology [1] (see also Example
// 36), we construct a Legendre function for the unit ball
// 𝐵₁ := {𝑥 ∈ Rⁿ | |𝑥| < 1}. Our choice is the Hellinger entropy,
//
// h(𝑥) = ( 1 |𝑥|² )^{1/2},
//
// although other choices are possible, each leading to a slightly
// different algorithm. We then adaptively regularize the optimization
// problem (⋆) with the Bregman divergence of the Hellinger entropy,
//
// maximize ∫_Ω 𝑢 d𝑥 - αₖ⁻¹ Dₕ(∇𝑢,∇𝑢ₖ₋₁) subject to 𝑢 = g on Ω.
//
// This results in a sequence of functions ( 𝜓ₖ , 𝑢ₖ ),
//
// 𝑢ₖ → 𝑢, 𝜓ₖ/|𝜓ₖ| → ∇𝑢 as k → \infty,
//
// defined by the nonlinear saddle-point problems
//
// Find 𝜓ₖ ∈ H(div,Ω) and 𝑢ₖ ∈ L²(Ω) such that
// ( Zₖ(𝜓ₖ) , τ ) + ( 𝑢ₖ , ∇⋅τ ) = ⟨ g , τ⋅n ⟩ ∀ τ ∈ H(div,Ω)
// ( ∇⋅𝜓ₖ , v ) = ( ∇⋅𝜓ₖ₋₁ - 1 , v ) ∀ v ∈ L²(Ω)
//
// where Zₖ(𝜓) := ∇h⁻¹(αₖ 𝜓) = 𝜓 / ( αₖ⁻² + |𝜓|² )^{1/2} and step size
// αₖ > 0. These saddle-point problems are solved using a damped Newton's
// method. This example assumes that g = 0 and allows the step size to
// grow geometrically, αₖ = α₀rᵏ, where r ≥ 1 is the growth rate.
//
// [1] Keith, B. and Surowiec, T. (2023) Proximal Galerkin: A structure-
// preserving finite element method for pointwise bound constraints.
// arXiv:2307.12444 [math.NA]
#include "mfem.hpp"
#include <fstream>
#include <iostream>
using namespace std;
using namespace mfem;
class ZCoefficient : public VectorCoefficient
{
protected:
ParGridFunction *psi;
real_t alpha;
public:
ZCoefficient(int vdim, ParGridFunction &psi_, real_t alpha_ = 1.0)
: VectorCoefficient(vdim), psi(&psi_), alpha(alpha_) { }
virtual void Eval(Vector &V, ElementTransformation &T,
const IntegrationPoint &ip);
void SetAlpha(real_t alpha_) { alpha = alpha_; }
};
class DZCoefficient : public MatrixCoefficient
{
protected:
ParGridFunction *psi;
real_t alpha;
public:
DZCoefficient(int height, ParGridFunction &psi_, real_t alpha_ = 1.0)
: MatrixCoefficient(height), psi(&psi_), alpha(alpha_) { }
virtual void Eval(DenseMatrix &K, ElementTransformation &T,
const IntegrationPoint &ip);
void SetAlpha(real_t alpha_) { alpha = alpha_; }
};
int main(int argc, char *argv[])
{
// 0. Initialize MPI and HYPRE.
Mpi::Init();
int num_procs = Mpi::WorldSize();
int myid = Mpi::WorldRank();
Hypre::Init();
// 1. Parse command-line options.
const char *mesh_file = "../data/star.mesh";
int order = 1;
int max_it = 5;
int ref_levels = 3;
real_t alpha = 1.0;
real_t growth_rate = 1.0;
real_t newton_scaling = 0.9;
real_t tichonov = 1e-1;
real_t tol = 1e-4;
bool visualization = true;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&order, "-o", "--order",
"Finite element order (polynomial degree).");
args.AddOption(&ref_levels, "-r", "--refs",
"Number of h-refinements.");
args.AddOption(&max_it, "-mi", "--max-it",
"Maximum number of iterations");
args.AddOption(&tol, "-tol", "--tol",
"Stopping criteria based on the difference between"
"successive solution updates");
args.AddOption(&alpha, "-step", "--step",
"Initial size alpha");
args.AddOption(&growth_rate, "-gr", "--growth-rate",
"Growth rate of the step size alpha");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
args.Parse();
if (!args.Good())
{
if (myid == 0)
{
args.PrintUsage(cout);
}
return 1;
}
if (myid == 0)
{
args.PrintOptions(cout);
}
// 2. Read the mesh from the mesh file.
Mesh mesh(mesh_file, 1, 1);
int dim = mesh.Dimension();
int sdim = mesh.SpaceDimension();
MFEM_ASSERT(mesh.bdr_attributes.Size(),
"This example does not currently support meshes"
" without boundary attributes."
)
// 3. Postprocess the mesh.
// 3A. Refine the mesh to increase the resolution.
for (int l = 0; l < ref_levels; l++)
{
mesh.UniformRefinement();
}
// 3B. Interpolate the geometry after refinement to control geometry error.
// NOTE: Minimum second-order interpolation is used to improve the accuracy.
int curvature_order = max(order,2);
mesh.SetCurvature(curvature_order);
ParMesh pmesh(MPI_COMM_WORLD, mesh);
mesh.Clear();
// 4. Define the necessary finite element spaces on the mesh.
RT_FECollection RTfec(order, dim);
ParFiniteElementSpace RTfes(&pmesh, &RTfec);
L2_FECollection L2fec(order, dim);
ParFiniteElementSpace L2fes(&pmesh, &L2fec);
int num_dofs_RT = RTfes.GlobalTrueVSize();
int num_dofs_L2 = L2fes.GlobalTrueVSize();
if (myid == 0)
{
cout << "Number of H(div) dofs: "
<< num_dofs_RT << endl;
cout << "Number of L² dofs: "
<< num_dofs_L2 << endl;
}
// 5. Define the offsets for the block matrices
Array<int> offsets(3);
offsets[0] = 0;
offsets[1] = RTfes.GetVSize();
offsets[2] = L2fes.GetVSize();
offsets.PartialSum();
Array<int> toffsets(3);
toffsets[0] = 0;
toffsets[1] = RTfes.GetTrueVSize();
toffsets[2] = L2fes.GetTrueVSize();
toffsets.PartialSum();
BlockVector x(offsets), rhs(offsets);
x = 0.0; rhs = 0.0;
BlockVector tx(toffsets), trhs(toffsets);
tx = 0.0; trhs = 0.0;
// 6. Define the solution vectors as a finite element grid functions
// corresponding to the fespaces.
ParGridFunction u_gf, delta_psi_gf;
delta_psi_gf.MakeRef(&RTfes,x,offsets[0]);
u_gf.MakeRef(&L2fes,x,offsets[1]);
ParGridFunction psi_old_gf(&RTfes);
ParGridFunction psi_gf(&RTfes);
ParGridFunction u_old_gf(&L2fes);
// 7. Define initial guesses for the solution variables.
delta_psi_gf = 0.0;
psi_gf = 0.0;
u_gf = 0.0;
psi_old_gf = psi_gf;
u_old_gf = u_gf;
// 8. Prepare for glvis output.
char vishost[] = "localhost";
int visport = 19916;
socketstream sol_sock;
if (visualization)
{
sol_sock.open(vishost,visport);
sol_sock.precision(8);
}
// 9. Coefficients to be used later.
ConstantCoefficient neg_one(-1.0);
ConstantCoefficient zero(0.0);
ConstantCoefficient tichonov_cf(tichonov);
ConstantCoefficient neg_tichonov_cf(-1.0*tichonov);
ZCoefficient Z(sdim, psi_gf, alpha);
DZCoefficient DZ(sdim, psi_gf, alpha);
ScalarVectorProductCoefficient neg_Z(-1.0, Z);
DivergenceGridFunctionCoefficient div_psi_cf(&psi_gf);
DivergenceGridFunctionCoefficient div_psi_old_cf(&psi_old_gf);
SumCoefficient psi_old_minus_psi(div_psi_old_cf, div_psi_cf, 1.0, -1.0);
// 10. Assemble constant matrices/vectors to avoid reassembly in the loop.
ParLinearForm b0, b1;
b0.MakeRef(&RTfes,rhs.GetBlock(0),0);
b1.MakeRef(&L2fes,rhs.GetBlock(1),0);
b0.AddDomainIntegrator(new VectorFEDomainLFIntegrator(neg_Z));
b1.AddDomainIntegrator(new DomainLFIntegrator(neg_one));
b1.AddDomainIntegrator(new DomainLFIntegrator(psi_old_minus_psi));
ParBilinearForm a00(&RTfes);
a00.AddDomainIntegrator(new VectorFEMassIntegrator(DZ));
a00.AddDomainIntegrator(new VectorFEMassIntegrator(tichonov_cf));
ParMixedBilinearForm a10(&RTfes,&L2fes);
a10.AddDomainIntegrator(new VectorFEDivergenceIntegrator());
a10.Assemble();
a10.Finalize();
HypreParMatrix *A10 = a10.ParallelAssemble();
HypreParMatrix *A01 = A10->Transpose();
ParBilinearForm a11(&L2fes);
a11.AddDomainIntegrator(new MassIntegrator(neg_tichonov_cf));
a11.Assemble();
a11.Finalize();
HypreParMatrix *A11 = a11.ParallelAssemble();
// 11. Iterate.
int k;
int total_iterations = 0;
real_t increment_u = 0.1;
ParGridFunction u_tmp(&L2fes);
for (k = 0; k < max_it; k++)
{
u_tmp = u_old_gf;
Z.SetAlpha(alpha);
DZ.SetAlpha(alpha);
if (myid == 0)
{
mfem::out << "\nOUTER ITERATION " << k+1 << endl;
}
int j;
for ( j = 0; j < 5; j++)
{
total_iterations++;
b0.Assemble();
b0.ParallelAssemble(trhs.GetBlock(0));
b1.Assemble();
b1.ParallelAssemble(trhs.GetBlock(1));
a00.Assemble(false);
a00.Finalize(false);
HypreParMatrix *A00 = a00.ParallelAssemble();
// Construct Schur-complement preconditioner
HypreParVector A00_diag(MPI_COMM_WORLD, A00->GetGlobalNumRows(),
A00->GetRowStarts());
A00->GetDiag(A00_diag);
HypreParMatrix S_tmp(*A01);
S_tmp.InvScaleRows(A00_diag);
HypreParMatrix *S = ParMult(A10, &S_tmp, true);
BlockDiagonalPreconditioner prec(toffsets);
HypreBoomerAMG P00(*A00);
P00.SetPrintLevel(0);
HypreBoomerAMG P11(*S);
P11.SetPrintLevel(0);
prec.SetDiagonalBlock(0,&P00);
prec.SetDiagonalBlock(1,&P11);
BlockOperator A(toffsets);
A.SetBlock(0,0,A00);
A.SetBlock(1,0,A10);
A.SetBlock(0,1,A01);
A.SetBlock(1,1,A11);
GMRESSolver gmres(MPI_COMM_WORLD);
gmres.SetPrintLevel(-1);
gmres.SetRelTol(1e-8);
gmres.SetMaxIter(2000);
gmres.SetKDim(500);
gmres.SetOperator(A);
gmres.SetPreconditioner(prec);
gmres.Mult(trhs,tx);
delete S;
delete A00;
delta_psi_gf.SetFromTrueDofs(tx.GetBlock(0));
u_gf.SetFromTrueDofs(tx.GetBlock(1));
u_tmp -= u_gf;
real_t Newton_update_size = u_tmp.ComputeL2Error(zero);
u_tmp = u_gf;
// Damped Newton update
psi_gf.Add(newton_scaling, delta_psi_gf);
a00.Update();
if (visualization)
{
sol_sock << "parallel " << num_procs << " " << myid << "\n";
sol_sock << "solution\n" << pmesh << u_gf << "window_title 'Discrete solution'"
<< flush;
}
if (myid == 0)
{
mfem::out << "Newton_update_size = " << Newton_update_size << endl;
}
if (Newton_update_size < increment_u)
{
break;
}
}
u_tmp = u_gf;
u_tmp -= u_old_gf;
increment_u = u_tmp.ComputeL2Error(zero);
if (myid == 0)
{
mfem::out << "Number of Newton iterations = " << j+1 << endl;
mfem::out << "Increment (|| uₕ - uₕ_prvs||) = " << increment_u << endl;
}
u_old_gf = u_gf;
psi_old_gf = psi_gf;
if (increment_u < tol || k == max_it-1)
{
break;
}
alpha *= max(growth_rate, 1_r);
}
// 12. Print stats.
if (myid == 0)
{
mfem::out << "\n Outer iterations: " << k+1
<< "\n Total iterations: " << total_iterations
<< "\n Total dofs: " << RTfes.GetTrueVSize() + L2fes.GetTrueVSize()
<< endl;
}
// 13. Free the used memory.
delete A01;
delete A10;
delete A11;
return 0;
}
void ZCoefficient::Eval(Vector &V, ElementTransformation &T,
const IntegrationPoint &ip)
{
MFEM_ASSERT(psi != NULL, "grid function is not set");
MFEM_ASSERT(alpha > 0, "alpha is not positive");
Vector psi_vals(vdim);
psi->GetVectorValue(T, ip, psi_vals);
real_t norm = psi_vals.Norml2();
real_t phi = 1.0 / sqrt(1.0/(alpha*alpha) + norm*norm);
V = psi_vals;
V *= phi;
}
void DZCoefficient::Eval(DenseMatrix &K, ElementTransformation &T,
const IntegrationPoint &ip)
{
MFEM_ASSERT(psi != NULL, "grid function is not set");
MFEM_ASSERT(alpha > 0, "alpha is not positive");
Vector psi_vals(height);
psi->GetVectorValue(T, ip, psi_vals);
real_t norm = psi_vals.Norml2();
real_t phi = 1.0 / sqrt(1.0/(alpha*alpha) + norm*norm);
K = 0.0;
for (int i = 0; i < height; i++)
{
K(i,i) = phi;
for (int j = 0; j < height; j++)
{
K(i,j) -= psi_vals(i) * psi_vals(j) * pow(phi, 3);
}
}
}
-782
View File
@@ -1,782 +0,0 @@
// MFEM Example 3 - Parallel Version
//
// Compile with: make ex3p
//
// Sample runs: mpirun -np 4 ex3p -m ../data/star.mesh
// mpirun -np 4 ex3p -m ../data/square-disc.mesh -o 2
// mpirun -np 4 ex3p -m ../data/beam-tet.mesh
// mpirun -np 4 ex3p -m ../data/beam-hex.mesh
// mpirun -np 4 ex3p -m ../data/escher.mesh
// mpirun -np 4 ex3p -m ../data/fichera.mesh
// mpirun -np 4 ex3p -m ../data/fichera-q2.vtk
// mpirun -np 4 ex3p -m ../data/fichera-q3.mesh
// mpirun -np 4 ex3p -m ../data/square-disc-nurbs.mesh
// mpirun -np 4 ex3p -m ../data/beam-hex-nurbs.mesh
// mpirun -np 4 ex3p -m ../data/amr-quad.mesh -o 2
// mpirun -np 4 ex3p -m ../data/amr-hex.mesh
// mpirun -np 4 ex3p -m ../data/star-surf.mesh -o 2
// mpirun -np 4 ex3p -m ../data/mobius-strip.mesh -o 2 -f 0.1
// mpirun -np 4 ex3p -m ../data/klein-bottle.mesh -o 2 -f 0.1
//
// Description: This example code solves a simple electromagnetic diffusion
// problem corresponding to the second order definite Maxwell
// equation curl curl E + E = f with boundary condition
// E x n = <given tangential field>. Here, we use a given exact
// solution E and compute the corresponding r.h.s. f.
// We discretize with Nedelec finite elements in 2D or 3D.
//
// The example demonstrates the use of H(curl) finite element
// spaces with the curl-curl and the (vector finite element) mass
// bilinear form, as well as the computation of discretization
// error when the exact solution is known. Static condensation is
// also illustrated.
//
// We recommend viewing examples 1-2 before viewing this example.
#include "mfem.hpp"
#include <fstream>
#include <iostream>
#include "./spe10_coeff.cpp"
using namespace std;
using namespace mfem;
int* LoadIterations(int NRows, int NCol)
{
ifstream in("iter_DivSkew.txt");
//initialize
int *iters = new int[NCol*NRows];
for (int col = 0; col < NCol; col++)
{
for (int row = 0; row < NRows; row++)
{
iters[row*NCol+col] = -1;
}
}
if (!in)
{
cout << "Cannot open file.\n";
return iters;
}
for (int row = 0; row < NRows; row++)
for (int col = 0; col < NCol; col++)
{
if (in.eof())
{
in.close();
return iters;
}
in >> iters[row*NCol+col];
}
in.close();
return iters;
}
void putIterationsInArray(int iter, int row, int col, int NCol, int* iters)
{
iters[row*NCol+col] = iter;
}
void WriteIterations(int *iters, int NRows, int NCol)
{
ofstream out;
out.open("iter_DivSkew.txt",fstream::out);
if (!out)
{
cout << "Cannot open file.\n";
delete[] iters;
return;
}
for (int row = 0; row < NRows; row++)
{
for (int col = 0; col < NCol; col++)
{
out << iters[row*NCol+col] << "\t";
}
out << endl;
}
out.close();
delete[] iters;
}
// Exact solution, E, and r.h.s., f. See below for implementation.
void E_exact_vec(const Vector &x, Vector &E);
void E_exact(const Vector &, DenseMatrix &);
void f_exact(const Vector &, DenseMatrix &);
class DivSkew4dPrec : public Solver
{
private:
HypreParMatrix *A;
ParFiniteElementSpace *fespace;
Coefficient *alpha_, *beta_;
//kernel operators
HypreParMatrix *P_d_HCurl_HDivSkew;
HypreParMatrix *P_H1_HCurl;
HypreParMatrix *H1_KernelMat;
HypreBoomerAMG *amgH1_Kernel;
//"image" operators
HypreParMatrix *P_H1_HDivSkew;
HypreParMatrix *H1_ImageMat;
HypreBoomerAMG *amgH1_Image;
HypreParMatrix *HCurlMat;
HypreSmoother * smootherDivSkew;
HypreSmoother * smootherCurl;
CGSolver *pcgKernel;
CGSolver *pcgImage;
Vector *f;
Vector *fKernel, *uKernel;
Vector *fImage, *uImage;
Vector *fCurl, *uCurl;
bool exactSolves;
FiniteElementCollection* fecHCurlKernel;
ParFiniteElementSpace *HCurlKernelFESpace;
public:
~DivSkew4dPrec()
{
delete pcgImage, pcgKernel;
delete f, fKernel, uKernel, fImage, uImage, fCurl, uCurl;
delete smootherCurl, HCurlMat;
delete P_d_HCurl_HDivSkew, P_H1_HDivSkew, P_H1_HCurl;
delete amgH1_Image, H1_ImageMat;
delete amgH1_Kernel, H1_KernelMat;
delete smootherDivSkew;
delete HCurlKernelFESpace, fecHCurlKernel;
}
DivSkew4dPrec(HypreParMatrix *AUser, ParFiniteElementSpace *fespaceUser,
Coefficient *alpha, Coefficient *beta,
const Array<int> &essBnd, int orderKernel=1, bool exactSolvesUser=false)
{
A = AUser;
fespace = fespaceUser;
alpha_ = alpha;
beta_ = beta;
ParMesh *pmesh = fespace->GetParMesh();
int dim = pmesh->Dimension();
exactSolves = exactSolvesUser;
int orderIm=1; //H1 --> H(divSkew)
int orderKer=orderKernel; //curl V --> H(divSkew)
smootherDivSkew = new HypreSmoother(*A, 16, 3);
Array<int> HDivSkew_essDof(fespace->GetVSize()); HDivSkew_essDof = 0;
fespace->GetEssentialVDofs(essBnd, HDivSkew_essDof);
//setup the H1 FESpace for the kernel
FiniteElementCollection* fecH1Kernel = new H1_FECollection(orderKer, 4);
ParFiniteElementSpace *H1KernelFESpace = new ParFiniteElementSpace(pmesh,
fecH1Kernel, dim, Ordering::byVDIM);
Array<int> H1Kernel_essDof(H1KernelFESpace->GetVSize()); H1Kernel_essDof = 0;
H1KernelFESpace->GetEssentialVDofs(essBnd, H1Kernel_essDof);
//setup the H(curl) FESpace for the kernel
if (orderKer==1) { fecHCurlKernel = new ND1_4DFECollection; }
else { fecHCurlKernel = new ND2_4DFECollection; }
HCurlKernelFESpace = new ParFiniteElementSpace(pmesh,
fecHCurlKernel);
Array<int> HCurlKernel_essDof(HCurlKernelFESpace->GetVSize());
HCurlKernel_essDof = 0;
HCurlKernelFESpace->GetEssentialVDofs(essBnd, HCurlKernel_essDof);
//setup the FESpace for the H1 injection
FiniteElementCollection* fecH1Vec;
if (orderIm==1) { fecH1Vec = new LinearFECollection; }
else { fecH1Vec = new QuadraticFECollection; }
ParFiniteElementSpace *H1_ImageFESpace = new ParFiniteElementSpace(pmesh,
fecH1Vec, 6, Ordering::byVDIM);
Array<int> H1Image_essDof(H1_ImageFESpace->GetVSize()); H1Image_essDof = 0;
H1_ImageFESpace->GetEssentialVDofs(essBnd, H1Image_essDof);
//setup the H1 preconditioner for the kernel
ParBilinearForm* H1Varf = new ParBilinearForm(H1KernelFESpace);
H1Varf->AddDomainIntegrator(new VectorDiffusionIntegrator(*beta_));
// H1Varf->AddDomainIntegrator(new VectorMassIntegrator);
H1Varf->Assemble();
H1Varf->Finalize();
SparseMatrix &matH1(H1Varf->SpMat());
for (int dof = 0; dof < H1Kernel_essDof.Size(); dof++)
if (H1Kernel_essDof[dof] < 0)
{
matH1.EliminateRowCol(dof);
}
H1_KernelMat = H1Varf->ParallelAssemble();
delete H1Varf;
amgH1_Kernel = new HypreBoomerAMG(*H1_KernelMat);
amgH1_Kernel->SetSystemsOptions(dim);
amgH1_Kernel->SetPrintLevel(0);
//setup the H1 preconditioner for the image
ParBilinearForm* H1VecVarf = new ParBilinearForm(H1_ImageFESpace);
VectorDiffusionIntegrator *alpha_integ = new VectorDiffusionIntegrator(*alpha_);
alpha_integ->SetVDim(6);
H1VecVarf->AddDomainIntegrator(alpha_integ);
VectorMassIntegrator *beta_integ = new VectorMassIntegrator(*beta);
beta_integ->SetVDim(6);
H1VecVarf->AddDomainIntegrator(beta_integ);
H1VecVarf->Assemble();
H1VecVarf->Finalize();
SparseMatrix &matH1Vec(H1VecVarf->SpMat());
for (int dof=0; dof<H1Image_essDof.Size(); dof++) if (H1Image_essDof[dof]<0) { matH1Vec.EliminateRowCol(dof); }
H1_ImageMat = H1VecVarf->ParallelAssemble();
delete H1VecVarf;
amgH1_Image = new HypreBoomerAMG(*H1_ImageMat);
amgH1_Image->SetSystemsOptions(6);
amgH1_Image->SetPrintLevel(0);
//setup the injection of H1 into H(curl)
ParDiscreteLinearOperator *disInterpol = new ParDiscreteLinearOperator(
H1KernelFESpace, HCurlKernelFESpace);
disInterpol->AddDomainInterpolator(new IdentityInterpolator);
disInterpol->Assemble();
disInterpol->Finalize();
SparseMatrix* smatID = &(disInterpol->SpMat());
smatID->EliminateCols(H1Kernel_essDof);
for (int dof=0; dof<HCurlKernel_essDof.Size();
dof++) if (HCurlKernel_essDof[dof]<0) { smatID->EliminateRow(dof); }
P_H1_HCurl = disInterpol->ParallelAssemble();
delete disInterpol;
//setup the injection of H1 into H(DivSkew)
ParDiscreteLinearOperator *disInterpolIm = new ParDiscreteLinearOperator(
H1_ImageFESpace, fespace);
disInterpolIm->AddDomainInterpolator(new IdentityInterpolator);
disInterpolIm->Assemble();
disInterpolIm->Finalize();
SparseMatrix* smatIDIm = &(disInterpolIm->SpMat());
smatIDIm->EliminateCols(H1Image_essDof);
for (int dof=0; dof<HDivSkew_essDof.Size(); dof++) if (HDivSkew_essDof[dof]<0) { smatIDIm->EliminateRow(dof); }
P_H1_HDivSkew = disInterpolIm->ParallelAssemble();
delete disInterpolIm;
//setup the injection of the curl(H(curl)) into H(DivSkew)
ParDiscreteLinearOperator *disCurl = new ParDiscreteLinearOperator(
HCurlKernelFESpace, fespace);
disCurl->AddDomainInterpolator(new CurlInterpolator);
disCurl->Assemble();
disCurl->Finalize();
SparseMatrix* smatCurl = &(disCurl->SpMat());
smatCurl->EliminateCols(HCurlKernel_essDof);
for (int dof=0; dof<HDivSkew_essDof.Size(); dof++) if (HDivSkew_essDof[dof]<0) { smatCurl->EliminateRow(dof); }
P_d_HCurl_HDivSkew = disCurl->ParallelAssemble();
delete disCurl;
//setup the smoother for H(curl)
// Coefficient *massC = new ConstantCoefficient(1.0);
// Coefficient *CurlCurlC = new ConstantCoefficient(1.0);
ParBilinearForm *a_HCurl = new ParBilinearForm(HCurlKernelFESpace);
a_HCurl->AddDomainIntegrator(new CurlCurlIntegrator(*beta_));
// a_HCurl->AddDomainIntegrator(new CurlCurlIntegrator(*CurlCurlC));
// a_HCurl->AddDomainIntegrator(new VectorFEMassIntegrator(*massC));
a_HCurl->Assemble();
a_HCurl->Finalize();
SparseMatrix &matHCurl(a_HCurl->SpMat());
for (int dof=0; dof<HCurlKernel_essDof.Size();
dof++) if (HCurlKernel_essDof[dof]<0) { matHCurl.EliminateRowCol(dof); }
HCurlMat = a_HCurl->ParallelAssemble();
delete a_HCurl;
smootherCurl = new HypreSmoother(*HCurlMat, 16, 3);
f = new Vector(fespace->GetTrueVSize());
fKernel = new Vector(H1KernelFESpace->GetTrueVSize());
uKernel = new Vector(H1KernelFESpace->GetTrueVSize());
fImage = new Vector(H1_ImageFESpace->GetTrueVSize());
uImage = new Vector(H1_ImageFESpace->GetTrueVSize());
fCurl = new Vector(HCurlKernelFESpace->GetTrueVSize());
uCurl = new Vector(HCurlKernelFESpace->GetTrueVSize());
amgH1_Kernel->Mult(*fKernel, *uKernel);
amgH1_Image->Mult(*fImage, *uImage);
pcgKernel = new CGSolver(MPI_COMM_WORLD);
pcgKernel->SetOperator(*H1_KernelMat);
pcgKernel->SetPreconditioner(*amgH1_Kernel);
pcgKernel->SetRelTol(1e-16);
pcgKernel->SetMaxIter(100000000);
pcgKernel->SetPrintLevel(-2);
pcgImage = new CGSolver(MPI_COMM_WORLD);
pcgImage->SetOperator(*H1_ImageMat);
pcgImage->SetPreconditioner(*amgH1_Image);
pcgImage->SetRelTol(1e-16);
pcgImage->SetMaxIter(100000000);
pcgImage->SetPrintLevel(-2);
delete H1KernelFESpace, fecH1Kernel;
delete H1_ImageFESpace, fecH1Vec;
}
void setExactSolve(bool exSol)
{
exactSolves = exSol;
}
virtual void Mult(const Vector &x, Vector &y) const
{
smootherDivSkew->Mult(x,y);
P_H1_HDivSkew->MultTranspose(x,*fImage);
*uImage = 0.0;
if (exactSolves) { pcgImage->Mult(*fImage, *uImage); }
else { amgH1_Image->Mult(*fImage, *uImage); }
P_H1_HDivSkew->Mult(1.0, *uImage, 1.0, y);
*uCurl = 0.0;
P_d_HCurl_HDivSkew->MultTranspose(x,*fCurl);
smootherCurl->Mult(*fCurl, *uCurl);
P_H1_HCurl->MultTranspose(*fCurl,*fKernel);
*uKernel = 0.0;
if (exactSolves) { pcgKernel->Mult(*fKernel, *uKernel); }
else { amgH1_Kernel->Mult(*fKernel, *uKernel); }
P_H1_HCurl->Mult(1.0, *uKernel, 1.0, *uCurl);
P_d_HCurl_HDivSkew->Mult(1.0, *uCurl, 1.0, y);
}
virtual void SetOperator(const Operator &op) {};
};
int main(int argc, char *argv[])
{
// 1. Initialize MPI.
int num_procs, myid;
MPI_Init(&argc, &argv);
MPI_Comm_size(MPI_COMM_WORLD, &num_procs);
MPI_Comm_rank(MPI_COMM_WORLD, &myid);
bool verbose = (myid==0);
// 2. Parse command-line options.
const char *mesh_file = "../data/cube4d_96.MFEM";
int order = 1;
bool set_bc = true;
bool static_cond = false;
bool visualization = 1;
int sequ_ref_levels = 0;
int par_ref_levels = 0;
double tol = 1e-6;
double coeffWeight = 1.0;
bool exactH1Solver = false;
bool spe10Coeff = false;
bool standardCG = true;
int NExpo = 8;
int weightStart = -NExpo;
int weightEnd = NExpo;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&sequ_ref_levels, "-sr", "--seqrefinement",
"Number of sequential refinement steps.");
args.AddOption(&par_ref_levels, "-pr", "--parrefinement",
"Number of parallel refinement steps.");
args.AddOption(&order, "-o", "--order",
"Polynomial order of the finite element space.");
args.AddOption(&set_bc, "-bc", "--impose-bc", "-no-bc", "--dont-impose-bc",
"Impose or not essential boundary conditions.");
args.AddOption(&tol, "-tol", "--tol",
"A parameter.");
args.AddOption(&coeffWeight, "-c", "--coeffMass",
"the weight for the mass term.");
args.AddOption(&exactH1Solver, "-exH1Sol", "--exactH1Solver", "-H1prec",
"--H1preconditioner",
"Use exact H1 solvers for the preconditioner.");
args.AddOption(&spe10Coeff, "-spe10", "--useSPE10Coeff", "-constCoeff",
"--constCoeff",
"Switch between the coefficients for the mass bilinear form.");
args.AddOption(&standardCG, "-sCG", "--stdCG", "-rCG", "--resCG",
"Switch between standard PCG or recompute residuals in every step and use the residuals itself for the stopping criteria.");
args.AddOption(&weightStart, "-ws", "--weightStart",
"the exponent for the starting weight (for the mass term).");
args.AddOption(&weightEnd, "-we", "--weightEnd",
"the exponent for the weight at the end (for the mass term).");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
args.Parse();
if (!args.Good())
{
args.PrintUsage(cout);
return 1;
}
if (verbose) { args.PrintOptions(cout); }
Mesh *mesh;
ifstream imesh(mesh_file);
if (!imesh)
{
cerr << "\nCan not open mesh file: " << mesh_file << '\n' << endl;
return 2;
}
mesh = new Mesh(imesh, 1, 1);
imesh.close();
int dim = mesh->Dimension();
int sdim = mesh->SpaceDimension();
if (dim !=4 || sdim != 4)
{
MPI_Finalize();
return 0;
}
for (int i=0; i<sequ_ref_levels; i++) { mesh->UniformRefinement(); }
if (verbose) { mesh->PrintCharacteristics(); }
if (verbose) { cout << "now we partition the mesh..." << endl << endl; }
ParMesh *pmesh = new ParMesh(MPI_COMM_WORLD, *mesh);
delete mesh;
for (int i=0; i<par_ref_levels; i++) { pmesh->UniformRefinement(); }
pmesh->PrintInfo(std::cout);
if (verbose) { cout << endl; }
// 6. Define a parallel finite element space on the parallel mesh. Here we
// use the Nedelec finite elements of the specified order.
FiniteElementCollection *fec;
if (order==1) { fec = new DivSkew1_4DFECollection; }
// else fec = new F2K1_4DFECollection;
ParFiniteElementSpace *fespace = new ParFiniteElementSpace(pmesh, fec);
fespace->SetUpdateOperatorType(Operator::Hypre_ParCSR);
HYPRE_Int size = fespace->GlobalTrueVSize();
// 7. 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;
Array<int> ess_bdr(pmesh->bdr_attributes.Max());
ess_bdr = set_bc ? 1 : 0;
if (pmesh->bdr_attributes.Size())
{
fespace->GetEssentialTrueDofs(ess_bdr, ess_tdof_list);
}
if (myid == 0)
{
cout << "Number of finite element unknowns: " << size << endl;
}
// 8. Set up the parallel linear form b(.) which corresponds to the
// right-hand side of the FEM linear system, which in this case is
// (f,phi_i) where f is given by the function f_exact and phi_i are the
// basis functions in the finite element fespace.
MatrixFunctionCoefficient f(sdim, f_exact);
MatrixFunctionCoefficient solMat(sdim, E_exact);
VectorFunctionCoefficient solVec(6, E_exact_vec);
// 9. Define the solution vector x as a parallel finite element grid function
// corresponding to fespace. Initialize x by projecting the exact
// solution. Note that only values from the boundary edges will be used
// when eliminating the non-homogeneous boundary condition to modify the
// r.h.s. vector b.
ParGridFunction x(fespace);
for (int expo=weightStart; expo<=weightEnd; expo++)
{
double weight = pow(10.0,expo);
x.ProjectCoefficient(solVec);
ParLinearForm *b = new ParLinearForm(fespace);
b->AddDomainIntegrator(new MatFEDomainLFIntegrator(f));
b->Assemble();
// cout << x << endl;
// x = 0.0;
// 10. Set up the parallel bilinear form corresponding to the EM diffusion
// operator curl muinv curl + sigma I, by adding the curl-curl and the
// mass domain integrators.
// std::string permFile = "spe_perm.dat";
// InversePermeabilityFunction::ReadPermeabilityFile(permFile, MPI_COMM_WORLD);
Coefficient *alpha = new ConstantCoefficient(1.0);
Coefficient *beta;
// if(spe10Coeff) beta = new FunctionCoefficient(InversePermeabilityFunction::Norm2Permeability);
// else
beta = new ConstantCoefficient(weight);
ParBilinearForm *a = new ParBilinearForm(fespace);
a->AddDomainIntegrator(new DivSkewDivSkewIntegrator(*alpha));
a->AddDomainIntegrator(new VectorFE_DivSkewMassIntegrator(*beta));
// 11. 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();
HypreParMatrix A;
Vector B, X;
a->FormLinearSystem(ess_tdof_list, x, *b, A, X, B);
if (myid == 0)
{
cout << "Size of linear system: " << A.GetGlobalNumRows() << endl;
}
//Define the preconditioner
if (myid == 0) { cout << "Set up the preconditioner" << endl; }
Solver *prec;
if (dim==4) { prec = new DivSkew4dPrec(&A, fespace, alpha, beta, ess_bdr, order, exactH1Solver); }
IterativeSolver *pcg = new CGSolver(MPI_COMM_WORLD);
pcg->SetOperator(A);
pcg->SetRelTol(tol);
pcg->SetMaxIter(500);
pcg->SetPrintLevel(1);
pcg->SetPreconditioner(*prec);
pcg->Mult(B, X);
delete prec;
int iter = pcg->GetNumIterations();
if (myid==0)
{
cout << "Weigth: " << weight << " " << iter << endl;
int *iters = LoadIterations(10, 2*NExpo+1);
putIterationsInArray(iter, sequ_ref_levels+par_ref_levels, expo+NExpo,
2*NExpo+1, iters);
WriteIterations(iters, 10, 2*NExpo+1);
}
// 13. Recover the parallel grid function corresponding to X. This is the
// local finite element solution on each processor.
a->RecoverFEMSolution(X, *b, x);
// 14. Compute and print the L^2 norm of the error.
{
double error = 0.0;
for (int i = 0; i < fespace->GetNE(); i++)
{
const FiniteElement* fe = fespace->GetFE(i);
int fdof = fe->GetDof();
ElementTransformation* transf = fespace->GetElementTransformation(i);
DenseMatrix shape(fdof,dim*dim);
int intorder = 2*fe->GetOrder() + 1; // <----------
const IntegrationRule *ir;
ir = &(IntRules.Get(fe->GetGeomType(), intorder));
Vector elSol(dim*dim);
DenseMatrix elSolMat(dim,dim);
DenseMatrix exactSol(dim,dim);
Vector exactSolVec(dim*dim);
Array<int> vdofs;
fespace->GetElementVDofs(i, vdofs);
for (int j = 0; j < ir->GetNPoints(); j++)
{
const IntegrationPoint &ip = ir->IntPoint(j);
transf->SetIntPoint(&ip);
fe->CalcVShape(*transf, shape);
elSol = 0.0;
for (int k = 0; k < fdof; k++)
{
if (vdofs[k] >= 0)
{
for (int l=0; l<dim*dim; l++) { elSol(l) += shape(k,l)*x(vdofs[k]); }
}
else
{
for (int l=0; l<dim*dim; l++) { elSol(l) -= shape(k,l)*x(-1-vdofs[k]); }
}
}
for (int k=0; k<dim; k++)
for (int l=0; l<dim; l++)
{
elSolMat(k,l) = elSol(dim*k+l);
}
solMat.Eval(exactSol,*transf, ip);
for (int k=0; k<dim; k++)
for (int l=0; l<dim; l++)
{
exactSolVec(dim*k+l) = exactSol(k,l);
}
elSol.Add(-1.0, exactSolVec);
error += ip.weight * fabs(transf->Weight()) * (elSol * elSol);
}
}
double globalError = 0.0;
MPI_Allreduce(&error, &globalError, 1, MPI_DOUBLE, MPI_SUM, MPI_COMM_WORLD);
if (myid==0) { std::cout << "L2 error: " << sqrt(globalError) << std::endl; }
}
delete pcg;
delete a;
delete alpha;
delete beta;
delete b;
}
// 17. Free the used memory.
delete fespace;
delete fec;
delete pmesh;
MPI_Finalize();
return 0;
}
void E_exact_vec(const Vector &x, Vector &E)
{
int dim = x.Size();
if (dim==4)
{
E.SetSize(6);
double s0 = sin(M_PI*x(0)), s1 = sin(M_PI*x(1)), s2 = sin(M_PI*x(2)),
s3 = sin(M_PI*x(3));
double c0 = cos(M_PI*x(0)), c1 = cos(M_PI*x(1)), c2 = cos(M_PI*x(2)),
c3 = cos(M_PI*x(3));
E(0) = c0*c1*s2*s3;
E(1) = -c0*s1*c2*s3;
E(2) = c0*s1*s2*c3;
E(3) = s0*c1*c2*s3;
E(4) = -s0*c1*s2*c3;
E(5) = s0*s1*c2*c3;
}
}
void E_exact(const Vector &x, DenseMatrix &E)
{
int dim = x.Size();
E.SetSize(dim*dim);
if (dim==4)
{
Vector vecE; E_exact_vec(x, vecE);
E = 0.0;
E(0,1) = vecE(0);
E(0,2) = vecE(1);
E(0,3) = vecE(2);
E(1,2) = vecE(3);
E(1,3) = vecE(4);
E(2,3) = vecE(5);
E(1,0) = -E(0,1);
E(2,0) = -E(0,2);
E(3,0) = -E(0,3);
E(2,1) = -E(1,2);
E(3,1) = -E(1,3);
E(3,2) = -E(2,3);
}
}
//f_exact = E + 0.5 * P( curl DivSkew E ), where P is the 4d permutation operator
void f_exact(const Vector &x, DenseMatrix &f)
{
int dim = x.Size();
f.SetSize(dim,dim);
if (dim==4)
{
f = 0.0;
double s0 = sin(M_PI*x(0)), s1 = sin(M_PI*x(1)), s2 = sin(M_PI*x(2)),
s3 = sin(M_PI*x(3));
double c0 = cos(M_PI*x(0)), c1 = cos(M_PI*x(1)), c2 = cos(M_PI*x(2)),
c3 = cos(M_PI*x(3));
f(0,1) = (1.0 + 1.0 * M_PI*M_PI)*c0*c1*s2*s3;
f(0,2) = -(1.0 + 0.0 * M_PI*M_PI)*c0*s1*c2*s3;
f(0,3) = (1.0 + 1.0 * M_PI*M_PI)*c0*s1*s2*c3;
f(1,2) = (1.0 - 1.0 * M_PI*M_PI)*s0*c1*c2*s3;
f(1,3) = -(1.0 + 0.0 * M_PI*M_PI)*s0*c1*s2*c3;
f(2,3) = (1.0 + 1.0 * M_PI*M_PI)*s0*s1*c2*c3;
f(1,0) = -f(0,1);
f(2,0) = -f(0,2);
f(3,0) = -f(0,3);
f(2,1) = -f(1,2);
f(3,1) = -f(1,3);
f(3,2) = -f(2,3);
}
}
-800
View File
@@ -1,800 +0,0 @@
// MFEM Example 4 - Parallel Version
//
// Compile with: make ex4p
//
// Sample runs: mpirun -np 4 ex4p -m ../data/square-disc.mesh
// mpirun -np 4 ex4p -m ../data/star.mesh
// mpirun -np 4 ex4p -m ../data/beam-tet.mesh
// mpirun -np 4 ex4p -m ../data/beam-hex.mesh
// 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-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
// mpirun -np 4 ex4p -m ../data/beam-hex-nurbs.mesh -o 3
// mpirun -np 4 ex4p -m ../data/periodic-square.mesh -no-bc
// mpirun -np 4 ex4p -m ../data/periodic-cube.mesh -no-bc
// mpirun -np 4 ex4p -m ../data/amr-quad.mesh
// 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/star-surf.mesh -o 3 -hb
//
// Description: This example code solves a simple 2D/3D H(div) diffusion
// problem corresponding to the second order definite equation
// -grad(alpha div F) + beta F = f with boundary condition F dot n
// = <given normal field>. Here, we use a given exact solution F
// and compute the corresponding r.h.s. f. We discretize with
// Raviart-Thomas finite elements.
//
// The example demonstrates the use of H(div) finite element
// spaces with the grad-div and H(div) vector finite element mass
// bilinear form, as well as the computation of discretization
// error when the exact solution is known. Bilinear form
// hybridization and static condensation are also illustrated.
//
// We recommend viewing examples 1-3 before viewing this example.
#include "mfem.hpp"
#include <fstream>
#include <iostream>
#include "./spe10_coeff.cpp"
using namespace std;
using namespace mfem;
int* LoadIterations(int NRows, int NCol)
{
ifstream in("iter_div.txt");
//initialize
int *iters = new int[NCol*NRows];
for (int col = 0; col < NCol; col++)
{
for (int row = 0; row < NRows; row++)
{
iters[row*NCol+col] = -1;
}
}
if (!in)
{
cout << "Cannot open file.\n";
return iters;
}
for (int row = 0; row < NRows; row++)
for (int col = 0; col < NCol; col++)
{
if (in.eof())
{
in.close();
return iters;
}
in >> iters[row*NCol+col];
}
in.close();
return iters;
}
void putIterationsInArray(int iter, int row, int col, int NCol, int* iters)
{
iters[row*NCol+col] = iter;
}
void WriteIterations(int *iters, int NRows, int NCol)
{
ofstream out;
out.open("iter_div.txt",fstream::out);
if (!out)
{
cout << "Cannot open file.\n";
delete[] iters;
return;
}
for (int row = 0; row < NRows; row++)
{
for (int col = 0; col < NCol; col++)
{
out << iters[row*NCol+col] << "\t";
}
out << endl;
}
out.close();
delete[] iters;
}
// Exact solution, F, and r.h.s., f. See below for implementation.
void F_exact(const Vector &, Vector &);
void f_exact(const Vector &, Vector &);
double freq = 1.0, kappa;
class div4dPrec : public Solver
{
private:
HypreParMatrix *A;
ParFiniteElementSpace *fespace;
Coefficient *alpha_, *beta_;
//kernel operators
HypreParMatrix *P_d_HSkewDiv_Hdiv;
HypreParMatrix *P_H1_HDivSkew;
HypreParMatrix *H1_KernelMat;
HypreBoomerAMG *amgH1_Kernel;
//"image" operators
HypreParMatrix *P_H1_Hdiv;
HypreParMatrix *H1_ImageMat;
HypreBoomerAMG *amgH1_Image;
HypreParMatrix *HDivSkewMat;
HypreSmoother * smootherdiv;
HypreSmoother * smootherDivSkew;
CGSolver *pcgKernel;
CGSolver *pcgImage;
Vector *f;
Vector *fKernel, *uKernel;
Vector *fImage, *uImage;
Vector *fDivSkew, *uDivSkew;
FiniteElementCollection* fecHDivSkewKernel;
ParFiniteElementSpace *HDivSkewKernelFESpace;
bool exactSolves;
public:
~div4dPrec()
{
delete pcgImage;
delete pcgKernel;
delete uDivSkew, fDivSkew, uImage, fImage, uKernel, fKernel, f;
delete smootherDivSkew;
delete HDivSkewMat;
delete P_d_HSkewDiv_Hdiv;
delete P_H1_Hdiv;
delete P_H1_HDivSkew;
delete amgH1_Image, H1_ImageMat;
delete amgH1_Kernel, H1_KernelMat;
delete smootherdiv;
delete HDivSkewKernelFESpace;
delete fecHDivSkewKernel;
}
div4dPrec(HypreParMatrix *AUser, ParFiniteElementSpace *fespaceUser,
Coefficient *alpha, Coefficient *beta, const Array<int> &essBnd,
int orderKernel=1, bool exactSolvesUser=false)
{
A = AUser;
fespace = fespaceUser;
alpha_ = alpha;
beta_ = beta;
ParMesh *pmesh = fespace->GetParMesh();
int dim = pmesh->Dimension();
exactSolves = exactSolvesUser;
int orderIm=1; //H1 --> H(div)
int orderKer=orderKernel; //DivSkew V --> H(div)
smootherdiv = new HypreSmoother(*A, 16, 3);
Array<int> Hdiv_essDof(fespace->GetVSize()); Hdiv_essDof = 0;
fespace->GetEssentialVDofs(essBnd, Hdiv_essDof);
//setup the H1 FESpace for the kernel
FiniteElementCollection* fecH1Kernel;
if (orderKer==1) { fecH1Kernel = new LinearFECollection; }
else { fecH1Kernel = new QuadraticFECollection; }
ParFiniteElementSpace *H1KernelFESpace = new ParFiniteElementSpace(pmesh,
fecH1Kernel, 6, Ordering::byVDIM);
Array<int> H1Kernel_essDof(H1KernelFESpace->GetVSize()); H1Kernel_essDof = 0;
H1KernelFESpace->GetEssentialVDofs(essBnd, H1Kernel_essDof);
//setup the H(DivSkew) FESpace for the kernel
if (orderKer==1) { fecHDivSkewKernel = new DivSkew1_4DFECollection; }
// else fecHDivSkewKernel = new DivSkewFull1_4DFECollection;
HDivSkewKernelFESpace = new ParFiniteElementSpace(pmesh, fecHDivSkewKernel);
Array<int> HDivSkewKernel_essDof(HDivSkewKernelFESpace->GetVSize());
HDivSkewKernel_essDof = 0;
HDivSkewKernelFESpace->GetEssentialVDofs(essBnd, HDivSkewKernel_essDof);
//setup the FESpace for the H1 injection
FiniteElementCollection* fecH1Vec;
if (orderIm==1) { fecH1Vec = new LinearFECollection; }
else { fecH1Vec = new QuadraticFECollection; }
ParFiniteElementSpace *H1_ImageFESpace = new ParFiniteElementSpace(pmesh,
fecH1Vec, dim, Ordering::byVDIM);
Array<int> H1Image_essDof(H1_ImageFESpace->GetVSize()); H1Image_essDof = 0;
H1_ImageFESpace->GetEssentialVDofs(essBnd, H1Image_essDof);
//setup the H1 preconditioner for the kernel
ParBilinearForm* H1Varf = new ParBilinearForm(H1KernelFESpace);
// H1Varf->AddDomainIntegrator(new VectorDiffusionIntegrator(*alpha_, 6));
// H1Varf->AddDomainIntegrator(new VectorMassIntegrator(6, beta_));
H1Varf->AddDomainIntegrator(new VectorDiffusionIntegrator(*beta_, 6));
H1Varf->Assemble();
H1Varf->Finalize();
SparseMatrix &matH1(H1Varf->SpMat());
for (int dof=0; dof<H1Kernel_essDof.Size(); dof++) if (H1Kernel_essDof[dof]<0) { matH1.EliminateRowCol(dof); }
H1_KernelMat = H1Varf->ParallelAssemble();
delete H1Varf;
amgH1_Kernel = new HypreBoomerAMG(*H1_KernelMat);
amgH1_Kernel->SetSystemsOptions(6);
//setup the H1 preconditioner for the image
ParBilinearForm* H1VecVarf = new ParBilinearForm(H1_ImageFESpace);
H1VecVarf->AddDomainIntegrator(new VectorDiffusionIntegrator(*alpha_));
H1VecVarf->AddDomainIntegrator(new VectorMassIntegrator(-1, beta_));
H1VecVarf->Assemble();
H1VecVarf->Finalize();
SparseMatrix &matH1Vec(H1VecVarf->SpMat());
for (int dof=0; dof<H1Image_essDof.Size(); dof++) if (H1Image_essDof[dof]<0) { matH1Vec.EliminateRowCol(dof); }
H1_ImageMat = H1VecVarf->ParallelAssemble();
delete H1VecVarf;
amgH1_Image = new HypreBoomerAMG(*H1_ImageMat);
amgH1_Image->SetSystemsOptions(dim);
//setup the injection of H1 into H(DivSkew)
ParDiscreteLinearOperator *disInterpolIm = new ParDiscreteLinearOperator(
H1KernelFESpace, HDivSkewKernelFESpace);
disInterpolIm->AddDomainInterpolator(new IdentityInterpolator);
disInterpolIm->Assemble();
disInterpolIm->Finalize();
SparseMatrix* smatIDIm = &(disInterpolIm->SpMat());
smatIDIm->EliminateCols(H1Kernel_essDof);
for (int dof=0; dof<HDivSkewKernel_essDof.Size();
dof++) if (HDivSkewKernel_essDof[dof]<0) { smatIDIm->EliminateRow(dof); }
P_H1_HDivSkew = disInterpolIm->ParallelAssemble();
delete disInterpolIm;
//setup the injection of H1 into H(div)
ParDiscreteLinearOperator *disInterpol = new ParDiscreteLinearOperator(
H1_ImageFESpace, fespace);
disInterpol->AddDomainInterpolator(new IdentityInterpolator);
disInterpol->Assemble();
disInterpol->Finalize();
SparseMatrix* smatID = &(disInterpol->SpMat());
smatID->EliminateCols(H1Image_essDof);
for (int dof=0; dof<Hdiv_essDof.Size(); dof++) if (Hdiv_essDof[dof]<0) { smatID->EliminateRow(dof); }
P_H1_Hdiv = disInterpol->ParallelAssemble();
delete disInterpol;
//setup the injection of the DivSkew(H(DivSkew)) into H(div)
ParDiscreteLinearOperator *disDivSkew = new ParDiscreteLinearOperator(
HDivSkewKernelFESpace, fespace);
disDivSkew->AddDomainInterpolator(new DivSkewInterpolator);
disDivSkew->Assemble();
disDivSkew->Finalize();
SparseMatrix* smatDivSkew= &(disDivSkew->SpMat());
smatDivSkew->EliminateCols(HDivSkewKernel_essDof);
for (int dof=0; dof<Hdiv_essDof.Size(); dof++) if (Hdiv_essDof[dof]<0) { smatDivSkew->EliminateRow(dof); }
P_d_HSkewDiv_Hdiv = disDivSkew->ParallelAssemble();
delete disDivSkew;
//setup the smoother for H(DivSkew)
ParBilinearForm *a_HDivSkew = new ParBilinearForm(HDivSkewKernelFESpace);
// a_HDivSkew->AddDomainIntegrator(new DivSkewDivSkewIntegrator(*alpha_));
// a_HDivSkew->AddDomainIntegrator(new VectorFE_DivSkewMassIntegrator(*beta_));
a_HDivSkew->AddDomainIntegrator(new DivSkewDivSkewIntegrator(*beta_));
a_HDivSkew->Assemble();
a_HDivSkew->Finalize();
SparseMatrix &matHDivSkew(a_HDivSkew->SpMat());
for (int dof=0; dof<HDivSkewKernel_essDof.Size();
dof++) if (HDivSkewKernel_essDof[dof]<0) { matHDivSkew.EliminateRowCol(dof); }
HDivSkewMat = a_HDivSkew->ParallelAssemble();
delete a_HDivSkew;
smootherDivSkew = new HypreSmoother(*HDivSkewMat, 16, 3);
f = new Vector(fespace->GetTrueVSize());
fKernel = new Vector(H1KernelFESpace->GetTrueVSize());
uKernel = new Vector(H1KernelFESpace->GetTrueVSize());
fImage = new Vector(H1_ImageFESpace->GetTrueVSize());
uImage = new Vector(H1_ImageFESpace->GetTrueVSize());
fDivSkew = new Vector(HDivSkewKernelFESpace->GetTrueVSize());
uDivSkew = new Vector(HDivSkewKernelFESpace->GetTrueVSize());
amgH1_Kernel->Mult(*fKernel, *uKernel);
amgH1_Image->Mult(*fImage, *uImage);
pcgKernel = new CGSolver(MPI_COMM_WORLD);
pcgKernel->SetOperator(*H1_KernelMat);
pcgKernel->SetPreconditioner(*amgH1_Kernel);
pcgKernel->SetRelTol(1e-16);
pcgKernel->SetMaxIter(100000000);
pcgKernel->SetPrintLevel(-2);
pcgImage = new CGSolver(MPI_COMM_WORLD);
pcgImage->SetOperator(*H1_ImageMat);
pcgImage->SetPreconditioner(*amgH1_Image);
pcgImage->SetRelTol(1e-16);
pcgImage->SetMaxIter(100000000);
pcgImage->SetPrintLevel(-2);
delete H1_ImageFESpace;
delete H1KernelFESpace;
delete fecH1Kernel;
delete fecH1Vec;
}
void setExactSolve(bool exSol)
{
exactSolves = exSol;
}
virtual void Mult(const Vector &x, Vector &y) const
{
smootherdiv->Mult(x,y);
P_H1_Hdiv->MultTranspose(x,*fImage);
*uImage = 0.0;
if (exactSolves) { pcgImage->Mult(*fImage, *uImage); }
else { amgH1_Image->Mult(*fImage, *uImage); }
P_H1_Hdiv->Mult(1.0, *uImage, 1.0, y);
*uDivSkew = 0.0;
P_d_HSkewDiv_Hdiv->MultTranspose(x,*fDivSkew);
smootherDivSkew->Mult(*fDivSkew, *uDivSkew);
P_H1_HDivSkew->MultTranspose(*fDivSkew,*fKernel);
*uKernel = 0.0;
if (exactSolves) { pcgKernel->Mult(*fKernel, *uKernel); }
else { amgH1_Kernel->Mult(*fKernel, *uKernel); }
P_H1_HDivSkew->Mult(1.0, *uKernel, 1.0, *uDivSkew);
P_d_HSkewDiv_Hdiv->Mult(1.0, *uDivSkew, 1.0, y);
}
virtual void SetOperator(const Operator &op) {};
};
int main(int argc, char *argv[])
{
// 1. Initialize MPI.
int num_procs, myid;
MPI_Init(&argc, &argv);
MPI_Comm_size(MPI_COMM_WORLD, &num_procs);
MPI_Comm_rank(MPI_COMM_WORLD, &myid);
bool verbose = (myid==0);
// 2. Parse command-line options.
const char *mesh_file = "../data/star.mesh";
int order = 1;
bool set_bc = true;
bool static_cond = false;
bool hybridization = false;
bool visualization = 1;
int sequ_ref_levels = 0;
int par_ref_levels = 0;
double tol = 1e-6;
double coeffWeight = 1.0;
bool spe10Coeff = false;
bool exactH1Solver = false;
bool standardCG = true;
int NExpo = 8;
int weightStart = -NExpo;
int weightEnd = NExpo;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&order, "-o", "--order",
"Finite element order (polynomial degree).");
args.AddOption(&sequ_ref_levels, "-sr", "--seqrefinement",
"Number of sequential refinement steps.");
args.AddOption(&par_ref_levels, "-pr", "--parrefinement",
"Number of parallel refinement steps.");
args.AddOption(&set_bc, "-bc", "--impose-bc", "-no-bc", "--dont-impose-bc",
"Impose or not essential boundary conditions.");
args.AddOption(&freq, "-f", "--frequency", "Set the frequency for the exact"
" solution.");
args.AddOption(&static_cond, "-sc", "--static-condensation", "-no-sc",
"--no-static-condensation", "Enable static condensation.");
args.AddOption(&hybridization, "-hb", "--hybridization", "-no-hb",
"--no-hybridization", "Enable hybridization.");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
args.AddOption(&tol, "-tol", "--tol",
"A parameter.");
args.AddOption(&coeffWeight, "-c", "--coeffMass",
"the weight for the mass term.");
args.AddOption(&exactH1Solver, "-exH1Sol", "--exactH1Solver", "-H1prec",
"--H1preconditioner",
"Use exact H1 solvers for the preconditioner.");
args.AddOption(&spe10Coeff, "-spe10", "--useSPE10Coeff", "-constCoeff",
"--constCoeff",
"Switch between the coefficients for the mass bilinear form.");
args.AddOption(&standardCG, "-sCG", "--stdCG", "-rCG", "--resCG",
"Switch between standard PCG or recompute residuals in every step and use the residuals itself for the stopping criteria.");
args.AddOption(&weightStart, "-ws", "--weightStart",
"the exponent for the starting weight (for the mass term).");
args.AddOption(&weightEnd, "-we", "--weightEnd",
"the exponent for the weight at the end (for the mass term).");
args.Parse();
if (!args.Good())
{
if (myid == 0)
{
args.PrintUsage(cout);
}
MPI_Finalize();
return 1;
}
if (myid == 0)
{
args.PrintOptions(cout);
}
kappa = freq * M_PI;
// 3. Read the (serial) mesh from the given mesh file on all processors. We
// can handle triangular, quadrilateral, tetrahedral, hexahedral, surface
// and volume, as well as periodic meshes with the same code.
Mesh *mesh = new Mesh(mesh_file, 1, 1);
int dim = mesh->Dimension();
int sdim = mesh->SpaceDimension();
// 4. 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 1,000 elements.
{
for (int l = 0; l < sequ_ref_levels; l++)
{
mesh->UniformRefinement();
}
}
// 5. 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. Tetrahedral
// meshes need to be reoriented before we can define high-order Nedelec
// spaces on them (this is needed in the ADS solver below).
ParMesh *pmesh = new ParMesh(MPI_COMM_WORLD, *mesh);
delete mesh;
{
for (int l = 0; l < par_ref_levels; l++)
{
pmesh->UniformRefinement();
}
}
pmesh->ReorientTetMesh();
// 6. Define a parallel finite element space on the parallel mesh. Here we
// use the Raviart-Thomas finite elements of the specified order.
FiniteElementCollection *fec;
if (dim==4) { fec = new RT0_4DFECollection; }
else { fec = new RT_FECollection(order-1, dim); }
ParFiniteElementSpace *fespace = new ParFiniteElementSpace(pmesh, fec);
HYPRE_Int size = fespace->GlobalTrueVSize();
if (myid == 0)
{
cout << "Number of finite element unknowns: " << size << endl;
}
// 7. 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;
Array<int> ess_bdr(pmesh->bdr_attributes.Max());
ess_bdr = set_bc ? 1 : 0;
if (pmesh->bdr_attributes.Size())
{
fespace->GetEssentialTrueDofs(ess_bdr, ess_tdof_list);
}
// 8. Set up the parallel linear form b(.) which corresponds to the
// right-hand side of the FEM linear system, which in this case is
// (f,phi_i) where f is given by the function f_exact and phi_i are the
// basis functions in the finite element fespace.
// 9. Define the solution vector x as a parallel finite element grid function
// corresponding to fespace. Initialize x by projecting the exact
// solution. Note that only values from the boundary faces will be used
// when eliminating the non-homogeneous boundary condition to modify the
// r.h.s. vector b.
ParGridFunction x(fespace);
VectorFunctionCoefficient F(sdim, F_exact);
for (int expo=weightStart; expo<=weightEnd; expo++)
{
double weight = pow(10.0,expo);
kappa = weight;
x.ProjectCoefficient(F);
VectorFunctionCoefficient f(sdim, f_exact);
ParLinearForm *b = new ParLinearForm(fespace);
b->AddDomainIntegrator(new VectorFEDomainLFIntegrator(f));
b->Assemble();
// 10. Set up the parallel bilinear form corresponding to the H(div)
// diffusion operator grad alpha div + beta I, by adding the div-div and
// the mass domain integrators.
// std::string permFile = "spe_perm.dat";
// InversePermeabilityFunction::ReadPermeabilityFile(permFile, MPI_COMM_WORLD);
Coefficient *alpha = new ConstantCoefficient(1.0);
Coefficient *beta;
// if(spe10Coeff) beta = new FunctionCoefficient(InversePermeabilityFunction::Norm2Permeability);
// else
beta = new ConstantCoefficient(weight);
ParBilinearForm *a = new ParBilinearForm(fespace);
a->AddDomainIntegrator(new DivDivIntegrator(*alpha));
a->AddDomainIntegrator(new VectorFEMassIntegrator(*beta));
// 11. 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,
// hybridization, etc.
FiniteElementCollection *hfec = NULL;
ParFiniteElementSpace *hfes = NULL;
if (static_cond)
{
a->EnableStaticCondensation();
}
else if (hybridization)
{
hfec = new DG_Interface_FECollection(order-1, dim);
hfes = new ParFiniteElementSpace(pmesh, hfec);
a->EnableHybridization(hfes, new NormalTraceJumpIntegrator(),
ess_tdof_list);
}
a->Assemble();
HypreParMatrix A;
Vector B, X;
a->FormLinearSystem(ess_tdof_list, x, *b, A, X, B);
HYPRE_Int glob_size = A.GetGlobalNumRows();
if (myid == 0)
{
cout << "Size of linear system: " << glob_size << endl;
}
// 12. Define and apply a parallel PCG solver for A X = B with the 2D AMS or
// the 3D ADS preconditioners from hypre. If using hybridization, the
// system is preconditioned with hypre's BoomerAMG.
Solver *prec = NULL;
if (hybridization) { prec = new HypreBoomerAMG(A); }
else
{
ParFiniteElementSpace *prec_fespace =
(a->StaticCondensationIsEnabled() ? a->SCParFESpace() : fespace);
if (dim == 2) { prec = new HypreAMS(A, prec_fespace); }
else if (dim==3) { prec = new HypreADS(A, prec_fespace); }
else if (dim==4) { prec = new div4dPrec(&A, fespace, alpha, beta, ess_bdr, order, exactH1Solver); }
else { prec = NULL; }
}
int iter = -1;
if (standardCG)
{
IterativeSolver *pcg = new CGSolver(MPI_COMM_WORLD);
pcg->SetOperator(A);
pcg->SetRelTol(tol);
pcg->SetMaxIter(500);
pcg->SetPrintLevel(1);
pcg->SetPreconditioner(*prec);
pcg->Mult(B, X);
iter = pcg->GetNumIterations();
delete pcg;
}
else
{
HyprePCG *pcg = new HyprePCG(A);
pcg->SetTol(tol);
pcg->SetMaxIter(5000);
pcg->SetResidualConvergenceOptions(1,tol);
pcg->SetPrintLevel(2);
// pcg->SetPreconditioner(*prec);
pcg->Mult(B, X);
pcg->GetNumIterations(iter);
delete pcg;
}
if (myid==0)
{
cout << "Weigth: " << weight << " " << iter << endl;
int *iters = LoadIterations(10, 2*NExpo+1);
putIterationsInArray(iter, sequ_ref_levels+par_ref_levels, expo+NExpo,
2*NExpo+1, iters);
WriteIterations(iters, 10, 2*NExpo+1);
}
// 13. Recover the parallel grid function corresponding to X. This is the
// local finite element solution on each processor.
a->RecoverFEMSolution(X, *b, x);
// 14. Compute and print the L^2 norm of the error.
{
double err = x.ComputeL2Error(F);
if (myid == 0)
{
cout << "\n|| F_h - F ||_{L^2} = " << err << '\n' << endl;
}
}
// 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;
// }
if (prec!=NULL) { delete prec; }
delete hfes;
delete hfec;
delete a;
delete alpha;
delete beta;
delete b;
}
// 17. Free the used memory.
delete fespace;
delete fec;
delete pmesh;
MPI_Finalize();
return 0;
}
// The exact solution (for non-surface meshes)
void F_exact(const Vector &p, Vector &F)
{
int dim = p.Size();
if (dim==4)
{
double s0 = sin(M_PI*p(0)), s1 = sin(M_PI*p(1)), s2 = sin(M_PI*p(2)),
s3 = sin(M_PI*p(3));
double c0 = cos(M_PI*p(0)), c1 = cos(M_PI*p(1)), c2 = cos(M_PI*p(2)),
c3 = cos(M_PI*p(3));
F(0) = c0 * s1 * s2 * s3;
F(1) = s0 * c1 * s2 * s3;
F(2) = s0 * s1 * c2 * s3;
F(3) = s0 * s1 * s2 * c3;
}
else
{
double x = p(0);
double y = p(1);
// double z = (dim == 3) ? p(2) : 0.0;
F(0) = cos(kappa*x)*sin(kappa*y);
F(1) = cos(kappa*y)*sin(kappa*x);
if (dim == 3)
{
F(2) = 0.0;
}
}
}
// The right hand side
void f_exact(const Vector &p, Vector &f)
{
int dim = p.Size();
if (dim==4)
{
double s0 = sin(M_PI*p(0)), s1 = sin(M_PI*p(1)), s2 = sin(M_PI*p(2)),
s3 = sin(M_PI*p(3));
double c0 = cos(M_PI*p(0)), c1 = cos(M_PI*p(1)), c2 = cos(M_PI*p(2)),
c3 = cos(M_PI*p(3));
f(0) = c0 * s1 * s2 * s3;
f(1) = s0 * c1 * s2 * s3;
f(2) = s0 * s1 * c2 * s3;
f(3) = s0 * s1 * s2 * c3;
f *= (kappa + 4.0 * M_PI*M_PI);
}
else
{
double x = p(0);
double y = p(1);
// double z = (dim == 3) ? p(2) : 0.0;
double temp = 1 + 2*kappa*kappa;
f(0) = temp*cos(kappa*x)*sin(kappa*y);
f(1) = temp*cos(kappa*y)*sin(kappa*x);
if (dim == 3)
{
f(2) = 0;
}
}
}
+5 -14
View File
@@ -23,15 +23,14 @@ 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
ex31 ex33 ex34 ex36 ex37 ex38 ex39
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 \
ex1p_4d ex3p_4d ex4D_DivSkew
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
ex37p ex39p
SEQ_DEVICE_EXAMPLES = ex1 ex3 ex4 ex5 ex6 ex9 ex22 ex24 ex25 ex26 ex34
PAR_DEVICE_EXAMPLES = ex1p ex2p ex3p ex4p ex5p ex6p ex7p ex9p ex13p ex22p \
ex24p ex25p ex26p ex34p ex35p
ifeq ($(MFEM_USE_LAPACK),YES)
SEQ_EXAMPLES += ex38
@@ -139,14 +138,6 @@ ex10-test-seq: ex10
@$(call mfem-test,$<,, Serial example,-tf 5)
ex10p-test-par: ex10p
@$(call mfem-test,$<, $(RUN_MPI), Parallel example,-tf 5)
ex14-test-seq-cuda: ex14
@$(call mfem-test,$<,, Serial CUDA example,-r 2 -pa -d cuda)
ex14p-test-par-cuda: ex14p
@$(call mfem-test,$<, $(RUN_MPI), Parallel CUDA example,-rs 2 -rp 0 -pa -d cuda)
ex14-test-seq-hip: ex14
@$(call mfem-test,$<,, Serial HIP example,-r 2 -pa -d hip)
ex14p-test-par-hip: ex14p
@$(call mfem-test,$<, $(RUN_MPI), Parallel HIP example,-rs 2 -rp 0 -pa -d hip)
ex15-test-seq: ex15
@$(call mfem-test,$<,, Serial example,-e 1)
ex15p-test-par: ex15p
+510
View File
@@ -0,0 +1,510 @@
// MFEM Maxwell example (with imaginary mass coeff)
//
// ∇×(1/μ ∇×E) - (ω^2 ϵ + i ω σ) E = J , in Ω (by default ϵ=0)
// E×n = E_0, on ∂Ω
//
// Compile with: pmaxwell
//
// Sample runs:
// mpirun -np 8 ./pmaxwell -o 1 -sref 0 -m ../data/inline-hex.mesh -rnum 3.0 -pref 4 -sigma 1.0 -no-herm -vis
/*
Ref | Dofs | ω | H(curl) Error | Rate | Solv it |
-----------------------------------------------------------------
0 | 300 | 6.0 π | 2.697e+01 | 0.00 | 28 (20)|
1 | 1944 | 6.0 π | 2.183e+01 | -0.34 | 28 (19)|
2 | 13872 | 6.0 π | 1.227e+01 | -0.88 | 30 (19)|
3 | 104544 | 6.0 π | 6.341e+00 | -0.98 | 36 (19)|
4 | 811200 | 6.0 π | 3.197e+00 | -1.00 | 46 (19)|
*/
// mpirun -np 8 ./pmaxwell -o 2 -sref 0 -m ../data/inline-hex.mesh -rnum 3.0 -pref 3 -sigma 1.0 -vis
/*
Ref | Dofs | ω | H(curl) Error | Rate | Solv it |
-----------------------------------------------------------------
0 | 1944 | 6.0 π | 2.121e+01 | 0.00 | 28 (24)|
1 | 13872 | 6.0 π | 7.291e+00 | -1.63 | 34 (19)|
2 | 104544 | 6.0 π | 1.926e+00 | -1.98 | 48 (19)|
3 | 811200 | 6.0 π | 4.862e-01 | -2.02 | 60 (19)|
*/
// mpirun -np 8 ./pmaxwell -o 3 -sref 0 -m ../data/inline-hex.mesh -rnum 3.0 -pref 2 -sigma 1.0 -vis
/*
Ref | Dofs | ω | H(curl) Error | Rate | Solv it |
-----------------------------------------------------------------
0 | 6084 | 6.0 π | 9.797e+00 | 0.00 | 36 (22)|
1 | 45000 | 6.0 π | 1.475e+00 | -2.84 | 56 (19)|
2 | 345744 | 6.0 π | 1.918e-01 | -3.00 | 78 (19)|
*/
// Note: (*) indicates a priconditioner with exact inverse of the diagonal blocks
#include "mfem.hpp"
#include <fstream>
#include <iostream>
using namespace std;
using namespace mfem;
void E_exact_r(const Vector &x, Vector & E_r);
void E_exact_i(const Vector &x, Vector & E_i);
void rhs_func_r(const Vector &x, Vector & J_r);
void rhs_func_i(const Vector &x, Vector & J_i);
void curlE_exact_r(const Vector &x, Vector &curlE_r);
void curlE_exact_i(const Vector &x, Vector &curlE_i);
void maxwell_solution(const Vector & X,
std::vector<complex<real_t>> &E);
void maxwell_solution_curl(const Vector & X,
std::vector<complex<real_t>> &curlE);
void maxwell_solution_curlcurl(const Vector & X,
std::vector<complex<real_t>> &curlcurlE);
int dim;
int dimc;
real_t omega;
real_t mu = 1.0;
real_t epsilon = 0.0;
real_t sigma = 0.1;
complex<real_t> zi = complex<real_t>(0., 1.);
int main(int argc, char *argv[])
{
Mpi::Init();
int myid = Mpi::WorldRank();
int num_procs = Mpi::WorldSize();
Hypre::Init();
const char *mesh_file = "../data/inline-hex.mesh";
int order = 1;
bool visualization = false;
real_t rnum=1.0;
int sr = 0;
int pr = 0;
bool paraview = false;
bool mumps_solver = false;
bool herm_conv = true;
OptionsParser args(argc, argv);
args.AddOption(&mesh_file, "-m", "--mesh",
"Mesh file to use.");
args.AddOption(&order, "-o", "--order",
"Finite element order (polynomial degree)");
args.AddOption(&rnum, "-rnum", "--number_of_wavelenths",
"Number of wavelengths");
args.AddOption(&mu, "-mu", "--permeability",
"Permeability of free space (or 1/(spring constant)).");
args.AddOption(&epsilon, "-eps", "--permittivity",
"Permittivity of free space (or mass constant).");
args.AddOption(&sigma, "-sigma", "--conductivity",
"Conductivity");
args.AddOption(&sr, "-sref", "--serial_ref",
"Number of serial refinements.");
args.AddOption(&pr, "-pref", "--parallel_ref",
"Number of parallel refinements.");
args.AddOption(&herm_conv, "-herm", "--hermitian", "-no-herm",
"--no-hermitian", "Use convention for Hermitian operators.");
args.AddOption(&visualization, "-vis", "--visualization", "-no-vis",
"--no-visualization",
"Enable or disable GLVis visualization.");
args.AddOption(&paraview, "-paraview", "--paraview", "-no-paraview",
"--no-paraview",
"Enable or disable ParaView visualization.");
args.AddOption(&mumps_solver, "-mumps-solver", "--mumps-solver",
"-no-mumps-solver",
"--no-mumps-solver",
"Enable or disable mumps solver");
args.Parse();
if (!args.Good())
{
if (myid == 0)
{
args.PrintUsage(cout);
}
return 1;
}
if (myid == 0)
{
args.PrintOptions(cout);
}
ComplexOperator::Convention conv =
herm_conv ? ComplexOperator::HERMITIAN : ComplexOperator::BLOCK_SYMMETRIC;
socketstream E_out_r;
socketstream E_out_i;
omega = real_t(2.0 * M_PI)*rnum;
Mesh mesh(mesh_file, 1, 1);
dim = mesh.Dimension();
dimc = (dim == 3) ? 3 : 1;
for (int i = 0; i<sr; i++)
{
mesh.UniformRefinement();
}
ParMesh pmesh(MPI_COMM_WORLD, mesh);
mesh.Clear();
ND_FECollection fec(order, dim);
ParFiniteElementSpace E_fes(&pmesh, &fec);
// Bilinear form coefficients
ConstantCoefficient one(1.0);
ConstantCoefficient muinv(1./mu);
ConstantCoefficient omeg(omega);
ConstantCoefficient eps(epsilon);
ConstantCoefficient negomeg2eps(-omega*omega*epsilon);
ConstantCoefficient omegsigma(omega*sigma);
VectorFunctionCoefficient Jr(dim,rhs_func_r);
VectorFunctionCoefficient Ji(dim,rhs_func_i);
VectorFunctionCoefficient Er(dim,E_exact_r);
VectorFunctionCoefficient Ei(dim,E_exact_i);
VectorFunctionCoefficient CurlEr(dim,curlE_exact_r);
VectorFunctionCoefficient CurlEi(dim,curlE_exact_i);
ParComplexLinearForm b(&E_fes, conv);
b.Vector::operator=(0.0);
b.AddDomainIntegrator(new VectorFEDomainLFIntegrator(Jr),
new VectorFEDomainLFIntegrator(Ji));
ParSesquilinearForm a(&E_fes, conv);
a.AddDomainIntegrator(new CurlCurlIntegrator(muinv),nullptr);
a.AddDomainIntegrator(new VectorFEMassIntegrator(negomeg2eps),
new VectorFEMassIntegrator(omegsigma));
ParBilinearForm prec(&E_fes);
prec.AddDomainIntegrator(new CurlCurlIntegrator(muinv));
prec.AddDomainIntegrator(new VectorFEMassIntegrator(omegsigma));
ParComplexGridFunction E_gf(&E_fes);
E_gf.real() = 0.0;
E_gf.imag() = 0.0;
ParaViewDataCollection * paraview_dc = nullptr;
if (paraview)
{
paraview_dc = new ParaViewDataCollection(mesh_file, &pmesh);
paraview_dc->SetPrefixPath("ParaView");
paraview_dc->SetLevelsOfDetail(order);
paraview_dc->SetCycle(0);
paraview_dc->SetDataFormat(VTKFormat::BINARY);
paraview_dc->SetHighOrderOutput(true);
paraview_dc->SetTime(0.0); // set the time
paraview_dc->RegisterField("E_r",&E_gf.real());
paraview_dc->RegisterField("E_i",&E_gf.imag());
}
if (Mpi::Root())
{
std::cout << "\n Ref |"
<< " Dofs |"
<< " ω |"
<< " H(curl) Error |"
<< " Rate |"
<< " Solv it |" << endl;
std::cout << std::string(65,'-')
<< endl;
}
real_t err0 = 0.;
int dof0;
for (int it = 0; it<=pr; it++)
{
b.Assemble();
a.Assemble();
prec.Assemble();
Array<int> ess_tdof_list;
Array<int> ess_bdr;
if (pmesh.bdr_attributes.Size())
{
ess_bdr.SetSize(pmesh.bdr_attributes.Max());
ess_bdr = 1;
E_fes.GetEssentialTrueDofs(ess_bdr, ess_tdof_list);
}
E_gf.real() = 0.0;
E_gf.imag() = 0.0;
E_gf.ProjectBdrCoefficientTangent(Er,Ei, ess_bdr);
OperatorPtr A;
Vector B, X;
a.FormLinearSystem(ess_tdof_list, E_gf, b, A, X, B);
HypreParMatrix M;
prec.FormSystemMatrix(ess_tdof_list, M);
Array<int> offsets(3);
offsets[0] = 0;
offsets[1] = E_fes.TrueVSize();
offsets[2] = E_fes.TrueVSize();
offsets.PartialSum();
BlockDiagonalPreconditioner BlockPrec(offsets);
std::unique_ptr<Operator> pc_r;
std::unique_ptr<Operator> pc_i;
int s = (conv == ComplexOperator::HERMITIAN) ? -1 : 1;
#ifdef MFEM_USE_MUMPS
if (mumps_solver)
{
pc_r.reset(new MUMPSSolver(M));
pc_i.reset(new ScaledOperator(pc_r.get(), s));
}
#else
mumps_solver = false;
#endif
if (!mumps_solver)
{
pc_r.reset(new HypreAMS(M,&E_fes));
pc_i.reset(new ScaledOperator(pc_r.get(), s));
}
BlockPrec.SetDiagonalBlock(0,pc_r.get());
BlockPrec.SetDiagonalBlock(1,pc_i.get());
std::unique_ptr<IterativeSolver> solver;
if (conv == ComplexOperator::HERMITIAN)
{
solver.reset(new FGMRESSolver(MPI_COMM_WORLD));
}
else
{
solver.reset(new MINRESSolver(MPI_COMM_WORLD));
}
solver.get()->SetRelTol(1e-12);
solver.get()->SetMaxIter(2000);
solver.get()->SetPrintLevel(0);
solver.get()->SetPreconditioner(BlockPrec);
solver.get()->SetOperator(*A);
solver.get()->Mult(B, X);
int num_iter = solver.get()->GetNumIterations();
a.RecoverFEMSolution(X, b, E_gf);
real_t err_r = E_gf.real().ComputeHCurlError(&Er,&CurlEr);
real_t err_i = E_gf.imag().ComputeHCurlError(&Ei,&CurlEi);
real_t totalerr = std::sqrt(err_r*err_r + err_i*err_i);
int dofs = E_fes.GlobalTrueVSize();
real_t rate_err = (it) ? dim*log(err0/totalerr)/log((real_t)dof0/dofs) : 0.0;
err0 = totalerr;
dof0 = dofs;
if (Mpi::Root())
{
std::ios oldState(nullptr);
oldState.copyfmt(std::cout);
std::cout << std::right << std::setw(5) << it << " | "
<< std::setw(10) << dof0 << " | "
<< std::setprecision(1) << std::fixed
<< std::setw(4) << 2.0*rnum << " π | "
<< std::setprecision(3);
std::cout << std::setw(13) << std::scientific << err0 << " | "
<< std::setprecision(2)
<< std::setw(6) << std::fixed << rate_err << " | "
<< std::setw(7) << std::fixed << num_iter << " | "
<< std::endl;
std::cout.copyfmt(oldState);
}
if (visualization)
{
// Define visualization keys for GLVis (see GLVis documentation)
string keys;
keys = (dim == 3) ? "keys macF\n" : keys = "keys amrRljcUUuu\n";
char vishost[] = "localhost";
int visport = 19916;
{
socketstream sol_sock_re(vishost, visport);
sol_sock_re.precision(8);
sol_sock_re << "parallel " << num_procs << " " << myid << "\n"
<< "solution\n" << pmesh << E_gf.real() << keys
<< "window_title 'Solution real part'" << flush;
}
{
socketstream sol_sock_im(vishost, visport);
sol_sock_im.precision(8);
sol_sock_im << "parallel " << num_procs << " " << myid << "\n"
<< "solution\n" << pmesh << E_gf.imag() << keys
<< "window_title 'Solution imag part'" << flush;
}
}
if (paraview)
{
paraview_dc->SetCycle(it);
paraview_dc->SetTime((real_t)it);
paraview_dc->Save();
}
pmesh.UniformRefinement();
E_fes.Update();
E_gf.Update();
a.Update();
b.Update();
prec.Update();
}
if (paraview)
{
delete paraview_dc;
}
return 0;
}
void maxwell_solution(const Vector & X, std::vector<complex<real_t>> &E)
{
E.resize(dim);
for (int i = 0; i < dim; ++i)
{
E[i] = 0.0;
}
E[0] = exp(zi * omega * (X.Sum()));
}
void maxwell_solution_curl(const Vector & X,
std::vector<complex<real_t>> &curlE)
{
curlE.resize(dimc);
for (int i = 0; i < dimc; ++i)
{
curlE[i] = 0.0;
}
std::complex<real_t> pw = exp(zi * omega * (X.Sum()));
if (dim == 3)
{
curlE[0] = 0.0;
curlE[1] = zi * omega * pw;
curlE[2] = -zi * omega * pw;
}
else
{
curlE[0] = -zi * omega * pw;
}
}
void maxwell_solution_curlcurl(const Vector & X,
std::vector<complex<real_t>> &curlcurlE)
{
curlcurlE.resize(dim);
for (int i = 0; i < dim; ++i)
{
curlcurlE[i] = 0.0;;
}
std::complex<real_t> pw = exp(zi * omega * (X.Sum()));
if (dim == 3)
{
curlcurlE[0] = 2_r * omega * omega * pw;
curlcurlE[1] = - omega * omega * pw;
curlcurlE[2] = - omega * omega * pw;
}
else
{
curlcurlE[0] = omega * omega * pw;
curlcurlE[1] = -omega * omega * pw;
}
}
void E_exact_r(const Vector &x, Vector & E_r)
{
std::vector<std::complex<real_t>> E;
maxwell_solution(x,E);
E_r.SetSize(E.size());
for (unsigned i = 0; i < E.size(); i++)
{
E_r[i]= E[i].real();
}
}
void E_exact_i(const Vector &x, Vector & E_i)
{
std::vector<std::complex<real_t>> E;
maxwell_solution(x, E);
E_i.SetSize(E.size());
for (unsigned i = 0; i < E.size(); i++)
{
E_i[i]= E[i].imag();
}
}
void curlE_exact_r(const Vector &x, Vector &curlE_r)
{
std::vector<std::complex<real_t>> curlE;
maxwell_solution_curl(x, curlE);
curlE_r.SetSize(curlE.size());
for (unsigned i = 0; i < curlE.size(); i++)
{
curlE_r[i]= curlE[i].real();
}
}
void curlE_exact_i(const Vector &x, Vector &curlE_i)
{
std::vector<std::complex<real_t>> curlE;
maxwell_solution_curl(x, curlE);
curlE_i.SetSize(curlE.size());
for (unsigned i = 0; i < curlE.size(); i++)
{
curlE_i[i]= curlE[i].imag();
}
}
void rhs_func_r(const Vector &x, Vector & J_r)
{
std::vector<std::complex<real_t>> curlcurlE;
std::vector<std::complex<real_t>> E;
maxwell_solution(x,E);
maxwell_solution_curlcurl(x, curlcurlE);
J_r.SetSize(dim);
for (int i = 0; i<dim; i++)
{
const complex<real_t> tmp = 1_r/mu*curlcurlE[i]
+ zi * omega *(sigma+zi*omega*epsilon) *E[i];
J_r(i) = tmp.real();
}
}
void rhs_func_i(const Vector &x, Vector & J_i)
{
std::vector<std::complex<real_t>> curlcurlE;
std::vector<std::complex<real_t>> E;
maxwell_solution(x,E);
maxwell_solution_curlcurl(x, curlcurlE);
J_i.SetSize(dim);
for (int i = 0; i<dim; i++)
{
const complex<real_t> tmp = 1_r/mu*curlcurlE[i]
+ zi * omega *(sigma+zi*omega*epsilon) *E[i];
J_i(i) = tmp.imag();
}
}
+1
View File
@@ -66,6 +66,7 @@ int main(int argc, char *argv[])
{
// 1. Initialize MPI (required by PUMI) and HYPRE.
Mpi::Init(argc, argv);
int num_procs = Mpi::WorldSize();
int myid = Mpi::WorldRank();
Hypre::Init();
+2
View File
@@ -80,6 +80,8 @@ int main(int argc, char *argv[])
{
// 1. Initialize MPI (required by PUMI) and HYPRE.
Mpi::Init(argc, argv);
int num_proc = Mpi::WorldSize();
int myId = Mpi::WorldRank();
Hypre::Init();
// 2. Parse command-line options.
-352
View File
@@ -1,352 +0,0 @@
/*
* spe10_coeff.cpp
*
* Created on: Aug 23, 2017
* Author: neumueller
*/
#include "mfem.hpp"
#include <fstream>
#include <iostream>
using namespace std;
using namespace mfem;
class InversePermeabilityFunction
{
public:
enum SliceOrientation {NONE, XY, XZ, YZ};
static void SetNumberCells(int Nx_, int Ny_, int Nz_);
static void SetMeshSizes(double hx, double hy, double hz);
static void Set2DSlice(SliceOrientation o, int npos );
static void ReadPermeabilityFile(const std::string fileName);
#ifdef MFEM_USE_MPI
static void ReadPermeabilityFile(const std::string fileName, MPI_Comm comm);
#endif
static void SetConstantInversePermeability(double ipx, double ipy, double ipz);
template<class F>
static void Transform(const F & f)
{
for (int i = 0; i < 3*Nx*Ny*Nz; ++i)
{
inversePermeability[i] = f(inversePermeability[i]);
}
}
static void InversePermeability(const Vector & x, Vector & val);
static double PermeabilityXY(Vector &x);
static void NegativeInversePermeability(const Vector & x, Vector & val);
static void Permeability(const Vector & x, Vector & val);
static double Norm2Permeability(const Vector & x);
static double Norm2InversePermeability(const Vector & x);
static double Norm1InversePermeability(const Vector & x);
static double NormInfInversePermeability(const Vector & x);
static double InvNorm2(const Vector & x);
static double InvNorm1(const Vector & x);
static double InvNormInf(const Vector & x);
static void ClearMemory();
private:
static int Nx;
static int Ny;
static int Nz;
static double hx;
static double hy;
static double hz;
static double * inversePermeability;
static SliceOrientation orientation;
static int npos;
};
void InversePermeabilityFunction::SetNumberCells(int Nx_, int Ny_, int Nz_)
{
Nx = Nx_;
Ny = Ny_;
Nz = Nz_;
}
void InversePermeabilityFunction::SetMeshSizes(double hx_, double hy_,
double hz_)
{
hx = hx_;
hy = hy_;
hz = hz_;
}
void InversePermeabilityFunction::Set2DSlice(SliceOrientation o, int npos_ )
{
orientation = o;
npos = npos_;
}
void InversePermeabilityFunction::SetConstantInversePermeability(double ipx,
double ipy, double ipz)
{
int compSize = Nx*Ny*Nz;
int size = 3*compSize;
inversePermeability = new double [size];
double *ip = inversePermeability;
for (int i(0); i < compSize; ++i)
{
ip[i] = ipx;
ip[i+compSize] = ipy;
ip[i+2*compSize] = ipz;
}
}
#ifdef MFEM_USE_MPI
void InversePermeabilityFunction::ReadPermeabilityFile(const std::string
fileName, MPI_Comm comm)
{
int num_procs, myid;
MPI_Comm_size(comm, &num_procs);
MPI_Comm_rank(comm, &myid);
StopWatch chrono;
chrono.Start();
if (myid == 0)
{
ReadPermeabilityFile(fileName);
}
else
{
inversePermeability = new double [3*Nx*Ny*Nz];
}
chrono.Stop();
if (myid==0)
{
std::cout<<"Permeability file read in " << chrono.RealTime() << ".s \n";
}
chrono.Clear();
chrono.Start();
MPI_Bcast(inversePermeability, 3*Nx*Ny*Nz, MPI_DOUBLE, 0, comm);
chrono.Stop();
if (myid==0)
{
std::cout<<"Permeability field distributed in " << chrono.RealTime() <<
".s \n";
}
}
#endif
void InversePermeabilityFunction::ReadPermeabilityFile(const std::string
fileName)
{
std::ifstream permfile(fileName.c_str());
if (!permfile.is_open())
{
std::cout << "Error in opening file " << fileName << "\n";
mfem_error("File do not exists");
}
inversePermeability = new double [3*Nx*Ny*Nz];
double *ip = inversePermeability;
double tmp;
for (int l = 0; l < 3; l++)
{
for (int k = 0; k < Nz; k++)
{
for (int j = 0; j < Ny; j++)
{
for (int i = 0; i < Nx; i++)
{
permfile >> *ip;
*ip = 1./(*ip);
ip++;
}
for (int i = 0; i < 60-Nx; i++)
{
permfile >> tmp; // skip unneeded part
}
}
for (int j = 0; j < 220-Ny; j++)
for (int i = 0; i < 60; i++)
{
permfile >> tmp; // skip unneeded part
}
}
if (l < 2) // if not processing Kz, skip unneeded part
for (int k = 0; k < 85-Nz; k++)
for (int j = 0; j < 220; j++)
for (int i = 0; i < 60; i++)
{
permfile >> tmp;
}
}
}
void InversePermeabilityFunction::InversePermeability(const Vector & x,
Vector & val)
{
val.SetSize(3);
unsigned int i,j,k;
switch (orientation)
{
case NONE:
i = Nx-1-(int)floor(x[0]/hx/(1.+3e-16));
j = (int)floor(x[1]/hy/(1.+3e-16));
k = Nz-1-(int)floor(x[2]/hz/(1.+3e-16));
break;
case XY:
i = Nx-1-(int)floor(x[0]/hx/(1.+3e-16));
j = (int)floor(x[1]/hy/(1.+3e-16));
k = npos;
break;
case XZ:
i = Nx-1-(int)floor(x[0]/hx/(1.+3e-16));
j = npos;
k = Nz-1-(int)floor(x[2]/hz/(1.+3e-16));
break;
case YZ:
i = npos;
j = (int)floor(x[1]/hy/(1.+3e-16));
k = Nz-1-(int)floor(x[2]/hz/(1.+3e-16));
break;
default:
{
mfem_error("InversePermeabilityFunction::InversePermeability");
}
}
int NMax = 3*Nx*Ny*Nz-1;
if (Ny*Nx*k + Nx*j + i>NMax || Ny*Nx*k + Nx*j + i + Nx*Ny*Nz>NMax ||
Ny*Nx*k + Nx*j + i + 2*Nx*Ny*Nz>NMax)
{
cout << " the indicies are wrong!" << endl;
cout << i << " " << j << " " << k << endl;
}
val[0] = inversePermeability[Ny*Nx*k + Nx*j + i];
val[1] = inversePermeability[Ny*Nx*k + Nx*j + i + Nx*Ny*Nz];
if (orientation == NONE)
{
val[2] = inversePermeability[Ny*Nx*k + Nx*j + i + 2*Nx*Ny*Nz];
}
}
double InversePermeabilityFunction::PermeabilityXY(Vector &x)
{
unsigned int i,j,k;
i = Nx-1-(int)floor(x[0]/hx/(1.+3e-16));
j = (int)floor(x[1]/hy/(1.+3e-16));
k = npos;
return 1./inversePermeability[Ny*Nx*k + Nx*j + i];
}
void InversePermeabilityFunction::NegativeInversePermeability(const Vector & x,
Vector & val)
{
InversePermeability(x,val);
val *= -1.;
}
void InversePermeabilityFunction::Permeability(const Vector & x, Vector & val)
{
InversePermeability(x,val);
for (double * it = val.GetData(), *end = val.GetData()+val.Size(); it != end;
++it )
{
(*it) = 1./ (*it);
}
}
double InversePermeabilityFunction::Norm2Permeability(const Vector & x)
{
Vector val(3);
Permeability(x,val);
return val.Norml2();
}
double InversePermeabilityFunction::Norm2InversePermeability(const Vector & x)
{
Vector val(3);
InversePermeability(x,val);
return val.Norml2();
}
double InversePermeabilityFunction::Norm1InversePermeability(const Vector & x)
{
Vector val(3);
InversePermeability(x,val);
return val.Norml1();
}
double InversePermeabilityFunction::NormInfInversePermeability(const Vector & x)
{
Vector val(3);
InversePermeability(x,val);
return val.Normlinf();
}
double InversePermeabilityFunction::InvNorm2(const Vector & x)
{
Vector val(3);
InversePermeability(x,val);
return 1./val.Norml2();
}
double InversePermeabilityFunction::InvNorm1(const Vector & x)
{
Vector val(3);
InversePermeability(x,val);
return 1./val.Norml1();
}
double InversePermeabilityFunction::InvNormInf(const Vector & x)
{
Vector val(3);
InversePermeability(x,val);
return 1./val.Normlinf();
}
void InversePermeabilityFunction::ClearMemory()
{
delete[] inversePermeability;
}
int InversePermeabilityFunction::Nx(60);
int InversePermeabilityFunction::Ny(220);
int InversePermeabilityFunction::Nz(85);
double InversePermeabilityFunction::hx(20);
double InversePermeabilityFunction::hy(10);
double InversePermeabilityFunction::hz(2);
double * InversePermeabilityFunction::inversePermeability(NULL);
InversePermeabilityFunction::SliceOrientation
InversePermeabilityFunction::orientation( InversePermeabilityFunction::NONE );
int InversePermeabilityFunction::npos(-1);
+2 -7
View File
@@ -1833,6 +1833,7 @@ void MixedBilinearForm::FormRectangularSystemMatrix(
const Array<int> &trial_tdof_list,
const Array<int> &test_tdof_list,
OperatorHandle &A)
{
if (ext)
{
@@ -1911,14 +1912,8 @@ void MixedBilinearForm::FormRectangularLinearSystem(
B.SetSubVector(test_tdof_list, 0.0);
}
void MixedBilinearForm::Update(FiniteElementSpace *ntr_fes,
FiniteElementSpace *nte_fes)
void MixedBilinearForm::Update()
{
if ((ntr_fes && nte_fes) && (ntr_fes != trial_fes || nte_fes != test_fes))
{
trial_fes = ntr_fes;
test_fes = nte_fes;
}
delete mat;
mat = NULL;
delete mat_e;
+2 -11
View File
@@ -706,10 +706,6 @@ public:
*/
void SetDiagonalPolicy(DiagonalPolicy policy);
void SetIntegratorOwnership(int _extern_bfs)
{
extern_bfs = _extern_bfs;
}
/// Indicate that integrators are not owned by the BilinearForm
void UseExternalIntegrators() { extern_bfs = 1; }
@@ -1072,13 +1068,8 @@ public:
A.MakeRef(*A_ptr);
}
virtual void Update(FiniteElementSpace *ntr_fes = NULL,
FiniteElementSpace *nte_fes = NULL);
void SetIntegratorOwnership(int _extern_bfs)
{
extern_bfs = _extern_bfs;
}
/// Must be called after making changes to #trial_fes or #test_fes.
void Update();
/// Return the trial FE space associated with the BilinearForm.
FiniteElementSpace *TrialFESpace() { return trial_fes; }
+2 -123
View File
@@ -1999,11 +1999,7 @@ void CurlCurlIntegrator::AssembleElementMatrix
{
int nd = el.GetDof();
dim = el.GetDim();
// in main
// int dimc = el.GetCurlDim();
// Taken from 4d_dev:
int dimc = (dim == 3) ? 3 : 1;
if (dim==4) { dimc = 6; }
int dimc = el.GetCurlDim();
real_t w;
#ifdef MFEM_THREAD_SAFE
@@ -2040,43 +2036,8 @@ void CurlCurlIntegrator::AssembleElementMatrix
Trans.SetIntPoint (&ip);
if (dim ==4)
{
DenseMatrix tSh(4,4);
DenseMatrix trShTemp(4,4);
DenseMatrix J = Trans.Jacobian();
DenseMatrix invJ(4,4); CalcInverse(J, invJ);
DenseMatrix invJtr(invJ); invJtr.Transpose();
el.CalcCurlShape(ip, curlshape);
for (int dof=0; dof<nd; dof++)
{
tSh = 0.; trShTemp = 0.;
tSh(0,1) = curlshape(dof,0); tSh(0,2) = curlshape(dof,1);
tSh(0,3) = curlshape(dof,2);
tSh(1,0) = -curlshape(dof,0);
tSh(1,2) = curlshape(dof,3); tSh(1,3) = curlshape(dof,4);
tSh(2,0) = -curlshape(dof,1); tSh(2,1) = -curlshape(dof,3);
tSh(2,3) = curlshape(dof,5);
tSh(3,0) = -curlshape(dof,2); tSh(3,1) = -curlshape(dof,4);
tSh(3,2) = -curlshape(dof,5);
Mult(tSh, invJ, trShTemp);
Mult(invJtr, trShTemp, tSh);
curlshape_dFt(dof,0) = tSh(0,1);
curlshape_dFt(dof,1) = tSh(0,2);
curlshape_dFt(dof,2) = tSh(0,3);
curlshape_dFt(dof,3) = tSh(1,2);
curlshape_dFt(dof,4) = tSh(1,3);
curlshape_dFt(dof,5) = tSh(2,3);
}
}
else
el.CalcPhysCurlShape(Trans, curlshape_dFt);
w = ip.weight * Trans.Weight();
el.CalcPhysCurlShape(Trans, curlshape_dFt);
if (MQ)
{
@@ -3454,7 +3415,6 @@ void DGTraceIntegrator::AssembleFaceMatrix(const FiniteElement &el1,
}
}
}
// elmat.PrintMatlab(std::cout);
}
@@ -4595,85 +4555,4 @@ VectorInnerProductInterpolator::AssembleElementMatrix2(
ran_fe.Project(dom_shape_coeff, Trans, elmat_as_vec);
}
void HeatEquationIntegrator::AssembleElementMatrix
( const FiniteElement &el, ElementTransformation &Trans,
DenseMatrix &elmat )
{
int nd = el.GetDof();
int dim = el.GetDim();
int spaceDim = Trans.GetSpaceDim();
double w;
#ifdef MFEM_THREAD_SAFE
DenseMatrix dshape(nd,dim), dshapedxt(nd,spaceDim), invdfdx(dim,spaceDim);
Vector shape(nd), vec(nd);
#else
dshape.SetSize(nd,dim);
dshapedxt.SetSize(nd,spaceDim);
invdfdx.SetSize(dim,spaceDim);
shape.SetSize(nd);
dtshape.SetSize(nd);
#endif
elmat.SetSize(nd);
const IntegrationRule *ir = IntRule;
if (ir == NULL)
{
int order;
if (el.Space() == FunctionSpace::Pk)
{
order = 2*el.GetOrder() - 2;
}
else
// order = 2*el.GetOrder() - 2; // <-- this seems to work fine too
{
order = 2*el.GetOrder() + dim - 1;
}
if (el.Space() == FunctionSpace::rQk)
{
ir = &RefinedIntRules.Get(el.GetGeomType(), order);
}
else
{
ir = &IntRules.Get(el.GetGeomType(), order);
}
}
elmat = 0.0;
for (int i = 0; i < ir->GetNPoints(); i++)
{
const IntegrationPoint &ip = ir->IntPoint(i);
el.CalcShape(ip,shape);
el.CalcDShape(ip, dshape);
Trans.SetIntPoint(&ip);
w = Trans.Weight();
w *= ip.weight;
CalcInverse(Trans.Jacobian(), invdfdx);
Mult(dshape, invdfdx, dshapedxt);
dshapedxt.GetColumn(spaceDim - 1, dtshape); // d_t u
dshapedxt.SetCol(spaceDim - 1, 0.);
AddMult_a_VWt(w,shape,dtshape,elmat); // d_t u * v
if (!MQ)
{
if (Q)
{
w *= Q->Eval(Trans, ip);
}
AddMult_a_AAt(w, dshapedxt, elmat);
}
else
{
MQ->Eval(invdfdx, Trans, ip);
invdfdx *= w;
Mult(dshapedxt, invdfdx, dshape);
AddMultABt(dshape, dshapedxt, elmat);
}
}
}
}
+4 -190
View File
@@ -266,9 +266,6 @@ public:
Vector &flux, Vector *d_energy = NULL)
{ return 0.0; }
// I think this got deleted
// void SetIntRule(const IntegrationRule *ir) { IntRule = ir; }
/** @brief For bilinear forms on element faces, specifies if the normal
derivatives are needed on the faces or just the face restriction.
@@ -301,6 +298,7 @@ public:
*/
virtual void AddMultPAFaceNormalDerivatives(const Vector &x, const Vector &dxdn,
Vector &y, Vector &dydn) const;
virtual ~BilinearFormIntegrator() { }
};
@@ -1743,7 +1741,7 @@ public:
{ vector_fe.CalcPhysDShape(Trans, shape); }
};
/** Class for integrating the bilinear form $a(u,v) := (-\hat{V} \cdot \nabla u, \nabla \cdot v)$ in 2D
/** Class for integrating the bilinear form $a(u,v) := (-\hat{V} \cdot \nabla \cdot u, \nabla \cdot v)$ in 2D
or 3D and where $\hat{V}$ is a vector coefficient, $u$ is in $H^1$ and $v$ is in $H(div)$. */
class MixedGradDivIntegrator : public MixedScalarVectorIntegrator
{
@@ -1782,7 +1780,7 @@ public:
{ scalar_fe.CalcPhysDivShape(Trans, shape); }
};
/** Class for integrating the bilinear form $a(u,v) := (-\hat{V} \nabla \cdot u, \nabla v)$ in 2D
/** Class for integrating the bilinear form $a(u,v) := (-\hat{V} \nabla \cdot u, \nabla \cdot v)$ in 2D
or 3D and where $\hat{V}$ is a vector coefficient, $u$ is in $H(div)$ and $v$ is in $H^1$. */
class MixedDivGradIntegrator : public MixedScalarVectorIntegrator
{
@@ -1822,7 +1820,7 @@ public:
{ scalar_fe.CalcPhysDivShape(Trans, shape); }
};
/** Class for integrating the bilinear form $a(u,v) := (-\hat{V} u, \nabla v)$ in 2D or 3D
/** Class for integrating the bilinear form $a(u,v) := (-\hat{V} u, \nabla \cdot v)$ in 2D or 3D
and where $\hat{V}$ is a vector coefficient, $u$ is in $H^1$ or $L_2$ and $v$ is in $H^1$. */
class MixedScalarWeakDivergenceIntegrator : public MixedScalarVectorIntegrator
{
@@ -3682,16 +3680,6 @@ public:
};
class DivSkewInterpolator : public DiscreteInterpolator
{
public:
virtual void AssembleElementMatrix2(const FiniteElement &dom_fe,
const FiniteElement &ran_fe,
ElementTransformation &Trans,
DenseMatrix &elmat)
{ ran_fe.ProjectDivSkew(dom_fe, Trans, elmat); }
};
/** Class for constructing the (local) discrete divergence matrix which can
be used as an integrator in a DiscreteLinearOperator object to assemble
the global discrete divergence matrix.
@@ -3823,179 +3811,5 @@ protected:
VectorCoefficient *VQ;
};
class DivSkewDivSkewIntegrator: public BilinearFormIntegrator
{
private:
DenseMatrix DivSkewshape, DivSkew_dFt;
Coefficient *Q;
public:
DivSkewDivSkewIntegrator() { Q = NULL; }
/// Construct a bilinear form integrator for Nedelec elements
DivSkewDivSkewIntegrator(Coefficient &q) : Q(&q) { }
/* Given a particular Finite Element, compute the
element DivSkew-DivSkew matrix elmat */
virtual void AssembleElementMatrix(const FiniteElement &el,
ElementTransformation &Trans,
DenseMatrix &elmat)
{
int nd = el.GetDof();
int dim = el.GetDim();
real_t w;
DivSkewshape.SetSize(nd,dim);
DivSkew_dFt.SetSize(nd,dim);
elmat.SetSize(nd);
const IntegrationRule *ir = IntRule;
if (ir == NULL)
{
int order = 2*el.GetOrder()+2;
ir = &IntRules.Get(el.GetGeomType(), order);
}
elmat = 0.0;
for (int i = 0; i < ir->GetNPoints(); i++)
{
const IntegrationPoint &ip = ir->IntPoint(i);
Trans.SetIntPoint (&ip);
el.CalcDivSkewShape(ip, DivSkewshape);
MultABt(DivSkewshape, Trans.Jacobian(), DivSkew_dFt);
DivSkew_dFt *= (1.0 / Trans.Weight());
w = ip.weight * fabs(Trans.Weight());
if (Q)
{
w *= Q->Eval(Trans, ip);
}
AddMult_a_AAt(w, DivSkew_dFt, elmat);
}
}
};
class VectorFE_DivSkewMassIntegrator: public BilinearFormIntegrator
{
private:
DenseMatrix shape;
Coefficient *Q;
public:
VectorFE_DivSkewMassIntegrator() { Q = NULL; }
/// Construct a bilinear form integrator for Nedelec elements
VectorFE_DivSkewMassIntegrator(Coefficient &q) : Q(&q) { }
/* Given a particular Finite Element, compute the
element curl-curl matrix elmat */
virtual void AssembleElementMatrix(const FiniteElement &el,
ElementTransformation &Trans,
DenseMatrix &elmat)
{
int nd = el.GetDof();
int dim = el.GetDim();
real_t w;
shape.SetSize(nd,dim*dim);
elmat.SetSize(nd);
const IntegrationRule *ir = IntRule;
if (ir == NULL)
{
int order = Trans.OrderW() + 2 * el.GetOrder();
ir = &IntRules.Get(el.GetGeomType(), order);
}
elmat = 0.0;
for (int i = 0; i < ir->GetNPoints(); i++)
{
const IntegrationPoint &ip = ir->IntPoint(i);
Trans.SetIntPoint (&ip);
w = ip.weight * fabs(Trans.Weight());
el.CalcVShape(Trans, shape);
if (Q)
{
w *= Q->Eval(Trans, ip);
}
AddMult_a_AAt(w, shape, elmat);
}
}
};
/** Class for integrating the bilinear form a(u,v) := (d_t u, v) + (Q grad_x u, grad_x v) where Q
can be a scalar or a matrix coefficient and grad_x is the gradient wrt to the spatial variables.
Here we use the space-time f.e. scheme by [Steinbach2015]. */
class HeatEquationIntegrator: public BilinearFormIntegrator
{
private:
Vector vec, pointflux, shape, dtshape;
#ifndef MFEM_THREAD_SAFE
DenseMatrix dshape, dshapedxt, invdfdx, mq;
DenseMatrix te_dshape, te_dshapedxt;
#endif
Coefficient *Q;
MatrixCoefficient *MQ;
public:
/// Construct a diffusion integrator with coefficient Q = 1
HeatEquationIntegrator() { Q = NULL; MQ = NULL; }
/// Construct a diffusion integrator with a scalar coefficient q
HeatEquationIntegrator (Coefficient &q) : Q(&q) { MQ = NULL; }
/// Construct a diffusion integrator with a matrix coefficient q
HeatEquationIntegrator (MatrixCoefficient &q) : MQ(&q) { Q = NULL; }
/** Given a particular Finite Element
computes the element stiffness matrix elmat. */
virtual void AssembleElementMatrix(const FiniteElement &el,
ElementTransformation &Trans,
DenseMatrix &elmat);
/** Given a trial and test Finite Element computes the element stiffness
matrix elmat. */
virtual void AssembleElementMatrix2(const FiniteElement &trial_fe,
const FiniteElement &test_fe,
ElementTransformation &Trans,
DenseMatrix &elmat)
{ mfem_error("HeatEquationIntegrator::AssembleElementMatrix2: not implemented!"); }
/// Perform the local action of the BilinearFormIntegrator
virtual void AssembleElementVector(const FiniteElement &el,
ElementTransformation &Tr,
const Vector &elfun, Vector &elvect)
{ mfem_error("HeatEquationIntegrator::AssembleElementVector: not implemented!"); }
virtual void ComputeElementFlux(const FiniteElement &el,
ElementTransformation &Trans,
Vector &u, const FiniteElement &fluxelem,
Vector &flux, int with_coef = 1)
{ mfem_error("HeatEquationIntegrator::ComputeElementFlux: not implemented!"); }
virtual double ComputeFluxEnergy(const FiniteElement &fluxelem,
ElementTransformation &Trans,
Vector &flux, Vector *d_energy = NULL)
{ mfem_error("HeatEquationIntegrator::ComputeFluxEnergy: not implemented!"); return -1;}
};
}
#endif
+8 -126
View File
@@ -129,10 +129,8 @@ real_t PWCoefficient::Eval(ElementTransformation &T,
real_t FunctionCoefficient::Eval(ElementTransformation & T,
const IntegrationPoint & ip)
{
// real_t x[Geometry::MaxDim];
// Vector transip(x, Geometry::MaxDim);
real_t x[4];
Vector transip(x, 4);
real_t x[3];
Vector transip(x, 3);
T.Transform(ip, transip);
@@ -368,10 +366,8 @@ void PositionVectorCoefficient::Eval(Vector &V, ElementTransformation &T,
void VectorFunctionCoefficient::Eval(Vector &V, ElementTransformation &T,
const IntegrationPoint &ip)
{
// real_t x[Geometry::MaxDim];
// Vector transip(x, Geometry::MaxDim);
real_t x[4];
Vector transip(x, 4);
real_t x[3];
Vector transip(x, 3);
T.Transform(ip, transip);
@@ -811,7 +807,6 @@ void SymmetricMatrixCoefficient::ProjectSymmetric(QuadratureFunction &qf)
QuadratureSpaceBase &qspace = *qf.GetSpace();
const int ne = qspace.GetNE();
qf.HostWrite();
DenseMatrix values;
DenseSymmetricMatrix matrix;
for (int iel = 0; iel < ne; ++iel)
@@ -823,7 +818,7 @@ void SymmetricMatrixCoefficient::ProjectSymmetric(QuadratureFunction &qf)
{
const IntegrationPoint &ip = ir[iq];
T.SetIntPoint(&ip);
matrix.UseExternalData(&values(0, iq), height);
matrix.UseExternalData(&values(0, iq), vdim);
Eval(matrix, T, ip);
}
}
@@ -833,12 +828,13 @@ void SymmetricMatrixCoefficient::ProjectSymmetric(QuadratureFunction &qf)
void SymmetricMatrixCoefficient::Eval(DenseMatrix &K, ElementTransformation &T,
const IntegrationPoint &ip)
{
Eval(mat_aux, T, ip);
mat.SetSize(height);
Eval(mat, T, ip);
for (int j = 0; j < width; ++j)
{
for (int i = 0; i < height; ++ i)
{
K(i, j) = mat_aux(i, j);
K(i, j) = mat(i, j);
}
}
}
@@ -928,75 +924,6 @@ void MatrixArrayCoefficient::Eval(DenseMatrix &K, ElementTransformation &T,
}
}
MatrixArrayVectorCoefficient::MatrixArrayVectorCoefficient (int dim)
: MatrixCoefficient (dim)
{
Coeff.SetSize(height);
ownCoeff.SetSize(height);
for (int i = 0; i < height; i++)
{
Coeff[i] = NULL;
ownCoeff[i] = true;
}
}
void MatrixArrayVectorCoefficient::SetTime(real_t t)
{
for (int i=0; i < height; i++)
{
if (Coeff[i]) { Coeff[i]->SetTime(t); }
}
this->MatrixCoefficient::SetTime(t);
}
void MatrixArrayVectorCoefficient::Set(int i, VectorCoefficient * c, bool own)
{
MFEM_ASSERT(i < height && i >= 0, "Row "
<< i << " does not exist. " <<
"Matrix height = " << height << ".");
if (ownCoeff[i]) { delete Coeff[i]; }
Coeff[i] = c;
ownCoeff[i] = own;
}
MatrixArrayVectorCoefficient::~MatrixArrayVectorCoefficient ()
{
for (int i=0; i < height; i++)
{
if (ownCoeff[i]) { delete Coeff[i]; }
}
}
void MatrixArrayVectorCoefficient::Eval(int i, Vector &V,
ElementTransformation &T,
const IntegrationPoint &ip)
{
MFEM_ASSERT(i < height && i >= 0, "Row "
<< i << " does not exist. " <<
"Matrix height = " << height << ".");
if (Coeff[i])
{
Coeff[i] -> Eval(V, T, ip);
}
else
{
V = 0.0;
}
}
void MatrixArrayVectorCoefficient::Eval(DenseMatrix &K,
ElementTransformation &T,
const IntegrationPoint &ip)
{
K.SetSize(height, width);
Vector V(width);
for (int i = 0; i < height; i++)
{
this->Eval(i, V, T, ip);
K.SetRow(i, V);
}
}
void MatrixRestrictedCoefficient::SetTime(real_t t)
{
if (c) { c->SetTime(t); }
@@ -1114,27 +1041,6 @@ real_t DeterminantCoefficient::Eval(ElementTransformation &T,
return ma.Det();
}
TraceCoefficient::TraceCoefficient(MatrixCoefficient &A)
: a(&A), ma(A.GetHeight(), A.GetWidth())
{
MFEM_ASSERT(A.GetHeight() == A.GetWidth(),
"TraceCoefficient: "
"Argument must be a square matrix.");
}
void TraceCoefficient::SetTime(real_t t)
{
if (a) { a->SetTime(t); }
this->Coefficient::SetTime(t);
}
real_t TraceCoefficient::Eval(ElementTransformation &T,
const IntegrationPoint &ip)
{
a->Eval(ma, T, ip);
return ma.Trace();
}
VectorSumCoefficient::VectorSumCoefficient(int dim)
: VectorCoefficient(dim),
ACoef(NULL), BCoef(NULL),
@@ -1420,30 +1326,6 @@ void InverseMatrixCoefficient::Eval(DenseMatrix &M,
M.Invert();
}
ExponentialMatrixCoefficient::ExponentialMatrixCoefficient(MatrixCoefficient &A)
: MatrixCoefficient(A.GetHeight(), A.GetWidth()), a(&A)
{
MFEM_ASSERT(A.GetHeight() == A.GetWidth() && A.GetHeight() == 2,
"ExponentialMatrixCoefficient: "
<< "Argument must be a square 2x2 matrix."
<< " Height = " << A.GetHeight()
<< ", Width = " << A.GetWidth());
}
void ExponentialMatrixCoefficient::SetTime(real_t t)
{
if (a) { a->SetTime(t); }
this->MatrixCoefficient::SetTime(t);
}
void ExponentialMatrixCoefficient::Eval(DenseMatrix &M,
ElementTransformation &T,
const IntegrationPoint &ip)
{
a->Eval(M, T, ip);
M.Exponential();
}
OuterProductCoefficient::OuterProductCoefficient(VectorCoefficient &A,
VectorCoefficient &B)
: MatrixCoefficient(A.GetVDim(), B.GetVDim()), a(&A), b(&B),
+6 -100
View File
@@ -1334,46 +1334,6 @@ public:
virtual ~MatrixArrayCoefficient();
};
/** @brief Matrix coefficient defined row-wise by an array of vector
coefficients. Rows that are not set will evaluate to zero. The
matrix coefficient is stored as an array indexing the rows of
the matrix. */
class MatrixArrayVectorCoefficient : public MatrixCoefficient
{
private:
Array<VectorCoefficient *> Coeff;
Array<bool> ownCoeff;
public:
/** @brief Construct a coefficient matrix of dimensions @a dim * @a dim. The
actual coefficients still need to be added with Set(). */
explicit MatrixArrayVectorCoefficient (int dim);
/// Set the time for internally stored coefficients
void SetTime(real_t t) override;
/// Get the vector coefficient located at the i-th row of the matrix
VectorCoefficient* GetCoeff (int i) { return Coeff[i]; }
/** @brief Set the coefficient located at the i-th row of the matrix.
By this will take ownership of the Coefficient passed in, but this
can be overridden with the @a own parameter. */
void Set(int i, VectorCoefficient * c, bool own=true);
using MatrixCoefficient::Eval;
/// Evaluate coefficient located at the i-th row of the matrix using integration
/// point @a ip.
void Eval(int i, Vector &V, ElementTransformation &T,
const IntegrationPoint &ip);
/// Evaluate the matrix coefficient @a ip.
void Eval(DenseMatrix &K, ElementTransformation &T,
const IntegrationPoint &ip) override;
virtual ~MatrixArrayVectorCoefficient();
};
/** @brief Derived matrix coefficient that has the value of the parent matrix
coefficient where it is active and is zero otherwise. */
@@ -1466,13 +1426,12 @@ public:
class SymmetricMatrixCoefficient : public MatrixCoefficient
{
protected:
/// Internal matrix used when evaluating this coefficient as a DenseMatrix.
mutable DenseSymmetricMatrix mat_aux;
DenseSymmetricMatrix mat;
public:
/// Construct a dim x dim matrix coefficient.
explicit SymmetricMatrixCoefficient(int dimension)
: MatrixCoefficient(dimension, true), mat_aux(height) { }
: MatrixCoefficient(dimension, true) { }
/// Get the size of the matrix.
int GetSize() const { return height; }
@@ -1505,9 +1464,8 @@ public:
virtual void Eval(DenseMatrix &K, ElementTransformation &T,
const IntegrationPoint &ip);
/// @deprecated Return a reference to the internal matrix used when evaluating this coefficient as a DenseMatrix.
MFEM_DEPRECATED const DenseSymmetricMatrix& GetMatrix() { return mat_aux; }
/// Return a reference to the constant matrix.
const DenseSymmetricMatrix& GetMatrix() { return mat; }
virtual ~SymmetricMatrixCoefficient() { }
};
@@ -1527,10 +1485,6 @@ public:
/// Evaluate the matrix coefficient at @a ip.
virtual void Eval(DenseSymmetricMatrix &M, ElementTransformation &T,
const IntegrationPoint &ip) { M = mat; }
/// Return a reference to the constant matrix.
const DenseSymmetricMatrix& GetMatrix() { return mat; }
};
@@ -1807,31 +1761,6 @@ public:
const IntegrationPoint &ip);
};
/// Scalar coefficient defined as the trace of a matrix coefficient
class TraceCoefficient : public Coefficient
{
private:
MatrixCoefficient * a;
mutable DenseMatrix ma;
public:
/// Construct with the matrix.
TraceCoefficient(MatrixCoefficient &A);
/// Set the time for internally stored coefficients
void SetTime(real_t t);
/// Reset the matrix coefficient
void SetACoef(MatrixCoefficient &A) { a = &A; }
/// Return the matrix coefficient
MatrixCoefficient * GetACoef() const { return a; }
/// Evaluate the trace coefficient at @a ip.
virtual real_t Eval(ElementTransformation &T,
const IntegrationPoint &ip);
};
/// Vector coefficient defined as the linear combination of two vectors
class VectorSumCoefficient : public VectorCoefficient
{
@@ -2183,7 +2112,7 @@ public:
const IntegrationPoint &ip);
};
/// Matrix coefficient defined as the transpose of a matrix coefficient
/// Matrix coefficient defined as the transpose a matrix coefficient
class TransposeMatrixCoefficient : public MatrixCoefficient
{
private:
@@ -2206,7 +2135,7 @@ public:
const IntegrationPoint &ip);
};
/// Matrix coefficient defined as the inverse of a matrix coefficient.
/// Matrix coefficient defined as the inverse a matrix coefficient.
class InverseMatrixCoefficient : public MatrixCoefficient
{
private:
@@ -2229,29 +2158,6 @@ public:
const IntegrationPoint &ip);
};
/// Matrix coefficient defined as the exponential of a matrix coefficient.
class ExponentialMatrixCoefficient : public MatrixCoefficient
{
private:
MatrixCoefficient * a;
public:
/// Construct the matrix coefficient. Result is $ \exp(A) $.
ExponentialMatrixCoefficient(MatrixCoefficient &A);
/// Set the time for internally stored coefficients
void SetTime(real_t t);
/// Reset the matrix coefficient
void SetACoef(MatrixCoefficient &A) { a = &A; }
/// Return the matrix coefficient
MatrixCoefficient * GetACoef() const { return a; }
/// Evaluate the matrix coefficient at @a ip.
virtual void Eval(DenseMatrix &M, ElementTransformation &T,
const IntegrationPoint &ip);
};
/// Matrix coefficient defined as the outer product of two vector coefficients.
class OuterProductCoefficient : public MatrixCoefficient
{
+2 -6
View File
@@ -180,7 +180,7 @@ int InverseElementTransformation::NewtonSolve(const Vector &pt,
const int dim = T->GetDimension();
const int sdim = T->GetSpaceDim();
IntegrationPoint xip, prev_xip;
double xd[4], yd[4], dxd[4], dx_norm = -1.0, err_phys, real_dx_norm = -1.0;
real_t xd[3], yd[3], dxd[3], dx_norm = -1.0, err_phys, real_dx_norm = -1.0;
Vector x(xd, dim), y(yd, sdim), dx(dxd, dim);
bool hit_bdr = false, prev_hit_bdr = false;
@@ -389,8 +389,6 @@ void IsoparametricTransformation::SetIdentityTransformation(
case Geometry::CUBE : FElem = &HexahedronFE; break;
case Geometry::PRISM : FElem = &WedgeFE; break;
case Geometry::PYRAMID : FElem = &PyramidFE; break;
case Geometry::PENTATOPE: FElem = &PentatopeFE; break;
case Geometry::TESSERACT: FElem = &TesseractFE; break;
default:
MFEM_ABORT("unknown Geometry::Type!");
}
@@ -545,9 +543,7 @@ void IsoparametricTransformation::Transform (const DenseMatrix &matrix,
void IntegrationPointTransformation::Transform (const IntegrationPoint &ip1,
IntegrationPoint &ip2)
{
// real_t vec[Geometry::MaxDim];
real_t vec[4];
real_t vec[3];
Vector v (vec, Transf.GetPointMat().Height());
Transf.Transform (ip1, v);
-4
View File
@@ -43,10 +43,6 @@ LinearWedgeFiniteElement WedgeFE;
// Defined here to ensure it is constructed before 'Geometries'.
LinearPyramidFiniteElement PyramidFE;
// Object declared in mesh/pentatope.hpp.
// Defined here to ensure it is constructed before 'Geometries'.
Linear4DFiniteElement PentatopeFE;
// Object declared in geom.hpp.
// Construct 'Geometries' after 'TriangleFE', 'TetrahedronFE', 'WedgeFE', and
// PyramidFE.
-93
View File
@@ -93,13 +93,6 @@ void FiniteElement::CalcPhysCurlShape(ElementTransformation &Trans,
}
}
void FiniteElement::CalcDivSkewShape(const IntegrationPoint &ip,
DenseMatrix &curl_shape) const
{
mfem_error ("FiniteElement::CalcDivSkewShape (ip, ...)\n"
" is not implemented for this class!");
}
void FiniteElement::GetFaceDofs(int face, int **dofs, int *ndofs) const
{
MFEM_ABORT("method is not overloaded");
@@ -186,14 +179,6 @@ void FiniteElement::ProjectDiv(
MFEM_ABORT("method is not implemented for this element");
}
void FiniteElement::ProjectDivSkew(
const FiniteElement &fe, ElementTransformation &Trans,
DenseMatrix &DivSkew) const
{
mfem_error("FiniteElement::ProjectDivSkew(...) is not implemented for "
"this element!");
}
void FiniteElement::CalcPhysShape(ElementTransformation &Trans,
Vector &shape) const
{
@@ -1027,19 +1012,9 @@ void VectorFiniteElement::SetDerivMembers()
deriv_range_type = SCALAR;
deriv_map_type = INTEGRAL;
break;
case H_DIV_SKEW:
deriv_type = DIV_SKEW;
deriv_range_type = VECTOR;
deriv_map_type = H_DIV;
break;
case H_CURL:
switch (dim)
{
case 4: // curl: 4D H_CURL -> 4D H_DIV(skew)
deriv_type = CURL;
deriv_range_type = MAT_SKEW;
deriv_map_type = H_DIV_SKEW;
break;
case 3: // curl: 3D H_CURL -> 3D H_DIV
deriv_type = CURL;
deriv_range_type = VECTOR;
@@ -1088,74 +1063,6 @@ void VectorFiniteElement::CalcVShape_ND(
Mult(vshape, Trans.InverseJacobian(), shape);
}
void VectorFiniteElement::CalcVShape_DivSkew (
ElementTransformation &Trans, DenseMatrix &shape) const
{
if (dim!=4) { return; }
MFEM_ASSERT(map_type == H_DIV_SKEW, "");
const DenseMatrix &J = Trans.Jacobian();
#ifdef MFEM_THREAD_SAFE
DenseMatrix vshape(dof, dim*dim);
DenseMatrix Jinv(J.Width(), J.Height());
#else
Jinv.SetSize(J.Width(), J.Height());
#endif
if (vshape.Width()!=dim*dim) { vshape.SetSize(dof,dim*dim); }
CalcVShape(Trans.GetIntPoint(), vshape);
CalcInverse(J, Jinv);
DenseMatrix invJtr(Jinv); invJtr.Transpose();
CalcVShape(Trans.GetIntPoint(), vshape);
DenseMatrix mat(dim,dim); mat = 0.0;
DenseMatrix tempMat(dim,dim);
for (int o=0; o<dof; o++)
{
// for(int ik=0; ik<dim; ik++)
// for(int jk=0; jk<dim; jk++)
// {
// mat(ik,jk) = vshape(o,dim*ik+jk);
// }
//
// Mult(mat, Jinv, tempMat);
// Mult(invJtr, tempMat, mat);
//
// for(int ik=0; ik<dim; ik++)
// for(int jk=0; jk<dim; jk++)
// {
// shape(o,dim*ik+jk) = mat(ik,jk);
// }
mat(0,0) = 0.0; mat(0,1) = vshape(o,11);
mat(0,2) = vshape(o,13); mat(0,3) = vshape(o,6);
mat(1,0) = vshape(o,14); mat(1,1) = 0.0;
mat(1,2) = vshape(o,3); mat(1,3) = vshape(o,8);
mat(2,0) = vshape(o,7); mat(2,1) = vshape(o,12); mat(2,2) = 0.0;
mat(2,3) = vshape(o,1);
mat(3,0) = vshape(o,9); mat(3,1) = vshape(o,2);
mat(3,2) = vshape(o,4); mat(3,3) = 0.0;
Mult(mat, Jinv, tempMat);
Mult(invJtr, tempMat, mat);
shape(o,0) = 0.0; shape(o,1) = mat(2,3); shape(o,2) = mat(3,1);
shape(o,3) = mat(1,2);
shape(o,4) = mat(3,2); shape(o,5) = 0.0; shape(o,6) = mat(0,3);
shape(o,7) = mat(2,0);
shape(o,8) = mat(1,3); shape(o,9) = mat(3,0); shape(o,10) = 0.0;
shape(o,11) = mat(0,1);
shape(o,12) = mat(2,1); shape(o,13) = mat(0,2); shape(o,14) = mat(1,0);
shape(o,15) = 0.0;
}
}
void VectorFiniteElement::Project_RT(
const real_t *nk, const Array<int> &d2n,
VectorCoefficient &vc, ElementTransformation &Trans, Vector &dofs) const
+4 -18
View File
@@ -259,7 +259,7 @@ protected:
public:
/// Enumeration for range_type and deriv_range_type
enum RangeType { UNKNOWN_RANGE_TYPE = -1, SCALAR, VECTOR, MAT_SKEW };
enum RangeType { UNKNOWN_RANGE_TYPE = -1, SCALAR, VECTOR };
/** @brief Enumeration for MapType: defines how reference functions are
mapped to physical space.
@@ -281,11 +281,10 @@ 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_SKEW
};
/** @brief Enumeration for DerivType: defines which derivative method
@@ -300,8 +299,7 @@ public:
NONE, ///< No derivatives implemented
GRAD, ///< Implements CalcDShape methods
DIV, ///< Implements CalcDivShape methods
CURL, ///< Implements CalcCurlShape methods
DIV_SKEW
CURL ///< Implements CalcCurlShape methods
};
/** @brief Construct FiniteElement with given
@@ -450,10 +448,6 @@ public:
virtual void CalcPhysCurlShape(ElementTransformation &Trans,
DenseMatrix &curl_shape) const;
virtual void CalcDivSkewShape(const IntegrationPoint &ip,
DenseMatrix &curl_shape) const;
/** @brief Get the dofs associated with the given @a face.
@a *dofs is set to an internal array of the local dofc on the
face, while *ndofs is set to the number of dofs on that face.
@@ -583,10 +577,6 @@ public:
ElementTransformation &Trans,
DenseMatrix &div) const;
virtual void ProjectDivSkew(const FiniteElement &fe,
ElementTransformation &Trans,
DenseMatrix &DivSkew) const;
/** @brief Return a DofToQuad structure corresponding to the given
IntegrationRule using the given DofToQuad::Mode. */
/** See the documentation for DofToQuad for more details. */
@@ -822,7 +812,7 @@ private:
protected:
bool is_nodal;
#ifndef MFEM_THREAD_SAFE
mutable DenseMatrix JtJ, J, Jinv;
mutable DenseMatrix JtJ;
mutable DenseMatrix curlshape, curlshape_J;
#endif
void SetDerivMembers();
@@ -833,10 +823,6 @@ protected:
void CalcVShape_ND(ElementTransformation &Trans,
DenseMatrix &shape) const;
void CalcVShape_DivSkew(ElementTransformation &Trans,
DenseMatrix &shape) const;
/** @brief Project a vector coefficient onto the RT basis functions
@param nk Face normal vectors for this element type
@param d2n Offset into nk for each degree of freedom
File diff suppressed because it is too large Load Diff
-187
View File
@@ -450,74 +450,6 @@ public:
{ dofs = 0.0; dofs(vertex) = 1.0; }
};
/// Class for quad-linear FE on tesseract (4d element)
class QuadLinear4DFiniteElement : public NodalFiniteElement
{
public:
/// Construct a quad-linear FE on tesseract
QuadLinear4DFiniteElement();
/** virtual function which evaluates the values of all
shape functions at a given point ip and stores
them in the vector shape of dimension Dof (16) */
virtual void CalcShape(const IntegrationPoint &ip, Vector &shape) const;
/** virtual function which evaluates the values of all
partial derivatives of all shape functions at a given
point ip and stores them in the matrix dshape (Dof x Dim) (16 x 4)
so that each row contains the derivatives of one shape function */
virtual void CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const;
virtual void CalcHessian (const IntegrationPoint &ip,
DenseMatrix &h) const;
virtual void ProjectDelta(int vertex, Vector &dofs) const
{ dofs = 0.0; dofs(vertex) = 1.0; }
};
/// Class for linear FE on a pentatope
class Linear4DFiniteElement : public NodalFiniteElement
{
public:
/// Construct a linear FE on tetrahedron
Linear4DFiniteElement();
/** virtual function which evaluates the values of all
shape functions at a given point ip and stores
them in the vector shape of dimension Dof (4) */
virtual void CalcShape(const IntegrationPoint &ip, Vector &shape) const;
/** virtual function which evaluates the values of all
partial derivatives of all shape functions at a given
point ip and stores them in the matrix dshape (Dof x Dim) (4 x 3)
so that each row contains the derivatives of one shape function */
virtual void CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const;
virtual void ProjectDelta(int vertex, Vector &dofs) const
{ dofs = 0.0; dofs(vertex) = 1.0; }
virtual void GetFaceDofs(int face, int **dofs, int *ndofs) const;
virtual void CalcHessian(const IntegrationPoint &ip, DenseMatrix &h) const;
};
/// Class for quadratic FE on pentatope
class Quadratic4DFiniteElement : public NodalFiniteElement
{
public:
/// Construct a quadratic FE on pentatope
Quadratic4DFiniteElement();
virtual void CalcShape(const IntegrationPoint &ip, Vector &shape) const;
virtual void CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const;
virtual void CalcHessian(const IntegrationPoint &ip,
DenseMatrix &h) const;
};
/// A 2D Crouzeix-Raviart element on triangle
class CrouzeixRaviartFiniteElement : public NodalFiniteElement
@@ -1257,126 +1189,7 @@ public:
DenseMatrix &dshape) const;
};
//lowest order first kind nedelec element for a pentatope
class Nedelec1PentFiniteElement : public VectorFiniteElement
{
private:
static const double tk[10][4];
public:
Nedelec1PentFiniteElement();
virtual void CalcVShape(const IntegrationPoint &ip,
DenseMatrix &shape) const;
virtual void CalcVShape(ElementTransformation &Trans,
DenseMatrix &shape) const
{ CalcVShape_ND(Trans, shape); }
virtual void CalcCurlShape(const IntegrationPoint &ip,
DenseMatrix &curl_shape) const;
virtual void GetLocalInterpolation (ElementTransformation &Trans,
DenseMatrix &I) const;
using FiniteElement::Project;
virtual void Project (VectorCoefficient &vc,
ElementTransformation &Trans, Vector &dofs) const;
virtual void Project(const FiniteElement &fe, ElementTransformation &Trans,
DenseMatrix &I) const;
virtual void ProjectGrad(const FiniteElement &fe,
ElementTransformation &Trans,
DenseMatrix &grad) const;
};
//lowest order second kind nedelec element for a pentatope
class Nedelec1FullPentFiniteElement : public VectorFiniteElement
{
private:
static const double tk[10][4];
public:
Nedelec1FullPentFiniteElement();
virtual void CalcVShape(const IntegrationPoint &ip,
DenseMatrix &shape) const;
virtual void CalcVShape(ElementTransformation &Trans,
DenseMatrix &shape) const
{ CalcVShape_ND(Trans, shape); }
virtual void CalcCurlShape(const IntegrationPoint &ip,
DenseMatrix &curl_shape) const;
virtual void GetLocalInterpolation (ElementTransformation &Trans,
DenseMatrix &I) const {};
using FiniteElement::Project;
virtual void Project (VectorCoefficient &vc,
ElementTransformation &Trans, Vector &dofs) const;
virtual void Project(const FiniteElement &fe, ElementTransformation &Trans,
DenseMatrix &I) const;
virtual void ProjectGrad(const FiniteElement &fe,
ElementTransformation &Trans,
DenseMatrix &grad) const;
};
class DivSkew1PentFiniteElement : public VectorFiniteElement
{
private:
static const double tk1[10][4];
static const double tk2[10][4];
public:
DivSkew1PentFiniteElement();
virtual void CalcVShape(const IntegrationPoint &ip,
DenseMatrix &shape) const;
virtual void CalcVShape(ElementTransformation &Trans,
DenseMatrix &shape) const
{ CalcVShape_DivSkew(Trans, shape); }
virtual void CalcDivSkewShape(const IntegrationPoint &ip,
DenseMatrix &divSkew_shape) const;
virtual void GetLocalInterpolation (ElementTransformation &Trans,
DenseMatrix &I) const;
using FiniteElement::Project;
virtual void Project (VectorCoefficient &vc,
ElementTransformation &Trans, Vector &dofs) const;
virtual void Project(const FiniteElement &fe, ElementTransformation &Trans,
DenseMatrix &I) const;
virtual void ProjectCurl(const FiniteElement &fe,
ElementTransformation &Trans,
DenseMatrix &curl) const;
};
class RT0PentFiniteElement : public VectorFiniteElement
{
private:
static const double nk[5][4];
public:
RT0PentFiniteElement();
virtual void CalcVShape(const IntegrationPoint &ip,
DenseMatrix &shape) const;
virtual void CalcVShape(ElementTransformation &Trans,
DenseMatrix &shape) const
{ CalcVShape_RT(Trans, shape); };
virtual void CalcDivShape(const IntegrationPoint &ip,
Vector &divshape) const;
virtual void GetLocalInterpolation (ElementTransformation &Trans,
DenseMatrix &I) const;
using FiniteElement::Project;
virtual void Project (VectorCoefficient &vc,
ElementTransformation &Trans, Vector &dofs) const;
virtual void Project(const FiniteElement &fe, ElementTransformation &Trans,
DenseMatrix &I) const;
virtual void ProjectDivSkew(const FiniteElement &fe,
ElementTransformation &Trans,
DenseMatrix &DivSkew) const;
};
} // namespace mfem
#endif
-341
View File
@@ -1040,345 +1040,4 @@ void H1_WedgeElement::CalcDShape(const IntegrationPoint &ip,
}
}
H1_PentatopeElement::H1_PentatopeElement(const int p, const int type)
: NodalFiniteElement(4, Geometry::PENTATOPE,
((p + 1)*(p + 2)*(p + 3)*(p + 4))/24,
p, FunctionSpace::Pk)
{
const double *cp = poly1d.ClosedPoints(p, VerifyClosed(type));
#ifndef MFEM_THREAD_SAFE
shape_x.SetSize(p + 1);
shape_y.SetSize(p + 1);
shape_z.SetSize(p + 1);
shape_t.SetSize(p + 1);
shape_l.SetSize(p + 1);
dshape_x.SetSize(p + 1);
dshape_y.SetSize(p + 1);
dshape_z.SetSize(p + 1);
dshape_t.SetSize(p + 1);
dshape_l.SetSize(p + 1);
ddshape_x.SetSize(p + 1);
ddshape_y.SetSize(p + 1);
ddshape_z.SetSize(p + 1);
ddshape_t.SetSize(p + 1);
ddshape_l.SetSize(p + 1);
u.SetSize(dof);
du.SetSize(dof, dim);
ddu.SetSize(dof,dim*(dim+1)/2 );
#else
Vector shape_x(p + 1), shape_y(p + 1), shape_z(p + 1), shape_t(p+1),
shape_l(p + 1);
#endif
// vertices
Nodes.IntPoint(0).Set4(cp[0], cp[0], cp[0], cp[0]);
Nodes.IntPoint(1).Set4(cp[p], cp[0], cp[0], cp[0]);
Nodes.IntPoint(2).Set4(cp[0], cp[p], cp[0], cp[0]);
Nodes.IntPoint(3).Set4(cp[0], cp[0], cp[p], cp[0]);
Nodes.IntPoint(4).Set4(cp[0], cp[0], cp[0], cp[p]);
// edges (see Tetrahedron::edges in mesh/tetrahedron.cpp)
int o = 5;
for (int i = 1; i < p; i++) // (0,1)
{
Nodes.IntPoint(o++).Set4(cp[i], cp[0], cp[0], cp[0]);
}
for (int i = 1; i < p; i++) // (0,2)
{
Nodes.IntPoint(o++).Set4(cp[0], cp[i], cp[0], cp[0]);
}
for (int i = 1; i < p; i++) // (0,3)
{
Nodes.IntPoint(o++).Set4(cp[0], cp[0], cp[i], cp[0]);
}
for (int i = 1; i < p; i++) // (0,4)
{
Nodes.IntPoint(o++).Set4(cp[0], cp[0], cp[0], cp[i]);
}
for (int i = 1; i < p; i++) // (1,2)
{
Nodes.IntPoint(o++).Set4(cp[p-i], cp[i], cp[0], cp[0]);
}
for (int i = 1; i < p; i++) // (1,3)
{
Nodes.IntPoint(o++).Set4(cp[p-i], cp[0], cp[i], cp[0]);
}
for (int i = 1; i < p; i++) // (1,4)
{
Nodes.IntPoint(o++).Set4(cp[p-i], cp[0], cp[0], cp[i]);
}
for (int i = 1; i < p; i++) // (2,3)
{
Nodes.IntPoint(o++).Set4(cp[0], cp[p-i], cp[i], cp[0]);
}
for (int i = 1; i < p; i++) // (2,4)
{
Nodes.IntPoint(o++).Set4(cp[0], cp[p-i], cp[0], cp[i]);
}
for (int i = 1; i < p; i++) // (3,4)
{
Nodes.IntPoint(o++).Set4(cp[0], cp[0], cp[p-i], cp[i]);
}
// planars (see Mesh::GeneratePlanars in mesh/mesh.cpp)
for (int j = 1; j < p; j++)
for (int i=1; i + j < p; i++) // (0,1,2)
{
double w = cp[i] + cp[j] + cp[p-i-j];
Nodes.IntPoint(o++).Set4(cp[i]/w, cp[j]/w, cp[0], cp[0]);
}
for (int j = 1; j < p; j++)
for (int i=1; i + j < p; i++) // (0,1,3)
{
double w = cp[i] + cp[j] + cp[p-i-j];
Nodes.IntPoint(o++).Set4(cp[i]/w, cp[0], cp[j]/w, cp[0]);
}
for (int j = 1; j < p; j++)
for (int i=1; i + j < p; i++) // (0,1,4)
{
double w = cp[i] + cp[j] + cp[p-i-j];
Nodes.IntPoint(o++).Set4(cp[i]/w, cp[0], cp[0], cp[j]/w);
}
for (int j = 1; j < p; j++)
for (int i=1; i + j < p; i++) // (0,2,3)
{
double w = cp[i] + cp[j] + cp[p-i-j];
Nodes.IntPoint(o++).Set4(cp[0], cp[i]/w, cp[j]/w, cp[0]);
}
for (int j = 1; j < p; j++)
for (int i=1; i + j < p; i++) // (0,2,4)
{
double w = cp[i] + cp[j] + cp[p-i-j];
Nodes.IntPoint(o++).Set4(cp[0], cp[i]/w, cp[0], cp[j]/w);
}
for (int j = 1; j < p; j++)
for (int i=1; i + j < p; i++) // (0,3,4)
{
double w = cp[i] + cp[j] + cp[p-i-j];
Nodes.IntPoint(o++).Set4(cp[0], cp[0], cp[i]/w, cp[j]/w);
}
for (int j = 1; j < p; j++)
for (int i=1; i + j < p; i++) // (1,2,3)
{
double w = cp[i] + cp[j] + cp[p-i-j];
Nodes.IntPoint(o++).Set4(cp[p-i-j]/w, cp[i]/w, cp[j]/w, cp[0]);
}
for (int j = 1; j < p; j++)
for (int i=1; i + j < p; i++) // (1,2,4)
{
double w = cp[i] + cp[j] + cp[p-i-j];
Nodes.IntPoint(o++).Set4(cp[p-i-j]/w, cp[i]/w, cp[0], cp[j]/w);
}
for (int j = 1; j < p; j++)
for (int i=1; i + j < p; i++) // (1,3,4)
{
double w = cp[i] + cp[j] + cp[p-i-j];
Nodes.IntPoint(o++).Set4(cp[p-i-j]/w, cp[0], cp[i]/w, cp[j]/w);
}
for (int j = 1; j < p; j++)
for (int i=1; i + j < p; i++) // (2,3,4)
{
double w = cp[i] + cp[j] + cp[p-i-j];
Nodes.IntPoint(o++).Set4(cp[0], cp[p-i-j]/w, cp[i]/w, cp[j]/w);
}
// face(volumes)s (see Mesh::GenerateFaces in mesh/mesh.cpp)
for (int k = 1; k < p; k++)
for (int j = 1; j + k < p; j++)
for (int i = 1; i + j + k < p; i++) // (0,1,2,3)
{
double w = cp[i] + cp[j] + cp[k] + cp[p-i-j-k];
Nodes.IntPoint(o++).Set4(cp[i]/w, cp[j]/w, cp[k]/w, cp[0]);
}
for (int k = 1; k < p; k++)
for (int j = 1; j + k < p; j++)
for (int i = 1; i + j + k < p; i++) // (0,2,1,4)
{
double w = cp[i] + cp[j] + cp[k] + cp[p-i-j-k];
Nodes.IntPoint(o++).Set4(cp[j]/w, cp[i]/w, cp[0], cp[k]/w);
}
for (int k = 1; k < p; k++)
for (int j = 1; j + k < p; j++)
for (int i = 1; i + j + k < p; i++) // (0,1,3,4)
{
double w = cp[i] + cp[j] + cp[k] + cp[p-i-j-k];
Nodes.IntPoint(o++).Set4(cp[i]/w, cp[0], cp[j]/w, cp[k]/w);
}
for (int k = 1; k < p; k++)
for (int j = 1; j + k < p; j++)
for (int i = 1; i + j + k < p; i++) // (0,3,2,4)
{
double w = cp[i] + cp[j] + cp[k] + cp[p-i-j-k];
Nodes.IntPoint(o++).Set4(cp[0], cp[j]/w, cp[i]/w, cp[k]/w);
}
for (int k = 1; k < p; k++)
for (int j = 1; j + k < p; j++)
for (int i = 1; i + j + k < p; i++) // (1,2,3,4)
{
double w = cp[i] + cp[j] + cp[k] + cp[p-i-j-k];
Nodes.IntPoint(o++).Set4(cp[p-i-j-k]/w, cp[i]/w, cp[j]/w, cp[k]/w);
}
// interior
for (int l = 1; l < p; l++)
for (int k = 1; k + l < p; k++)
for (int j = 1; j + k + l < p; j++)
for (int i = 1; i + j + k + l < p; i++)
{
double w = cp[i] + cp[j] + cp[k] + cp[l] + cp[p-i-j-k-l];
Nodes.IntPoint(o++).Set4(cp[i]/w, cp[j]/w, cp[k]/w, cp[l]/w);
}
DenseMatrix T(dof);
for (int m = 0; m < dof; m++)
{
IntegrationPoint &ip = Nodes.IntPoint(m);
poly1d.CalcBasis(p, ip.x, shape_x);
poly1d.CalcBasis(p, ip.y, shape_y);
poly1d.CalcBasis(p, ip.z, shape_z);
poly1d.CalcBasis(p, ip.t, shape_t);
poly1d.CalcBasis(p, 1. - ip.x - ip.y - ip.z - ip.t, shape_l);
o = 0;
for (int l = 0; l <= p; l++)
for (int k = 0; k + l <= p; k++)
for (int j = 0; j + k +l <= p; j++)
for (int i = 0; i + j + k + l <= p; i++)
{
T(o++, m) = shape_x(i)*shape_y(j)*shape_z(k)*shape_t(l)*shape_l(p-i-j-k-l);
}
}
Ti.Factor(T);
// cout << "H1_PentatopeElement(" << p << ") : "; Ti.TestInversion();
}
void H1_PentatopeElement::CalcShape(const IntegrationPoint &ip,
Vector &shape) const
{
const int p = order;
#ifdef MFEM_THREAD_SAFE
Vector shape_x(p + 1), shape_y(p + 1), shape_z(p + 1), shape_t(p+1),
shape_l(p + 1);
Vector u(Dof);
#endif
poly1d.CalcBasis(p, ip.x, shape_x);
poly1d.CalcBasis(p, ip.y, shape_y);
poly1d.CalcBasis(p, ip.z, shape_z);
poly1d.CalcBasis(p, ip.t, shape_t);
poly1d.CalcBasis(p, 1. - ip.x - ip.y - ip.z - ip.t, shape_l);
for (int o = 0, l = 0; l <= p; l++)
for (int k = 0; k + l <= p; k++)
for (int j = 0; j + k + l <= p; j++)
for (int i = 0; i + j + k + l <= p; i++)
{
u(o++) = shape_x(i)*shape_y(j)*shape_z(k)*shape_t(l)*shape_l(p-i-j-k-l);
}
Ti.Mult(u, shape);
}
void H1_PentatopeElement::CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const
{
const int p = order;
#ifdef MFEM_THREAD_SAFE
Vector shape_x(p + 1), shape_y(p + 1), shape_z(p + 1), shape_t(p+1),
shape_l(p + 1);
Vector dshape_x(p + 1), dshape_y(p + 1), dshape_z(p + 1), dshape_t(p+1),
dshape_l(p + 1);
DenseMatrix du(Dof, Dim);
#endif
poly1d.CalcBasis(p, ip.x, shape_x, dshape_x);
poly1d.CalcBasis(p, ip.y, shape_y, dshape_y);
poly1d.CalcBasis(p, ip.z, shape_z, dshape_z);
poly1d.CalcBasis(p, ip.t, shape_t, dshape_t);
poly1d.CalcBasis(p, 1. - ip.x - ip.y - ip.z - ip.t, shape_l, dshape_l);
for (int o = 0, l = 0; l <= p; l++)
for (int k = 0; k + l <= p; k++)
for (int j = 0; j + k + l <= p; j++)
for (int i = 0; i + j + k + l <= p; i++)
{
int m = p - i - j - k - l;
du(o,0) = ((dshape_x(i)* shape_l(m)) -
( shape_x(i)*dshape_l(m)))*shape_y(j)*shape_z(k)*shape_t(l);
du(o,1) = ((dshape_y(j)* shape_l(m)) -
( shape_y(j)*dshape_l(m)))*shape_x(i)*shape_z(k)*shape_t(l);
du(o,2) = ((dshape_z(k)* shape_l(m)) -
( shape_z(k)*dshape_l(m)))*shape_x(i)*shape_y(j)*shape_t(l);
du(o,3) = ((dshape_t(l)* shape_l(m)) -
( shape_t(l)*dshape_l(m)))*shape_x(i)*shape_y(j)*shape_z(k);
o++;
}
Ti.Mult(du, dshape);
}
void H1_PentatopeElement::CalcHessian(const IntegrationPoint &ip,
DenseMatrix &ddshape) const
{
const int p = order;
#ifdef MFEM_THREAD_SAFE
Vector shape_x(p + 1), shape_y(p + 1), shape_z(p + 1), shape_t(p+1),
shape_l(p + 1);
Vector dshape_x(p + 1), dshape_y(p + 1), dshape_z(p + 1), dshape_t(p+1),
dshape_l(p + 1);
Vector ddshape_x(p + 1), ddshape_y(p + 1), ddshape_z(p + 1), ddshape_t(p+1),
ddshape_l(p + 1);
DenseMatrix ddu(Dof, ((Dim+1)*Dim)/2);
#endif
poly1d.CalcBasis(p, ip.x, shape_x, dshape_x, ddshape_x);
poly1d.CalcBasis(p, ip.y, shape_y, dshape_y, ddshape_y);
poly1d.CalcBasis(p, ip.z, shape_z, dshape_z, ddshape_z);
poly1d.CalcBasis(p, ip.t, shape_t, dshape_t, ddshape_t);
poly1d.CalcBasis(p, 1. - ip.x - ip.y - ip.z - ip.t, shape_l, dshape_l,
ddshape_l);
for (int o = 0, l = 0; l <= p; l++)
for (int k = 0; k + l <= p; k++)
for (int j = 0; j + k + l <= p; j++)
for (int i = 0; i + j + k + l <= p; i++)
{
// u_xx, u_xy, u_xz, u_xt, u_yy, u_yz, u_yt, u_zz, u_zt, u_tt
int m = p - i - j - k - l;
ddu(o,0) = ((ddshape_x(i)*shape_l(m)) - 2.* (dshape_x(i)*dshape_l(m)) +
(shape_x(i)*ddshape_l(m))) * shape_y(j) * shape_z(k) * shape_t(l);
ddu(o,1) = ((dshape_y(j)* ( (dshape_x(i)*shape_l(m)) - (shape_x(i)*dshape_l(
m))) ) + (shape_y(j)* ((ddshape_l(m)*shape_x(i)) - (dshape_x(i) * dshape_l(
m)) ) ) )* shape_z(k) * shape_t(l);
ddu(o,2) = ((dshape_z(k)* ( (dshape_x(i)*shape_l(m)) - (shape_x(i)*dshape_l(
m))) ) + (shape_z(k)* ((ddshape_l(m)*shape_x(i)) - (dshape_x(i) * dshape_l(
m)) ) ) )* shape_y(j) * shape_t(l);
ddu(o,3) = ((dshape_t(l)* ( (dshape_x(i)*shape_l(m)) - (shape_x(i)*dshape_l(
m))) ) + (shape_t(l)* ((ddshape_l(m)*shape_x(i)) - (dshape_x(i) * dshape_l(
m)) ) ) )* shape_y(j) * shape_z(k);
ddu(o,4) = ((ddshape_y(j)*shape_l(m)) - 2.* (dshape_y(j)*dshape_l(m)) +
(shape_y(j)*ddshape_l(m))) * shape_x(i) * shape_z(k) * shape_t(l);
ddu(o,5) = ((dshape_z(k)* ( (dshape_y(j)*shape_l(m)) - (shape_y(j)*dshape_l(
m))) ) + (shape_z(k)* ((ddshape_l(m)*shape_y(j)) - (dshape_y(j) * dshape_l(
m)) ) ) )* shape_x(i) * shape_t(l);
ddu(o,6) = ((dshape_t(l)* ( (dshape_y(j)*shape_l(m)) - (shape_y(j)*dshape_l(
m))) ) + (shape_t(l)* ((ddshape_l(m)*shape_y(j)) - (dshape_y(j) * dshape_l(
m)) ) ) )* shape_x(i) * shape_z(k);
ddu(o,7) = ((ddshape_z(k)*shape_l(m)) - 2.* (dshape_z(k)*dshape_l(m)) +
(shape_z(k)*ddshape_l(m))) * shape_y(j) * shape_x(i) * shape_t(l);
ddu(o,8) = ((dshape_t(l)* ( (dshape_z(k)*shape_l(m)) - (shape_z(k)*dshape_l(
m))) ) + (shape_t(l)* ((ddshape_l(m)*shape_z(k)) - (dshape_z(k) * dshape_l(
m)) ) ) )* shape_x(i) * shape_y(j);
ddu(o,9) = ((ddshape_t(l)*shape_l(m)) - 2.* (dshape_t(l)*dshape_l(m)) +
(shape_t(l)*ddshape_l(m))) * shape_y(j) * shape_x(i) * shape_z(k);
o++;
}
Ti.Mult(ddu, ddshape);
}
}
-22
View File
@@ -148,28 +148,6 @@ public:
DenseMatrix &dshape) const;
};
class H1_PentatopeElement : public NodalFiniteElement
{
private:
#ifndef MFEM_THREAD_SAFE
mutable Vector shape_x, shape_y, shape_z, shape_t, shape_l;
mutable Vector dshape_x, dshape_y, dshape_z, dshape_t, dshape_l, u;
mutable Vector ddshape_x, ddshape_y, ddshape_z, ddshape_t, ddshape_l;
mutable DenseMatrix du, ddu;
#endif
DenseMatrixInverse Ti;
public:
H1_PentatopeElement(const int p,
const int btype = BasisType::GaussLobatto);
virtual void CalcShape(const IntegrationPoint &ip, Vector &shape) const;
virtual void CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const;
virtual void CalcHessian(const IntegrationPoint &ip,
DenseMatrix &ddshape) const;
};
} // namespace mfem
#endif
-171
View File
@@ -923,175 +923,4 @@ void L2_WedgeElement::CalcDShape(const IntegrationPoint &ip,
}
}
L2_PentatopeElement::L2_PentatopeElement(const int p, const int _type)
: NodalFiniteElement(4, Geometry::PENTATOPE,
((p + 1)*(p + 2)*(p + 3)*(p + 4))/24,
p, FunctionSpace::Pk), T(dof)
{
const double *op;
type = _type;
switch (type)
{
case 0: op = poly1d.OpenPoints(p); break;
case 1:
default: op = poly1d.ClosedPoints(p);
}
#ifndef MFEM_THREAD_SAFE
shape_x.SetSize(p + 1);
shape_y.SetSize(p + 1);
shape_z.SetSize(p + 1);
shape_t.SetSize(p + 1);
shape_l.SetSize(p + 1);
dshape_x.SetSize(p + 1);
dshape_y.SetSize(p + 1);
dshape_z.SetSize(p + 1);
dshape_t.SetSize(p + 1);
dshape_l.SetSize(p + 1);
u.SetSize(dof);
du.SetSize(dof, dim);
#else
Vector shape_x(p + 1), shape_y(p + 1), shape_z(p + 1), shape_t(p + 1),
shape_l(p + 1);
#endif
for (int o = 0, l = 0; l <= p; l++)
for (int k = 0; l + k <= p; k++)
for (int j = 0; j + l + k <= p; j++)
for (int i = 0; i + j + l + k <= p; i++)
{
double w = op[i] + op[j] + op[k] + op[l] + op[p-i-j-k-l];
Nodes.IntPoint(o++).Set4(op[i]/w, op[j]/w, op[k]/w, op[l]/w);
}
for (int m = 0; m < dof; m++)
{
IntegrationPoint &ip = Nodes.IntPoint(m);
poly1d.CalcBasis(p, ip.x, shape_x);
poly1d.CalcBasis(p, ip.y, shape_y);
poly1d.CalcBasis(p, ip.z, shape_z);
poly1d.CalcBasis(p, ip.t, shape_t);
poly1d.CalcBasis(p, 1. - ip.x - ip.y - ip.z - ip.t, shape_l);
for (int o = 0, l = 0; l <= p; l++)
for (int k = 0; l + k <= p; k++)
for (int j = 0; j + l + k <= p; j++)
for (int i = 0; i + j + l + k <= p; i++)
{
T(o++, m) = shape_x(i)*shape_y(j)*shape_z(k)*shape_t(l)*shape_l(p-i-j-k-l);
}
}
T.Invert();
}
void L2_PentatopeElement::CalcShape(const IntegrationPoint &ip,
Vector &shape) const
{
const int p = order;
#ifdef MFEM_THREAD_SAFE
Vector shape_x(p + 1), shape_y(p + 1), shape_z(p + 1), shape_l(p + 1);
Vector u(Dof);
#endif
poly1d.CalcBasis(p, ip.x, shape_x);
poly1d.CalcBasis(p, ip.y, shape_y);
poly1d.CalcBasis(p, ip.z, shape_z);
poly1d.CalcBasis(p, ip.t, shape_t);
poly1d.CalcBasis(p, 1. - ip.x - ip.y - ip.z - ip.t, shape_l);
for (int o = 0, l = 0; l <= p; l++)
for (int k = 0; l + k <= p; k++)
for (int j = 0; j + l + k <= p; j++)
for (int i = 0; i + j + l + k <= p; i++)
{
u(o++) = shape_x(i)*shape_y(j)*shape_z(k)*shape_t(l)*shape_l(p-i-j-k-l);
}
T.Mult(u, shape);
}
void L2_PentatopeElement::CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const
{
const int p = order;
#ifdef MFEM_THREAD_SAFE
Vector shape_x(p + 1), shape_y(p + 1), shape_z(p + 1), shape_t(p + 1),
shape_l(p + 1);
Vector dshape_x(p + 1), dshape_y(p + 1), dshape_z(p + 1), dshape_t(p + 1),
dshape_l(p + 1);
DenseMatrix du(Dof, Dim);
#endif
poly1d.CalcBasis(p, ip.x, shape_x, dshape_x);
poly1d.CalcBasis(p, ip.y, shape_y, dshape_y);
poly1d.CalcBasis(p, ip.z, shape_z, dshape_z);
poly1d.CalcBasis(p, ip.t, shape_t, dshape_t);
poly1d.CalcBasis(p, 1. - ip.x - ip.y - ip.z - ip.t, shape_l, dshape_l);
for (int o = 0, m = 0; m <= p; m++)
for (int k = 0; k + m <= p; k++)
for (int j = 0; j + k + m <= p; j++)
for (int i = 0; i + j + k + m <= p; i++)
{
int l = p - i - j - k - m;
du(o,0) = ((dshape_x(i)* shape_l(l)) -
( shape_x(i)*dshape_l(l)))*shape_y(j)*shape_z(k)*shape_t(m);
du(o,1) = ((dshape_y(j)* shape_l(l)) -
( shape_y(j)*dshape_l(l)))*shape_x(i)*shape_z(k)*shape_t(m);
du(o,2) = ((dshape_z(k)* shape_l(l)) -
( shape_z(k)*dshape_l(l)))*shape_x(i)*shape_y(j)*shape_t(m);
du(o,3) = ((dshape_t(m)* shape_l(l)) -
( shape_t(m)*dshape_l(l)))*shape_x(i)*shape_y(j)*shape_z(k);
o++;
}
Mult(T, du, dshape);
}
void L2_PentatopeElement::ProjectDelta(int vertex, Vector &dofs) const
{
switch (vertex)
{
case 0:
for (int i = 0; i < dof; i++)
{
const IntegrationPoint &ip = Nodes.IntPoint(i);
dofs[i] = pow(1.0 - ip.x - ip.y - ip.z - ip.t, order);
}
break;
case 1:
for (int i = 0; i < dof; i++)
{
const IntegrationPoint &ip = Nodes.IntPoint(i);
dofs[i] = pow(ip.x, order);
}
break;
case 2:
for (int i = 0; i < dof; i++)
{
const IntegrationPoint &ip = Nodes.IntPoint(i);
dofs[i] = pow(ip.y, order);
}
break;
case 3:
for (int i = 0; i < dof; i++)
{
const IntegrationPoint &ip = Nodes.IntPoint(i);
dofs[i] = pow(ip.z, order);
}
break;
case 4:
for (int i = 0; i < dof; i++)
{
const IntegrationPoint &ip = Nodes.IntPoint(i);
dofs[i] = pow(ip.t, order);
}
break;
}
}
}
-19
View File
@@ -183,25 +183,6 @@ public:
DenseMatrix &dshape) const;
};
class L2_PentatopeElement : public NodalFiniteElement
{
private:
int type;
#ifndef MFEM_THREAD_SAFE
mutable Vector shape_x, shape_y, shape_z, shape_t, shape_l;
mutable Vector dshape_x, dshape_y, dshape_z, dshape_t, dshape_l, u;
mutable DenseMatrix du;
#endif
DenseMatrix T;
public:
L2_PentatopeElement(const int p, const int _type = 0);
virtual void CalcShape(const IntegrationPoint &ip, Vector &shape) const;
virtual void CalcDShape(const IntegrationPoint &ip,
DenseMatrix &dshape) const;
virtual void ProjectDelta(int vertex, Vector &dofs) const;
};
} // namespace mfem
#endif
-264
View File
@@ -2266,268 +2266,4 @@ void RT_R2D_QuadrilateralElement::CalcDivShape(const IntegrationPoint &ip,
}
}
const double RT_PentatopeElement::nk[20] =
{ 0,0,0,-1, 0,0,-1,0, 0,-1,0,0, -1,0,0,0, 1,1,1,1};
// { .5,.5,.5, -.5,0,0, 0,-.5,0, 0,0,-.5}; // n_F |F|
const double RT_PentatopeElement::c = 1./5.;
RT_PentatopeElement::RT_PentatopeElement(const int p)
: VectorFiniteElement(4, Geometry::PENTATOPE, (p + 1)*(p + 2)*(p + 3)*(p + 5)/6,
p + 1, H_DIV, FunctionSpace::Pk),
dof2nk(dof)
{
const double *iop = (p > 0) ? poly1d.OpenPoints(p - 1) : NULL;
const double *bop = poly1d.OpenPoints(p);
#ifndef MFEM_THREAD_SAFE
shape_x.SetSize(p + 1);
shape_y.SetSize(p + 1);
shape_z.SetSize(p + 1);
shape_t.SetSize(p + 1);
shape_l.SetSize(p + 1);
dshape_x.SetSize(p + 1);
dshape_y.SetSize(p + 1);
dshape_z.SetSize(p + 1);
dshape_t.SetSize(p + 1);
dshape_l.SetSize(p + 1);
u.SetSize(dof, dim);
divu.SetSize(dof);
#else
Vector shape_x(p + 1), shape_y(p + 1), shape_z(p + 1), shape_t(p + 1),
shape_l(p + 1);
#endif
int o = 0;
// faces (see Mesh::GenerateFaces in mesh/mesh.cpp,
// the constructor of H1_PentatopeElement)
for (int k = 0; k <= p; k++)
for (int j = 0; j + k <= p; j++)
for (int i = 0; i + j + k <= p; i++) // (0,1,2,3)
{
double w = bop[i] + bop[j] + bop[k] + bop[p-i-j-k];
Nodes.IntPoint(o).Set4(bop[i]/w, bop[j]/w, bop[k]/w, 0.);
dof2nk[o++] = 0;
}
for (int k = 0; k <= p; k++)
for (int j = 0; j + k <= p; j++)
for (int i = 0; i + j + k <= p; i++) // (0,2,1,4)
{
double w = bop[i] + bop[j] + bop[k] + bop[p-i-j-k];
Nodes.IntPoint(o).Set4(bop[j]/w, bop[i]/w, 0., bop[k]/w);
dof2nk[o++] = 1;
}
for (int k = 0; k <= p; k++)
for (int j = 0; j + k <= p; j++)
for (int i = 0; i + j + k <= p; i++) // (0,1,3,4)
{
double w = bop[i] + bop[j] + bop[k] + bop[p-i-j-k];
Nodes.IntPoint(o).Set4(bop[i]/w, 0., bop[j]/w, bop[k]/w);
dof2nk[o++] = 2;
}
for (int k = 0; k <= p; k++)
for (int j = 0; j + k <= p; j++)
for (int i = 0; i + j + k <= p; i++) // (0,3,2,4)
{
double w = bop[i] + bop[j] + bop[k] + bop[p-i-j-k];
Nodes.IntPoint(o).Set4(0., bop[j]/w, bop[i]/w, bop[k]/w);
dof2nk[o++] = 3;
}
for (int k = 0; k <= p; k++)
for (int j = 0; j + k <= p; j++)
for (int i = 0; i + j + k <= p; i++) // (1,2,3,4)
{
double w = bop[i] + bop[j] + bop[k] + bop[p-i-j-k];
Nodes.IntPoint(o).Set4(bop[p-i-j-k]/w, bop[i]/w, bop[j]/w, bop[k]/w);
dof2nk[o++] = 4;
}
// interior
for (int l = 0; l < p; l++)
for (int k = 0; k + l < p; k++)
for (int j = 0; j + k + l < p; j++)
for (int i = 0; i + j + k + l < p; i++)
{
double w = iop[i] + iop[j] + iop[k] + iop[l] + iop[p-1-i-j-k-l];
Nodes.IntPoint(o).Set4(iop[i]/w, iop[j]/w, iop[k]/w, iop[l]/w);
dof2nk[o++] = 1;
Nodes.IntPoint(o).Set4(iop[i]/w, iop[j]/w, iop[k]/w, iop[l]/w);
dof2nk[o++] = 2;
Nodes.IntPoint(o).Set4(iop[i]/w, iop[j]/w, iop[k]/w, iop[l]/w);
dof2nk[o++] = 3;
Nodes.IntPoint(o).Set4(iop[i]/w, iop[j]/w, iop[k]/w, iop[l]/w);
dof2nk[o++] = 4;
}
DenseMatrix T(dof);
for (int m = 0; m < dof; m++)
{
const IntegrationPoint &ip = Nodes.IntPoint(m);
poly1d.CalcBasis(p, ip.x, shape_x);
poly1d.CalcBasis(p, ip.y, shape_y);
poly1d.CalcBasis(p, ip.z, shape_z);
poly1d.CalcBasis(p, ip.t, shape_t);
poly1d.CalcBasis(p, 1. - ip.x - ip.y - ip.z - ip.t, shape_l);
const double *nm = nk + 4*dof2nk[m];
o = 0;
for (int l = 0; l<= p; l++)
for (int k = 0; k + l <= p; k++)
for (int j = 0; j + k + l <= p; j++)
for (int i = 0; i + j + k + l <= p; i++)
{
double s = shape_x(i)*shape_y(j)*shape_z(k)*shape_t(l)*shape_l(p-i-j-k-l);
T(o++, m) = s * nm[0];
T(o++, m) = s * nm[1];
T(o++, m) = s * nm[2];
T(o++, m) = s * nm[3];
}
for (int k = 0; k <= p; k++)
for (int j = 0; j + k <= p; j++)
for (int i = 0; i + j + k <= p; i++)
{
double s = shape_x(i)*shape_y(j)*shape_z(k)*shape_t(p-i-j-k);
T(o++, m) = s*((ip.x - c)*nm[0] + (ip.y - c)*nm[1] +
(ip.z - c)*nm[2] + (ip.t - c)*nm[3]);
}
}
Ti.Factor(T);
// mfem::out << "RT_TetrahedronElement(" << p << ") : "; Ti.TestInversion();
}
void RT_PentatopeElement::CalcVShape(const IntegrationPoint &ip,
DenseMatrix &shape) const
{
const int p = order - 1;
#ifdef MFEM_THREAD_SAFE
Vector shape_x(p + 1), shape_y(p + 1), shape_z(p + 1), shape_t(p + 1),
shape_l(p + 1);
DenseMatrix u(Dof, Dim);
#endif
poly1d.CalcBasis(p, ip.x, shape_x);
poly1d.CalcBasis(p, ip.y, shape_y);
poly1d.CalcBasis(p, ip.z, shape_z);
poly1d.CalcBasis(p, ip.t, shape_t);
poly1d.CalcBasis(p, 1. - ip.x - ip.y - ip.z - ip.t, shape_l);
int o = 0;
for (int l = 0; l <= p; l++)
for (int k = 0; k + l <= p; k++)
for (int j = 0; j + k + l <= p; j++)
for (int i = 0; i + j + k + l <= p; i++)
{
double s = shape_x(i)*shape_y(j)*shape_z(k)*shape_t(l)*shape_l(p-i-j-k-l);
u(o,0) = s; u(o,1) = 0; u(o,2) = 0; u(o,3) = 0; o++;
u(o,0) = 0; u(o,1) = s; u(o,2) = 0; u(o,3) = 0; o++;
u(o,0) = 0; u(o,1) = 0; u(o,2) = s; u(o,3) = 0; o++;
u(o,0) = 0; u(o,1) = 0; u(o,2) = 0; u(o,3) = s; o++;
}
for (int k = 0; k <= p; k++)
for (int j = 0; j + k <= p; j++)
for (int i = 0; i + j + k <= p; i++)
{
double s = shape_x(i)*shape_y(j)*shape_z(k)*shape_t(p-i-j-k);
u(o,0) = (ip.x - c)*s; u(o,1) = (ip.y - c)*s; u(o,2) = (ip.z - c)*s;
u(o,3) = (ip.t - c)*s;
o++;
}
Ti.Mult(u, shape);
}
void RT_PentatopeElement::CalcDivShape(const IntegrationPoint &ip,
Vector &divshape) const
{
const int p = order - 1;
#ifdef MFEM_THREAD_SAFE
Vector shape_x(p + 1), shape_y(p + 1), shape_z(p + 1), shape_l(p + 1);
Vector dshape_x(p + 1), dshape_y(p + 1), dshape_z(p + 1), dshape_l(p + 1);
Vector divu(Dof);
#endif
poly1d.CalcBasis(p, ip.x, shape_x, dshape_x);
poly1d.CalcBasis(p, ip.y, shape_y, dshape_y);
poly1d.CalcBasis(p, ip.z, shape_z, dshape_z);
poly1d.CalcBasis(p, ip.t, shape_t, dshape_t);
poly1d.CalcBasis(p, 1. - ip.x - ip.y - ip.z - ip.t, shape_l, dshape_l);
int o = 0;
for (int m = 0; m <= p; m++)
for (int k = 0; k + m <= p; k++)
for (int j = 0; j + k + m <= p; j++)
for (int i = 0; i + j + k + m <= p; i++)
{
int l = p - i - j - k - m;
divu(o++) = (dshape_x(i)*shape_l(l) -
shape_x(i)*dshape_l(l))*shape_y(j)*shape_z(k)*shape_t(m);
divu(o++) = (dshape_y(j)*shape_l(l) -
shape_y(j)*dshape_l(l))*shape_x(i)*shape_z(k)*shape_t(m);
divu(o++) = (dshape_z(k)*shape_l(l) -
shape_z(k)*dshape_l(l))*shape_x(i)*shape_y(j)*shape_t(m);
divu(o++) = (dshape_t(m)*shape_l(l) -
shape_t(m)*dshape_l(l))*shape_x(i)*shape_y(j)*shape_z(k);
}
for (int l = 0; l <= p; l++)
for (int j = 0; j + l<= p; j++)
for (int i = 0; i + j + l <= p; i++)
{
int k = p - i - j - l;
divu(o++) =
(shape_x(i) + (ip.x - c)*dshape_x(i))*shape_y(j)*shape_z(l)*shape_t(k) +
(shape_y(j) + (ip.y - c)*dshape_y(j))*shape_x(i)*shape_z(l)*shape_t(k) +
(shape_z(l) + (ip.z - c)*dshape_z(l))*shape_x(i)*shape_y(j)*shape_t(k) +
(shape_t(k) + (ip.t - c)*dshape_t(k))*shape_x(i)*shape_y(j)*shape_z(l);
}
Ti.Mult(divu, divshape);
}
void RT_PentatopeElement::ProjectDivSkew(const FiniteElement& fe,
ElementTransformation& Trans, DenseMatrix& DivSkew) const
{
int dof = fe.GetDof();
mfem_warning("RT_PentatopeElement::ProjectDivSkew(...) Implementation not tested!"); // TODO
#ifdef MFEM_THREAD_SAFE
DenseMatrix Jinv(dim, dim);
#endif
DivSkew.SetSize(dof,dof);
DivSkew = 0.0;
double n[4];
Vector ni(n, 4);
Vector vecF(4);
DenseMatrix DivSkewshape(dof,4);
DenseMatrix DivSkew_dFt(dof,4);
for (int k = 0; k < dof; k++)
{
Trans.SetIntPoint(&Nodes.IntPoint(k));
const DenseMatrix &J = Trans.Jacobian();
CalcAdjugateTranspose(J, Jinv);
fe.CalcDivSkewShape(Nodes.IntPoint(k), DivSkewshape);
MultABt(DivSkewshape, J, DivSkew_dFt);
DivSkew_dFt *= (1.0 / Trans.Weight());
Jinv.Mult(nk + dof2nk[k] * dim,n);
for (int j=0; j<dof; j++)
{
vecF(0) = DivSkew_dFt(j,0);
vecF(1) = DivSkew_dFt(j,1);
vecF(2) = DivSkew_dFt(j,2);
vecF(3) = DivSkew_dFt(j,3);
DivSkew(k, j) = vecF * ni;
}
}
}
}
-47
View File
@@ -524,53 +524,6 @@ public:
Vector &divshape) const;
};
class RT_PentatopeElement : public VectorFiniteElement
{
static const double nk[20], c;
#ifndef MFEM_THREAD_SAFE
mutable Vector shape_x, shape_y, shape_z, shape_t, shape_l;
mutable Vector dshape_x, dshape_y, dshape_z, dshape_t, dshape_l;
mutable DenseMatrix u;
mutable Vector divu;
#endif
Array<int> dof2nk;
DenseMatrixInverse Ti;
public:
RT_PentatopeElement(const int p);
virtual void CalcVShape(const IntegrationPoint &ip,
DenseMatrix &shape) const;
virtual void CalcVShape(ElementTransformation &Trans,
DenseMatrix &shape) const
{ CalcVShape_RT(Trans, shape); }
virtual void CalcDivShape(const IntegrationPoint &ip,
Vector &divshape) const;
virtual void GetLocalInterpolation(ElementTransformation &Trans,
DenseMatrix &I) const
{ LocalInterpolation_RT(*this, nk, dof2nk, Trans, I); }
virtual void GetLocalRestriction(ElementTransformation &Trans,
DenseMatrix &R) const
{ LocalRestriction_RT(nk, dof2nk, Trans, R); }
virtual void GetTransferMatrix(const FiniteElement &fe,
ElementTransformation &Trans,
DenseMatrix &I) const
{ LocalInterpolation_RT(CheckVectorFE(fe), nk, dof2nk, Trans, I); }
using FiniteElement::Project;
virtual void Project(VectorCoefficient &vc,
ElementTransformation &Trans, Vector &dofs) const
{ Project_RT(nk, dof2nk, vc, Trans, dofs); }
virtual void ProjectMatrixCoefficient(
MatrixCoefficient &mc, ElementTransformation &T, Vector &dofs) const
{ ProjectMatrixCoefficient_RT(nk, dof2nk, mc, T, dofs); }
virtual void Project(const FiniteElement &fe, ElementTransformation &Trans,
DenseMatrix &I) const
{ Project_RT(nk, dof2nk, fe, Trans, I); }
virtual void ProjectDivSkew(const FiniteElement &fe,
ElementTransformation &Trans,
DenseMatrix &DivSkew) const;
};
} // namespace mfem
+2 -345
View File
@@ -111,29 +111,12 @@ int FiniteElementCollection::HasFaceDofs(Geometry::Type geom, int p) const
case Geometry::PYRAMID:
return max(GetNumDof(Geometry::TRIANGLE, p),
GetNumDof(Geometry::SQUARE, p));
case Geometry::PENTATOPE:
return GetNumDof(Geometry::TETRAHEDRON, p);
case Geometry::TESSERACT:
return GetNumDof(Geometry::CUBE, p);
default:
MFEM_ABORT("unknown geometry type");
}
return 0;
}
int FiniteElementCollection::HasPlanarDofs(Geometry::Type GeomType, int p) const
{
switch (GeomType)
{
case Geometry::PENTATOPE: return GetNumDof(Geometry::TRIANGLE, p);
case Geometry::TESSERACT: return GetNumDof(Geometry::SQUARE, p);
default:
mfem_error ("FiniteElementCollection::HasPlanarDofs:"
" unknown geometry type.");
}
return 0;
}
FiniteElementCollection *FiniteElementCollection::GetTraceCollection() const
{
MFEM_ABORT("this method is not implemented in this derived class!");
@@ -670,8 +653,6 @@ LinearFECollection::FiniteElementForGeometry(Geometry::Type GeomType) const
case Geometry::CUBE: return &ParallelepipedFE;
case Geometry::PRISM: return &WedgeFE;
case Geometry::PYRAMID: return &PyramidFE;
case Geometry::PENTATOPE: return &PentatopeFE;
case Geometry::TESSERACT: return &TesseractFE;
default:
if (error_mode == RETURN_NULL) { return nullptr; }
mfem_error ("LinearFECollection: unknown geometry type.");
@@ -691,8 +672,6 @@ int LinearFECollection::DofForGeometry(Geometry::Type GeomType) const
case Geometry::CUBE: return 0;
case Geometry::PRISM: return 0;
case Geometry::PYRAMID: return 0;
case Geometry::PENTATOPE: return 0;
case Geometry::TESSERACT: return 0;
default:
mfem_error ("LinearFECollection: unknown geometry type.");
}
@@ -718,7 +697,6 @@ QuadraticFECollection::FiniteElementForGeometry(Geometry::Type GeomType) const
case Geometry::TETRAHEDRON: return &TetrahedronFE;
case Geometry::CUBE: return &ParallelepipedFE;
case Geometry::PRISM: return &WedgeFE;
case Geometry::PENTATOPE: return &PentatopeFE;
default:
if (error_mode == RETURN_NULL) { return nullptr; }
mfem_error ("QuadraticFECollection: unknown geometry type.");
@@ -737,7 +715,6 @@ int QuadraticFECollection::DofForGeometry(Geometry::Type GeomType) const
case Geometry::TETRAHEDRON: return 0;
case Geometry::CUBE: return 1;
case Geometry::PRISM: return 0;
case Geometry::PENTATOPE: return 0;
default:
mfem_error ("QuadraticFECollection: unknown geometry type.");
}
@@ -1564,135 +1541,6 @@ const int *ND1_3DFECollection::DofOrderForOrientation(Geometry::Type GeomType,
return ind_neg;
}
const FiniteElement *
ND1_4DFECollection::FiniteElementForGeometry(Geometry::Type GeomType) const
{
switch (GeomType)
{
case Geometry::PENTATOPE: return &NedPentatopFE;
default:
mfem_error ("ND1_4DFECollection: unknown geometry type.");
}
return &NedPentatopFE; // Make some compilers happy
}
int ND1_4DFECollection::DofForGeometry(Geometry::Type GeomType) const
{
switch (GeomType)
{
case Geometry::POINT: return 0;
case Geometry::SEGMENT: return 1;
case Geometry::TRIANGLE: return 0;
case Geometry::SQUARE: return 0;
case Geometry::TETRAHEDRON: return 0;
case Geometry::CUBE: return 0;
case Geometry::PENTATOPE: return 0;
default:
mfem_error ("ND1_4DFECollection: unknown geometry type.");
}
return 0; // Make some compilers happy
}
const int * ND1_4DFECollection::DofOrderForOrientation(Geometry::Type GeomType,
int Or)
const
{
static int ind_pos[] = { 0 };
static int ind_neg[] = { -1 };
if (Or > 0)
{
return ind_pos;
}
return ind_neg;
}
const FiniteElement *
ND2_4DFECollection::FiniteElementForGeometry(Geometry::Type GeomType) const
{
switch (GeomType)
{
case Geometry::PENTATOPE: return &NedPentatopFE;
default:
mfem_error ("ND2_4DFECollection: unknown geometry type.");
}
return &NedPentatopFE; // Make some compilers happy
}
int ND2_4DFECollection::DofForGeometry(Geometry::Type GeomType) const
{
switch (GeomType)
{
case Geometry::POINT: return 0;
case Geometry::SEGMENT: return 2;
case Geometry::TRIANGLE: return 0;
case Geometry::SQUARE: return 0;
case Geometry::TETRAHEDRON: return 0;
case Geometry::CUBE: return 0;
case Geometry::PENTATOPE: return 0;
default:
mfem_error ("ND2_4DFECollection: unknown geometry type.");
}
return 0; // Make some compilers happy
}
const int * ND2_4DFECollection::DofOrderForOrientation(Geometry::Type GeomType,
int Or)
const
{
static int ind_pos[] = { 0, 1 };
static int ind_neg[] = { -2, -1};
if (Or > 0)
{
return ind_pos;
}
return ind_neg;
}
const FiniteElement *
DivSkew1_4DFECollection::FiniteElementForGeometry(Geometry::Type GeomType) const
{
switch (GeomType)
{
case Geometry::PENTATOPE: return &DivSkew0PentatopFE;
default:
mfem_error ("DivSkew1_4DFECollection: unknown geometry type 1.");
}
return &DivSkew0PentatopFE; // Make some compilers happy
}
int DivSkew1_4DFECollection::DofForGeometry(Geometry::Type GeomType) const
{
switch (GeomType)
{
case Geometry::POINT: return 0;
case Geometry::SEGMENT: return 0;
case Geometry::TRIANGLE: return 1;
case Geometry::SQUARE: return 0;
case Geometry::TETRAHEDRON: return 0;
case Geometry::CUBE: return 0;
case Geometry::PENTATOPE: return 0;
default:
mfem_error ("DivSkew1_4DFECollection: unknown geometry type 2.");
}
return 0; // Make some compilers happy
}
const int * DivSkew1_4DFECollection::DofOrderForOrientation(
Geometry::Type GeomType, int Or)
const
{
static int ind_pos[] = { 0 };
static int ind_neg[] = { -1 };
if (Or %2 == 0)
{
return ind_pos;
}
return ind_neg;
}
const FiniteElement *
RT0_3DFECollection::FiniteElementForGeometry(Geometry::Type GeomType) const
@@ -1798,57 +1646,13 @@ const int *RT1_3DFECollection::DofOrderForOrientation(Geometry::Type GeomType,
}
}
const FiniteElement *
RT0_4DFECollection::FiniteElementForGeometry(Geometry::Type GeomType) const
{
switch (GeomType)
{
case Geometry::TETRAHEDRON: return &TetrahedronFE;
case Geometry::PENTATOPE: return &PentatopeFE;
default:
mfem_error ("RT0_4DFECollection: unknown geometry type.");
}
return &PentatopeFE; // Make some compilers happy
}
int RT0_4DFECollection::DofForGeometry(Geometry::Type GeomType) const
{
switch (GeomType)
{
case Geometry::POINT: return 0;
case Geometry::SEGMENT: return 0;
case Geometry::TRIANGLE: return 0;
case Geometry::SQUARE: return 0;
case Geometry::TETRAHEDRON: return 1;
case Geometry::CUBE: return 0;
case Geometry::PENTATOPE: return 0;
default:
mfem_error ("RT0_4DFECollection: unknown geometry type.");
}
return 0; // Make some compilers happy
}
const int * RT0_4DFECollection::DofOrderForOrientation(Geometry::Type GeomType,
int Or)
const
{
static int ind_pos[] = { 0 };
static int ind_neg[] = { -1 };
if (GeomType == Geometry::TETRAHEDRON)
{
if (Or % 2 == 0) { return ind_pos; }
return ind_neg;
}
return NULL;
}
H1_FECollection::H1_FECollection(const int p, const int dim, const int btype)
: FiniteElementCollection(p)
, dim(dim)
{
MFEM_VERIFY(p >= 1, "H1_FECollection requires order >= 1.");
MFEM_VERIFY(dim >= 0 && dim <= 4, "H1_FECollection requires 0 <= dim <= 4.");
MFEM_VERIFY(dim >= 0 && dim <= 3, "H1_FECollection requires 0 <= dim <= 3.");
const int pm1 = p - 1, pm2 = pm1 - 1, pm3 = pm2 - 1, pm4 = pm3 - 1;
@@ -2149,20 +1953,6 @@ H1_FECollection::H1_FECollection(const int p, const int dim, const int btype)
}
}
}
if (dim >= 4)
{
H1_dof[Geometry::PENTATOPE] = (TriDof*pm3*pm4)/12;
H1_dof[Geometry::TESSERACT] = QuadDof*pm1*pm1;
if (b_type == BasisType::Positive)
{
mfem_error("H1_FECollection: BasisType::Positive not implemented");
}
else
{
H1_Elements[Geometry::PENTATOPE] = new H1_PentatopeElement(p, pt_type);
}
}
}
}
}
@@ -2540,38 +2330,6 @@ L2_FECollection::L2_FECollection(const int p, const int dim, const int btype,
OtherDofOrd[j] = j; // for Or == 0
}
}
else if (dim == 4)
{
if (b_type == BasisType::Positive)
{
mfem::err <<
"L2_FECollection::L2_FECollection : BasisType::Positive not implemented" <<
endl;
mfem_error();
}
else
{
L2_Elements[Geometry::PENTATOPE] =
new L2_PentatopeElement(p, btype);
// 2025 November: check this
L2_Elements[Geometry::TESSERACT] = new L2_HexahedronElement(p, btype);
}
L2_Elements[Geometry::PENTATOPE]->SetMapType(map_type);
L2_Elements[Geometry::TESSERACT]->SetMapType(map_type);
// All trace element use the default Gauss-Legendre nodal points
Tr_Elements[Geometry::TETRAHEDRON] = new L2_TetrahedronElement(p);
Tr_Elements[Geometry::CUBE] = new L2_HexahedronElement(p);
const int PentDof = L2_Elements[Geometry::PENTATOPE]->GetDof();
const int TessDof = L2_Elements[Geometry::TESSERACT]->GetDof();
const int MaxDof = std::max(PentDof, TessDof);
OtherDofOrd = new int[MaxDof];
for (int j = 0; j < MaxDof; j++)
{
OtherDofOrd[j] = j; // for Or == 0
}
}
else
{
mfem::err << "L2_FECollection::L2_FECollection : dim = "
@@ -2610,9 +2368,6 @@ const int *L2_FECollection::DofOrderForOrientation(Geometry::Type GeomType,
case Geometry::TETRAHEDRON:
return TetDofOrd[Or%24];
case Geometry::PENTATOPE:
return TetDofOrd[Or%120];
default:
return (Or == 0) ? OtherDofOrd : NULL;
}
@@ -2697,13 +2452,6 @@ RT_FECollection::RT_FECollection(const int order, const int dim,
RT_Elements[Geometry::PYRAMID] = new RT0PyrFiniteElement(false);
RT_dof[Geometry::PYRAMID] = 0;
}
else if (dim == 4)
{
RT_Elements[Geometry::PENTATOPE] = new RT_PentatopeElement(p);
RT_dof[Geometry::PENTATOPE] = p*pp1*(p + 2)*(p + 3)/6;
//TODO: tesseracts
}
else
{
MFEM_ABORT("invalid dim = " << dim);
@@ -2736,7 +2484,7 @@ void RT_FECollection::InitFaces(const int p, const int dim_,
MFEM_VERIFY(Quadrature1D::CheckOpen(op_type) != Quadrature1D::Invalid,
"invalid open point type");
const int pp1 = p + 1, pp2 = p + 2, pp3 = p + 3;
const int pp1 = p + 1, pp2 = p + 2;
for (int g = 0; g < Geometry::NumGeom; g++)
{
@@ -2756,10 +2504,6 @@ void RT_FECollection::InitFaces(const int p, const int dim_,
{
QuadDofOrd[i] = NULL;
}
for (int i = 0; i < 24; i++)
{
TetDofOrd[i] = NULL;
}
if (dim_ == 2)
{
@@ -2848,89 +2592,6 @@ void RT_FECollection::InitFaces(const int p, const int dim_,
}
}
}
else if (dim == 4)
{
L2_TetrahedronElement *l2_tet = new L2_TetrahedronElement(p, ob_type);
l2_tet->SetMapType(map_type);
RT_Elements[Geometry::TETRAHEDRON] = l2_tet;
RT_dof[Geometry::TETRAHEDRON] = pp1*pp2*pp3/6;
int TetDof = RT_dof[Geometry::TETRAHEDRON];
int TriDof2 = pp2*pp1/2;
TetDofOrd[0] = new int[24*TetDof];
for (int i = 1; i < 24; i++)
{
TetDofOrd[i] = TetDofOrd[i-1] + TetDof;
}
// see Mesh::GetTriOrientation in mesh/mesh.cpp,
// the constructor of H1_FECollection
for (int k=0; k<=p; k++)
{
for (int j=0; j+k<=p; j++)
{
for (int i=0; i+j+k<=p; i++)
{
int o = TetDof + TriDof2 - ((pp3-k)*(pp2-k)*(pp1-k))/6 - (pp2-j)*
(pp1-j)/2 - k*j + i;
int l = p-k-j-i;
TetDofOrd[0][o] = o;
TetDofOrd[1][o] = -1 - (TetDof + TriDof2 - ((pp3-k)*(pp2-k)*(pp1-k))/6 -
(pp2-j)*(pp1-j)/2 - k*j + l);
TetDofOrd[2][o] = TetDof + TriDof2 - ((pp3-k)*(pp2-k)*(pp1-k))/6 -
(pp2-i)*(pp1-i)/2 - k*i + l;
TetDofOrd[3][o] = -1 - (TetDof + TriDof2 - ((pp3-k)*(pp2-k)*(pp1-k))/6 -
(pp2-l)*(pp1-l)/2 - k*l + i);
TetDofOrd[4][o] = TetDof + TriDof2 - ((pp3-k)*(pp2-k)*(pp1-k))/6 -
(pp2-l)*(pp1-l)/2 - k*l + j;
TetDofOrd[5][o] = -1 - (TetDof + TriDof2 - ((pp3-k)*(pp2-k)*(pp1-k))/6 -
(pp2-i)*(pp1-i)/2 - k*i + j);
TetDofOrd[6][o] = TetDof + TriDof2 - ((pp3-j)*(pp2-j)*(pp1-j))/6 -
(pp2-i)*(pp1-i)/2 - j*i + k;
TetDofOrd[7][o] = -1 - (TetDof + TriDof2 - ((pp3-j)*(pp2-j)*(pp1-j))/6 -
(pp2-l)*(pp1-l)/2 - j*l + k);
TetDofOrd[8][o] = TetDof + TriDof2 - ((pp3-i)*(pp2-i)*(pp1-i))/6 -
(pp2-l)*(pp1-l)/2 - i*l + k;
TetDofOrd[9][o] = -1 - (TetDof + TriDof2 - ((pp3-l)*(pp2-l)*(pp1-l))/6 -
(pp2-i)*(pp1-i)/2 - l*i + k);
TetDofOrd[10][o] = TetDof + TriDof2 - ((pp3-l)*(pp2-l)*(pp1-l))/6 -
(pp2-j)*(pp1-j)/2 - l*j + k;
TetDofOrd[11][o] = -1 - (TetDof + TriDof2 - ((pp3-i)*(pp2-i)*(pp1-i))/6 -
(pp2-j)*(pp1-j)/2 - i*j + k);
TetDofOrd[12][o] = TetDof + TriDof2 - ((pp3-i)*(pp2-i)*(pp1-i))/6 -
(pp2-k)*(pp1-k)/2 - i*k + j;
TetDofOrd[13][o] = -1 - (TetDof + TriDof2 - ((pp3-l)*(pp2-l)*(pp1-l))/6 -
(pp2-k)*(pp1-k)/2 - l*k + j);
TetDofOrd[14][o] = TetDof + TriDof2 - ((pp3-l)*(pp2-l)*(pp1-l))/6 -
(pp2-k)*(pp1-k)/2 - l*k + i;
TetDofOrd[15][o] = -1 - (TetDof + TriDof2 - ((pp3-i)*(pp2-i)*(pp1-i))/6 -
(pp2-k)*(pp1-k)/2 - i*k + l);
TetDofOrd[16][o] = TetDof + TriDof2 - ((pp3-j)*(pp2-j)*(pp1-j))/6 -
(pp2-k)*(pp1-k)/2 - j*k + l;
TetDofOrd[17][o] = -1 - (TetDof + TriDof2 - ((pp3-j)*(pp2-j)*(pp1-j))/6 -
(pp2-k)*(pp1-k)/2 - j*k + i);
TetDofOrd[18][o] = TetDof + TriDof2 - ((pp3-j)*(pp2-j)*(pp1-j))/6 -
(pp2-l)*(pp1-l)/2 - j*l + i;
TetDofOrd[19][o] = -1 - (TetDof + TriDof2 - ((pp3-j)*(pp2-j)*(pp1-j))/6 -
(pp2-i)*(pp1-i)/2 - j*i + l);
TetDofOrd[20][o] = TetDof + TriDof2 - ((pp3-i)*(pp2-i)*(pp1-i))/6 -
(pp2-j)*(pp1-j)/2 - i*j + l;
TetDofOrd[21][o] = -1 - (TetDof + TriDof2 - ((pp3-l)*(pp2-l)*(pp1-l))/6 -
(pp2-j)*(pp1-j)/2 - l*j + i);
TetDofOrd[22][o] = TetDof + TriDof2 - ((pp3-l)*(pp2-l)*(pp1-l))/6 -
(pp2-i)*(pp1-i)/2 - l*i + j;
TetDofOrd[23][o] = -1 - (TetDof + TriDof2 - ((pp3-i)*(pp2-i)*(pp1-i))/6 -
(pp2-l)*(pp1-l)/2 - i*l + j);
if (!signs)
{
for (int m = 0; m < 24; m+=2)
{
TetDofOrd[m][o] = -1 - TetDofOrd[m][o];
}
}
}
}
}
}
}
const FiniteElement *
@@ -2964,10 +2625,6 @@ const int *RT_FECollection::DofOrderForOrientation(Geometry::Type GeomType,
{
return QuadDofOrd[Or%8];
}
else if (GeomType == Geometry::TETRAHEDRON)
{
return TetDofOrd[Or%24];
}
return NULL;
}
+1 -85
View File
@@ -94,8 +94,6 @@ public:
int HasFaceDofs(Geometry::Type geom, int p) const;
int HasPlanarDofs(Geometry::Type GeomType, int p) const;
virtual const FiniteElement *TraceFiniteElementForGeometry(
Geometry::Type GeomType) const
{
@@ -393,7 +391,7 @@ protected:
char rt_name[32];
FiniteElement *RT_Elements[Geometry::NumGeom];
int RT_dof[Geometry::NumGeom];
int *SegDofOrd[2], *TriDofOrd[6], *QuadDofOrd[8], *TetDofOrd[24];
int *SegDofOrd[2], *TriDofOrd[6], *QuadDofOrd[8];
// Initialize only the face elements
void InitFaces(const int p, const int dim, const int map_type,
@@ -748,8 +746,6 @@ private:
const TriLinear3DFiniteElement ParallelepipedFE;
const LinearWedgeFiniteElement WedgeFE;
const LinearPyramidFiniteElement PyramidFE;
const Linear4DFiniteElement PentatopeFE;
const QuadLinear4DFiniteElement TesseractFE;
public:
LinearFECollection() : FiniteElementCollection(1) {}
@@ -777,7 +773,6 @@ private:
const Quadratic3DFiniteElement TetrahedronFE;
const LagrangeHexFiniteElement ParallelepipedFE;
const H1_WedgeElement WedgeFE;
const Quadratic4DFiniteElement PentatopeFE;
public:
QuadraticFECollection()
@@ -1295,65 +1290,6 @@ public:
int GetContType() const override { return TANGENTIAL; }
};
class ND1_4DFECollection : public FiniteElementCollection
{
private:
const Nedelec1PentFiniteElement NedPentatopFE;
public:
ND1_4DFECollection() { }
virtual const FiniteElement *
FiniteElementForGeometry(Geometry::Type GeomType) const;
virtual int DofForGeometry(Geometry::Type GeomType) const;
virtual const int * DofOrderForOrientation(Geometry::Type GeomType,
int Or) const;
virtual const char * Name() const { return "ND1_4D"; }
};
class ND2_4DFECollection : public FiniteElementCollection
{
private:
const Nedelec1FullPentFiniteElement NedPentatopFE;
public:
ND2_4DFECollection() { }
virtual const FiniteElement *
FiniteElementForGeometry(Geometry::Type GeomType) const;
virtual int DofForGeometry(Geometry::Type GeomType) const;
virtual const int * DofOrderForOrientation(Geometry::Type GeomType,
int Or) const;
virtual const char * Name() const { return "ND2_4D"; }
};
class DivSkew1_4DFECollection : public FiniteElementCollection
{
private:
const DivSkew1PentFiniteElement DivSkew0PentatopFE;
public:
DivSkew1_4DFECollection() { }
virtual const FiniteElement *
FiniteElementForGeometry(Geometry::Type GeomType) const;
virtual int DofForGeometry(Geometry::Type GeomType) const;
virtual const int * DofOrderForOrientation(Geometry::Type GeomType,
int Or) const;
virtual const char * Name() const { return "F2K0_4D"; }
};
/** @brief First order Raviart-Thomas finite elements in 3D. This class is kept
only for backward compatibility, consider using RT_FECollection instead. */
class RT0_3DFECollection : public FiniteElementCollection
@@ -1405,26 +1341,6 @@ public:
int GetContType() const override { return NORMAL; }
};
/** First order Raviart-Thomas finite elements in 4D. */
class RT0_4DFECollection : public FiniteElementCollection
{
private:
const P0TetFiniteElement TetrahedronFE;
const RT0PentFiniteElement PentatopeFE;
public:
RT0_4DFECollection() { };
virtual const FiniteElement *
FiniteElementForGeometry(Geometry::Type GeomType) const;
virtual int DofForGeometry(Geometry::Type GeomType) const;
virtual const int * DofOrderForOrientation(Geometry::Type GeomType,
int Or) const;
virtual const char * Name() const { return "RT0_4D"; };
};
/// Discontinuous collection defined locally by a given finite element.
class Local_FECollection : public FiniteElementCollection
{
+13 -356
View File
@@ -58,8 +58,8 @@ DofsToVDofs<Ordering::byVDIM>(int ndofs, int vdim, Array<int> &dofs)
FiniteElementSpace::FiniteElementSpace()
: mesh(NULL), fec(NULL), vdim(0), ordering(Ordering::byNODES),
ndofs(0), nvdofs(0), nedofs(0), nfdofs(0), nbdofs(0), npdofs(0),
bdofs(NULL), pdofs(NULL),
ndofs(0), nvdofs(0), nedofs(0), nfdofs(0), nbdofs(0),
bdofs(NULL),
elem_dof(NULL), elem_fos(NULL), bdr_elem_dof(NULL), bdr_elem_fos(NULL),
face_dof(NULL),
NURBSext(NULL), own_ext(false),
@@ -319,12 +319,6 @@ void FiniteElementSpace::GetFaceVDofs(int i, Array<int> &vdofs) const
DofsToVDofs(vdofs);
}
void FiniteElementSpace::GetPlanarVDofs(int i, Array<int> &vdofs) const
{
GetPlanarDofs(i, vdofs);
DofsToVDofs(vdofs);
}
void FiniteElementSpace::GetEdgeVDofs(int i, Array<int> &vdofs) const
{
GetEdgeDofs(i, vdofs);
@@ -546,13 +540,7 @@ void FiniteElementSpace::GetEssentialVDofs(const Array<int> &bdr_attr_is_ess,
// local DOFs affected by boundary elements on other processors
if (Nonconforming())
{
Array<int> bdr_verts, bdr_edges, bdr_faces, bdr_planars;
// if (mesh->Dimension() > 3)
// {
// mesh->ncmesh->GetBoundaryClosure(bdr_attr_is_ess, bdr_verts, bdr_edges,
// bdr_faces, bdr_planars);
// }
// else
Array<int> bdr_verts, bdr_edges, bdr_faces;
mesh->ncmesh->GetBoundaryClosure(bdr_attr_is_ess, bdr_verts, bdr_edges,
bdr_faces);
for (auto v : bdr_verts)
@@ -594,20 +582,6 @@ void FiniteElementSpace::GetEssentialVDofs(const Array<int> &bdr_attr_is_ess,
}
MarkDofs(dofs, ess_vdofs);
}
for (int i = 0; i < bdr_planars.Size(); i++)
{
if (component < 0)
{
GetPlanarVDofs(bdr_planars[i], dofs);
}
else
{
GetPlanarVDofs(bdr_planars[i], dofs);
for (int d = 0; d < dofs.Size(); d++)
{ dofs[d] = DofToVDof(dofs[d], component); }
}
MarkDofs(dofs, ess_vdofs);
}
}
}
@@ -1015,8 +989,6 @@ void FiniteElementSpace::BuildConformingInterpolation() const
"This method should not be used with a ParFiniteElementSpace!");
#endif
if (mesh->Dimension() == 4) { BuildConformingInterpolation4D(); return; }
if (cP_is_set) { return; }
cP_is_set = true;
@@ -1299,178 +1271,6 @@ void FiniteElementSpace::BuildConformingInterpolation() const
}
}
void FiniteElementSpace::BuildConformingInterpolation4D() const
{
#if 0
#ifdef MFEM_USE_MPI
MFEM_VERIFY(dynamic_cast<const ParFiniteElementSpace*>(this) == NULL,
"This method should not be used with a ParFiniteElementSpace!");
#endif
if (cP_is_set) { return; }
cP_is_set = true;
// For each slave DOF, the dependency matrix will contain a row that
// expresses the slave DOF as a linear combination of its immediate master
// DOFs. Rows of independent DOFs will remain empty.
SparseMatrix deps(ndofs);
// collect local edge/planar/face dependencies
for (int entity = 1; entity <= 3; entity++)
{
const NCMesh::NCList &list = (entity > 2) ? mesh->ncmesh->GetFaceList()
/* */ : ( (entity > 1) ? mesh->ncmesh->GetPlanarList() :
mesh->ncmesh->GetEdgeList() );
if (!list.masters.size()) { continue; }
IsoparametricTransformation T;
if (entity > 2) { T.SetFE(&TetrahedronFE); }
else if (entity > 1) { T.SetFE(&TriangleFE); }
else { T.SetFE(&SegmentFE); }
Geometry::Type geom = (entity > 2) ? Geometry::TETRAHEDRON : ( (
entity > 1) ? Geometry::TRIANGLE : Geometry::SEGMENT );
const FiniteElement* fe = fec->FiniteElementForGeometry(geom);
if (!fe) { continue; }
Array<int> master_dofs, slave_dofs;
DenseMatrix I(fe->GetDof());
// loop through all master edges/faces, constrain their slave edges/faces
for (unsigned mi = 0; mi < list.masters.size(); mi++)
{
const NCMesh::Master &master = list.masters[mi];
GetEntityDofs4D(entity, master.index, master_dofs);
if (!master_dofs.Size()) { continue; }
// mfem::out << "--------------------\n";
// master_dofs.Print(mfem::out,master_dofs.Size());
for (int si = master.slaves_begin; si < master.slaves_end; si++)
{
const NCMesh::Slave &slave = list.slaves[si];
GetEntityDofs4D(entity, slave.index, slave_dofs);
if (!slave_dofs.Size()) { continue; }
slave.OrientedPointMatrix(T.GetPointMat());
T.FinalizeTransformation();
fe->GetLocalInterpolation(T, I);
// mfem::out << "********************\n";
// slave_dofs.Print(mfem::out,slave_dofs.Size());
// mfem::out << "++++++++++++++++++++\n";
// I.PrintMatlab(mfem::out);
// mfem::out << "++++++++++++++++++++\n";
// make each slave DOF dependent on all master DOFs
AddDependencies(deps, master_dofs, slave_dofs, I);
}
}
}
deps.Finalize();
// deps.PrintMatlab(mfem::out);
// DOFs that stayed independent are true DOFs
int n_true_dofs = 0;
for (int i = 0; i < ndofs; i++)
{
if (!deps.RowSize(i)) { n_true_dofs++; }
}
// if all dofs are true dofs leave cP and cR NULL
if (n_true_dofs == ndofs)
{
cP = cR = NULL; // will be treated as identities
return;
}
// create the conforming restriction matrix cR
int *cR_J;
{
int *cR_I = new int[n_true_dofs+1];
double *cR_A = new double[n_true_dofs];
cR_J = new int[n_true_dofs];
for (int i = 0; i < n_true_dofs; i++)
{
cR_I[i] = i;
cR_A[i] = 1.0;
}
cR_I[n_true_dofs] = n_true_dofs;
cR = new SparseMatrix(cR_I, cR_J, cR_A, n_true_dofs, ndofs);
}
// create the conforming prolongation matrix cP
cP = new SparseMatrix(ndofs, n_true_dofs);
Array<bool> finalized(ndofs);
finalized = false;
// put identity in the restriction and prolongation matrices for true DOFs
for (int i = 0, true_dof = 0; i < ndofs; i++)
{
if (!deps.RowSize(i))
{
cR_J[true_dof] = i;
cP->Add(i, true_dof++, 1.0);
finalized[i] = true;
}
}
// Now calculate cP rows of slave DOFs as combinations of cP rows of their
// master DOFs. It is possible that some slave DOFs depend on DOFs that are
// themselves slaves. Here we resolve such indirect constraints by first
// calculating rows of the cP matrix for DOFs whose master DOF cP rows are
// already known (in the first iteration these are the true DOFs). In the
// second iteration, slaves of slaves can be 'finalized' (given a row in the
// cP matrix), in the third iteration slaves of slaves of slaves, etc.
bool finished;
int n_finalized = n_true_dofs;
Array<int> cols;
Vector srow;
do
{
finished = true;
for (int dof = 0; dof < ndofs; dof++)
{
if (!finalized[dof] && DofFinalizable(dof, finalized, deps))
{
const int* dep_col = deps.GetRowColumns(dof);
const double* dep_coef = deps.GetRowEntries(dof);
int n_dep = deps.RowSize(dof);
for (int j = 0; j < n_dep; j++)
{
cP->GetRow(dep_col[j], cols, srow);
srow *= dep_coef[j];
cP->AddRow(dof, cols, srow);
}
finalized[dof] = true;
n_finalized++;
finished = false;
}
}
}
while (!finished);
// if everything is consistent (mesh, face orientations, etc.), we should
// be able to finalize all slave DOFs, otherwise it's a serious error
if (n_finalized != ndofs)
{
MFEM_ABORT("Error creating cP matrix.");
}
cP->Finalize();
if (vdim > 1)
{
MakeVDimMatrix(*cP);
MakeVDimMatrix(*cR);
}
#endif
}
void FiniteElementSpace::MakeVDimMatrix(SparseMatrix &mat) const
{
if (vdim == 1) { return; }
@@ -2504,10 +2304,8 @@ void FiniteElementSpace::UpdateNURBS()
nvdofs = 0;
nedofs = 0;
npdofs = 0;
nfdofs = 0;
nbdofs = 0;
pdofs = NULL;
bdofs = NULL;
delete face_dof;
@@ -2590,8 +2388,6 @@ void FiniteElementSpace::Construct()
face_dof = NULL;
ndofs = 0;
npdofs = 0;
pdofs = NULL;
nvdofs = nedofs = nfdofs = nbdofs = 0;
bdofs = NULL;
@@ -2664,24 +2460,6 @@ void FiniteElementSpace::Construct()
}
}
if (mesh->Dimension() >= 4 && mesh->GetNE())
{
// Here we assume that all planars in the mesh have the same base
// geometry -- the base geometry of the 0-th face element.
int pdof = fec->DofForGeometry(mesh->GetPlanarBaseGeometry(0));
if (pdof > 0)
{
pdofs = new int[mesh->GetNPlanars()+1];
pdofs[0] = 0;
for (int i = 0; i < mesh->GetNPlanars(); i++)
{
npdofs += pdof;
// npdofs += fec->DofForGeometry(mesh->GetPlanarBaseGeometry(i));
pdofs[i+1] = npdofs;
}
}
}
// assign internal ("bubble") DOFs
if (mesh->GetNE() && dim > 0)
{
@@ -2705,7 +2483,7 @@ void FiniteElementSpace::Construct()
}
}
ndofs = nvdofs + nedofs + npdofs + nfdofs + nbdofs;
ndofs = nvdofs + nedofs + nfdofs + nbdofs;
ConstructDoFTransArray();
@@ -2978,7 +2756,7 @@ void FiniteElementSpace::GetElementDofs(int elem, Array<int> &dofs,
return;
}
Array<int> V, E, Eo, F, Fo, P, Po; // TODO: LocalArray
Array<int> V, E, Eo, F, Fo; // TODO: LocalArray
int dim = mesh->Dimension();
auto geom = mesh->GetElementGeometry(elem);
@@ -2987,11 +2765,9 @@ void FiniteElementSpace::GetElementDofs(int elem, Array<int> &dofs,
int nv = fec->GetNumDof(Geometry::POINT, order);
int ne = (dim > 1) ? fec->GetNumDof(Geometry::SEGMENT, order) : 0;
int nb = (dim > 0) ? fec->GetNumDof(geom, order) : 0;
int np = (dim > 3) ? fec->GetNumDof(Geometry::TRIANGLE, order) : 0;
if (nv) { mesh->GetElementVertices(elem, V); }
if (ne) { mesh->GetElementEdges(elem, E, Eo); }
if (np) { mesh->GetElementPlanars(elem, P, Po); }
int nfd = 0;
if (dim > 2 && fec->HasFaceDofs(geom, order))
@@ -3011,7 +2787,7 @@ void FiniteElementSpace::GetElementDofs(int elem, Array<int> &dofs,
}
dofs.SetSize(0);
dofs.Reserve(nv*V.Size() + ne*E.Size() + np*P.Size() + nfd + nb);
dofs.Reserve(nv*V.Size() + ne*E.Size() + nfd + nb);
if (nv) // vertex DOFs
{
@@ -3038,20 +2814,6 @@ void FiniteElementSpace::GetElementDofs(int elem, Array<int> &dofs,
}
}
if(np)
{
for (int i = 0; i < P.Size(); i++)
{
int pbase = /* IsVariableOrder() ? FindEdgeDof(E[i], ne) : */P[i]*np;
const int *ind = fec->GetDofOrdering(Geometry::TRIANGLE, order, Po[i]);
for (int j = 0; j < np; j++)
{
dofs.Append(EncodeDof(nvdofs + nedofs + pbase, ind[j]));
}
}
}
if (nfd) // face DOFs
{
for (int i = 0; i < F.Size(); i++)
@@ -3064,7 +2826,7 @@ void FiniteElementSpace::GetElementDofs(int elem, Array<int> &dofs,
for (int j = 0; j < nf; j++)
{
dofs.Append(EncodeDof(nvdofs + nedofs + npdofs + fbase, ind[j]));
dofs.Append(EncodeDof(nvdofs + nedofs + fbase, ind[j]));
}
}
}
@@ -3072,7 +2834,7 @@ void FiniteElementSpace::GetElementDofs(int elem, Array<int> &dofs,
if (nb) // interior ("bubble") DOFs
{
int bbase = bdofs ? bdofs[elem] : elem*nb;
bbase += nvdofs + nedofs + npdofs + nfdofs;
bbase += nvdofs + nedofs + nfdofs;
for (int j = 0; j < nb; j++)
{
@@ -3110,7 +2872,7 @@ void FiniteElementSpace::GetBdrElementDofs(int bel, Array<int> &dofs,
return;
}
Array<int> V, E, Eo, P, Po; // TODO: LocalArray
Array<int> V, E, Eo; // TODO: LocalArray
int F, oF;
int dim = mesh->Dimension();
@@ -3127,13 +2889,9 @@ void FiniteElementSpace::GetBdrElementDofs(int bel, Array<int> &dofs,
int nv = fec->GetNumDof(Geometry::POINT, order);
int ne = (dim > 1) ? fec->GetNumDof(Geometry::SEGMENT, order) : 0;
int nf = (dim > 2) ? fec->GetNumDof(geom, order) : 0;
int np = (dim > 3) ? fec->DofForGeometry(Geometry::TRIANGLE) : (0);
if (nv) { mesh->GetBdrElementVertices(bel, V); }
if (ne) { mesh->GetBdrElementEdges(bel, E, Eo); }
if (np) { mesh->GetBdrElementPlanars(bel, P, Po); }
if (nf)
{
mesh->GetBdrElementFace(bel, &F, &oF);
@@ -3150,7 +2908,7 @@ void FiniteElementSpace::GetBdrElementDofs(int bel, Array<int> &dofs,
}
dofs.SetSize(0);
dofs.Reserve(nv*V.Size() + ne*E.Size() + np * P.Size() + nf);
dofs.Reserve(nv*V.Size() + ne*E.Size() + nf);
if (nv) // vertex DOFs
{
@@ -3177,20 +2935,6 @@ void FiniteElementSpace::GetBdrElementDofs(int bel, Array<int> &dofs,
}
}
if(np)
{
for (int i = 0; i < P.Size(); i++)
{
int pbase = /* IsVariableOrder() ? FindEdgeDof(E[i], ne) : */P[i]*np;
const int *ind = fec->GetDofOrdering(Geometry::TRIANGLE, order, Po[i]);
for (int j = 0; j < np; j++)
{
dofs.Append(EncodeDof(nvdofs + nedofs + pbase, ind[j]));
}
}
}
if (nf) // face DOFs
{
int fbase = (var_face_dofs.Size() > 0) ? FindFaceDof(F, nf) : F*nf;
@@ -3260,12 +3004,10 @@ int FiniteElementSpace::GetFaceDofs(int face, Array<int> &dofs,
// for 1D, 2D and 3D faces
int nv = fec->GetNumDof(Geometry::POINT, order);
int ne = (dim > 1) ? fec->GetNumDof(Geometry::SEGMENT, order) : 0;
int np = (dim > 3) ? fec->GetNumDof(Geometry::TRIANGLE, order) : 0;
Array<int> V, E, Eo, P, Po;
Array<int> V, E, Eo;
if (nv) { mesh->GetFaceVertices(face, V); }
if (ne) { mesh->GetFaceEdges(face, E, Eo); }
if (np) { mesh->GetFacePlanars(face, P, Po); }
dofs.SetSize(0);
dofs.Reserve(V.Size() * nv + E.Size() * ne + nf);
@@ -3293,92 +3035,14 @@ int FiniteElementSpace::GetFaceDofs(int face, Array<int> &dofs,
}
}
}
if(np)
{
for (int i = 0; i < P.Size(); i++)
{
int pbase = /* IsVariableOrder() ? FindEdgeDof(E[i], ne) : */P[i]*np;
const int *ind = fec->GetDofOrdering(Geometry::TRIANGLE, order, Po[i]);
for (int j = 0; j < np; j++)
{
dofs.Append(EncodeDof(nvdofs + nedofs + pbase, ind[j]));
}
}
}
for (int j = 0; j < nf; j++)
{
dofs.Append(nvdofs + nedofs + npdofs + fbase + j);
dofs.Append(nvdofs + nedofs + fbase + j);
}
return order;
}
void FiniteElementSpace::GetPlanarDofs(int planar, Array<int> &dofs) const
{
MFEM_VERIFY(!orders_changed, msg_orders_changed);
// if (planar_dof)
// {
// planar_dof->GetRow(planar, dofs);
// return;
// }
Array<int> V, E, Eo; // TODO: LocalArray
int dim = mesh->Dimension();
int order = fec->GetOrder();
// if (IsVariableOrder()) // determine order from adjacent element
// {
// int elem, info;
// mesh->GetBdrElementAdjacentElement(bel, elem, info);
// order = elem_order[elem];
// }
int nv = fec->GetNumDof(Geometry::POINT, order);
int ne = (dim > 1) ? fec->GetNumDof(Geometry::SEGMENT, order) : 0;
int np = fec->GetNumDof(Geometry::TRIANGLE, order);
if (nv) { mesh->GetPlanVertices(planar, V); }
if (ne) { mesh->GetPlanarEdges(planar, E, Eo); }
dofs.SetSize(0);
dofs.Reserve(nv*V.Size() + ne*E.Size() + np);
if (nv) // vertex DOFs
{
for (int i = 0; i < V.Size(); i++)
{
for (int j = 0; j < nv; j++)
{
dofs.Append(V[i]*nv + j);
}
}
}
if (ne) // edge DOFs
{
for (int i = 0; i < E.Size(); i++)
{
int ebase = IsVariableOrder() ? FindEdgeDof(E[i], ne) : E[i]*ne;
const int *ind = fec->GetDofOrdering(Geometry::SEGMENT, order, Eo[i]);
for (int j = 0; j < ne; j++)
{
dofs.Append(EncodeDof(nvdofs + ebase, ind[j]));
}
}
}
int pbase = planar*np;
for (int i = 0; i < np; i++)
{
dofs.Append(nvdofs + nedofs + pbase + i);
}
}
int FiniteElementSpace::GetEdgeDofs(int edge, Array<int> &dofs,
int variant) const
{
@@ -3445,7 +3109,7 @@ void FiniteElementSpace::GetElementInteriorDofs(int i, Array<int> &dofs) const
int base = bdofs ? bdofs[i] : i*nb;
dofs.SetSize(nb);
base += nvdofs + nedofs + npdofs + nfdofs;
base += nvdofs + nedofs + nfdofs;
for (int j = 0; j < nb; j++)
{
dofs[j] = base + j;
@@ -3600,11 +3264,6 @@ const FiniteElement *FiniteElementSpace::GetFaceElement(int i) const
return fe;
}
const FiniteElement *FiniteElementSpace::GetPlanarElement(int i) const
{
return fec->FiniteElementForGeometry(mesh->GetPlanarBaseGeometry(i));
}
const FiniteElement *FiniteElementSpace::GetEdgeElement(int i,
int variant) const
{
@@ -3674,8 +3333,6 @@ void FiniteElementSpace::Destroy()
delete bdr_elem_fos;
delete face_dof;
delete [] bdofs;
delete [] pdofs;
}
ceed::RemoveBasisAndRestriction(this);
}
+2 -14
View File
@@ -245,9 +245,9 @@ protected:
to be of the default order (fec->GetOrder()). */
Array<char> elem_order;
int nvdofs, nedofs, nfdofs, nbdofs, npdofs;
int nvdofs, nedofs, nfdofs, nbdofs;
int uni_fdof; ///< # of single face DOFs if all faces uniform; -1 otherwise
int *bdofs, *pdofs; ///< internal DOFs of elements if mixed/var-order; NULL otherwise
int *bdofs; ///< internal DOFs of elements if mixed/var-order; NULL otherwise
/** Variable order spaces only: DOF assignments for edges and faces, see
docs in MakeDofTable. For constant order spaces the tables are empty. */
@@ -396,7 +396,6 @@ protected:
/// Calculate the cP and cR matrices for a nonconforming mesh.
void BuildConformingInterpolation() const;
void BuildConformingInterpolation4D() const;
static void AddDependencies(SparseMatrix& deps, Array<int>& master_dofs,
Array<int>& slave_dofs, DenseMatrix& I,
@@ -731,7 +730,6 @@ public:
int GetNVDofs() const { return nvdofs; }
/// Number of all scalar edge-interior dofs
int GetNEDofs() const { return nedofs; }
int GetNPDofs() const { return npdofs; }
/// Number of all scalar face-interior dofs
int GetNFDofs() const { return nfdofs; }
@@ -747,9 +745,6 @@ public:
the edges. */
inline int GetNF() const { return mesh->GetNumFaces(); }
/// Returns number of planars (i.e. co-dimension 2 entities) in the mesh.
inline int GetNP() const { return mesh->GetNPlanars(); }
/// Returns number of boundary elements in the mesh.
inline int GetNBE() const { return mesh->GetNBE(); }
@@ -791,8 +786,6 @@ public:
int GetBdrAttribute(int i) const { return mesh->GetBdrAttribute(i); }
virtual void GetPlanarDofs(int i, Array<int> &dofs) const;
/// @anchor getdof @name Local DoF Access Members
/// These member functions produce arrays of local degree of freedom
/// indices, see @ref ldof. If @b vdim == 1 these indices can be used to
@@ -1094,9 +1087,6 @@ public:
/// not necessarily equal to 1. See GetFaceDofs() for more information.
void GetFaceVDofs(int i, Array<int> &vdofs) const;
/// Returns indexes of degrees of freedom for i'th planar element (4D).
void GetPlanarVDofs(int i, Array<int> &vdofs) const;
/// @brief Returns the indices of the degrees of freedom for the specified
/// edge, including the DOFs for the vertices of the edge.
///
@@ -1188,8 +1178,6 @@ public:
points.*/
const FiniteElement *GetFaceElement(int i) const;
const FiniteElement *GetPlanarElement(int i) const;
/** @brief Returns pointer to the FiniteElement in the FiniteElementCollection
associated with i'th edge in the mesh object. */
const FiniteElement *GetEdgeElement(int i, int variant = 0) const;
+39 -371
View File
@@ -19,11 +19,11 @@ namespace mfem
const char *Geometry::Name[NumGeom] =
{
"Point", "Segment", "Triangle", "Square", "Tetrahedron", "Cube", "Prism",
"Pyramid", "Pentatope", "Tesseract"
"Pyramid"
};
const real_t Geometry::Volume[NumGeom] =
{ 1.0, 1.0, 0.5, 1.0, 1./6, 1.0, 0.5, 1./3, 1./24., 1.0 };
{ 1.0, 1.0, 0.5, 1.0, 1./6, 1.0, 0.5, 1./3 };
Geometry::Geometry()
{
@@ -165,36 +165,6 @@ Geometry::Geometry()
GeomVert[7]->IntPoint(4).y = 0.0;
GeomVert[7]->IntPoint(4).z = 1.0;
// Vertices for Geometry::PENTATOPE
GeomVert[8] = new IntegrationRule(5);
GeomVert[8]->IntPoint(0).x = 0.0;
GeomVert[8]->IntPoint(0).y = 0.0;
GeomVert[8]->IntPoint(0).z = 0.0;
GeomVert[8]->IntPoint(0).t = 0.0;
GeomVert[8]->IntPoint(1).x = 1.0;
GeomVert[8]->IntPoint(1).y = 0.0;
GeomVert[8]->IntPoint(1).z = 0.0;
GeomVert[8]->IntPoint(1).t = 0.0;
GeomVert[8]->IntPoint(2).x = 0.0;
GeomVert[8]->IntPoint(2).y = 1.0;
GeomVert[8]->IntPoint(2).z = 0.0;
GeomVert[8]->IntPoint(2).t = 0.0;
GeomVert[8]->IntPoint(3).x = 0.0;
GeomVert[8]->IntPoint(3).y = 0.0;
GeomVert[8]->IntPoint(3).z = 1.0;
GeomVert[8]->IntPoint(3).t = 0.0;
GeomVert[8]->IntPoint(4).x = 0.0;
GeomVert[8]->IntPoint(4).y = 0.0;
GeomVert[8]->IntPoint(4).z = 0.0;
GeomVert[8]->IntPoint(4).t = 1.0;
// Vertices for Geometry::TESSERACT
// TODO
GeomCenter[POINT].x = 0.0;
GeomCenter[POINT].y = 0.0;
GeomCenter[POINT].z = 0.0;
@@ -227,14 +197,6 @@ Geometry::Geometry()
GeomCenter[PYRAMID].y = 0.375;
GeomCenter[PYRAMID].z = 0.25;
GeomCenter[PENTATOPE].x = 0.2;
GeomCenter[PENTATOPE].y = 0.2;
GeomCenter[PENTATOPE].z = 0.2;
GeomCenter[PENTATOPE].t = 0.2;
// GeomCenter[TESSERACT]
// TODO
GeomToPerfGeomJac[POINT] = NULL;
GeomToPerfGeomJac[SEGMENT] = new DenseMatrix(1);
GeomToPerfGeomJac[TRIANGLE] = new DenseMatrix(2);
@@ -243,7 +205,6 @@ Geometry::Geometry()
GeomToPerfGeomJac[CUBE] = new DenseMatrix(3);
GeomToPerfGeomJac[PRISM] = new DenseMatrix(3);
GeomToPerfGeomJac[PYRAMID] = new DenseMatrix(3);
GeomToPerfGeomJac[PENTATOPE] = new DenseMatrix(4);
PerfGeomToGeomJac[POINT] = NULL;
PerfGeomToGeomJac[SEGMENT] = NULL;
@@ -253,7 +214,6 @@ Geometry::Geometry()
PerfGeomToGeomJac[CUBE] = NULL;
PerfGeomToGeomJac[PRISM] = new DenseMatrix(3);
PerfGeomToGeomJac[PYRAMID] = new DenseMatrix(3);
PerfGeomToGeomJac[PENTATOPE] = new DenseMatrix(4);
GeomToPerfGeomJac[SEGMENT]->Diag(1.0, 1);
{
@@ -290,16 +250,6 @@ Geometry::Geometry()
*GeomToPerfGeomJac[PYRAMID] = pyr_T.Jacobian();
CalcInverse(pyr_T.Jacobian(), *PerfGeomToGeomJac[PYRAMID]);
}
{
Linear4DFiniteElement PentFE;
IsoparametricTransformation pent_T;
pent_T.SetFE(&PentFE);
GetPerfPointMat (PENTATOPE, pent_T.GetPointMat());
// pent_T.FinalizeTransformation();
pent_T.SetIntPoint(&GeomCenter[PENTATOPE]);
*GeomToPerfGeomJac[PENTATOPE] = pent_T.Jacobian();
CalcInverse(pent_T.Jacobian(), *PerfGeomToGeomJac[PENTATOPE]);
}
}
template <Geometry::Type GEOM>
@@ -352,8 +302,6 @@ const IntegrationRule *Geometry::GetVertices(int GeomType) const
case Geometry::CUBE: return GeomVert[5];
case Geometry::PRISM: return GeomVert[6];
case Geometry::PYRAMID: return GeomVert[7];
case Geometry::PENTATOPE: return GeomVert[8];
case Geometry::TESSERACT: return GeomVert[9];
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
mfem_error("Geometry::GetVertices(...)");
@@ -451,45 +399,6 @@ void Geometry::GetRandomPoint(int GeomType, IntegrationPoint &ip)
ip.x = 1.0 - z;
}
break;
case Geometry::PENTATOPE:
ip.x = real_t(rand()) / real_t(RAND_MAX);
ip.y = real_t(rand()) / real_t(RAND_MAX);
ip.z = real_t(rand()) / real_t(RAND_MAX);
ip.t = real_t(rand()) / real_t(RAND_MAX);
// map to the triangular 4D wedge obtained by extruding the reference
// tetrahedron in t direction
// needs to be updated
// if (ip.x + ip.y > 1.0)
// {
// ip.x = 1.0 - ip.x;
// ip.y = 1.0 - ip.y;
// }
// // split the prism into 3 parts: 1 is the reference tet, and the
// // other two tets (as given below) are mapped to the reference tet
// if (ip.x + ip.z > 1.0)
// {
// // tet with vertices: (0,0,1),(1,0,1),(0,1,1),(1,0,0)
// ip.x = ip.x + ip.z - 1.0;
// // ip.y = ip.y;
// ip.z = 1.0 - ip.z;
// // mapped to: (0,0,0),(1,0,0),(0,1,0),(0,0,1)
// }
// else if (ip.x + ip.y + ip.z > 1.0)
// {
// // tet with vertices: (0,1,1),(0,1,0),(0,0,1),(1,0,0)
// real_t x = ip.x;
// ip.x = 1.0 - x - ip.z;
// ip.y = 1.0 - x - ip.y;
// ip.z = x;
// // mapped to: (0,0,0),(1,0,0),(0,1,0),(0,0,1)
// }
// break;
case Geometry::TESSERACT:
ip.x = real_t(rand()) / real_t(RAND_MAX);
ip.y = real_t(rand()) / real_t(RAND_MAX);
ip.z = real_t(rand()) / real_t(RAND_MAX);
ip.t = real_t(rand()) / real_t(RAND_MAX);
break;
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
MFEM_ABORT("Unknown type of reference element!");
@@ -556,14 +465,6 @@ bool Geometry::CheckPoint(int GeomType, const IntegrationPoint &ip)
if (ip.x < 0.0 || ip.y < 0.0 || ip.x+ip.z > 1.0 || ip.y+ip.z > 1.0 ||
ip.z < 0.0 || ip.z > 1.0) { return false; }
break;
case Geometry::PENTATOPE:
if (ip.x < 0.0 || ip.y < 0.0 || ip.z < 0.0 || ip.t < 0 ||
ip.x+ip.y+ip.z+ip.t > 1.0) { return false; }
break;
case Geometry::TESSERACT:
if (ip.x < 0.0 || ip.x > 1.0 || ip.y < 0.0 || ip.y > 1.0 ||
ip.z < 0.0 || ip.z > 1.0 || ip.t < 0.0 || ip.t > 1.0) { return false; }
break;
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
MFEM_ABORT("Unknown type of reference element!");
@@ -647,29 +548,6 @@ bool Geometry::CheckPoint(int GeomType, const IntegrationPoint &ip, real_t eps)
return false;
}
break;
case Geometry::PENTATOPE:
if ( internal::FuzzyLT(ip.x, 0.0, eps)
|| internal::FuzzyLT(ip.y, 0.0, eps)
|| internal::FuzzyLT(ip.z, 0.0, eps)
|| internal::FuzzyLT(ip.t, 0.0, eps)
|| internal::FuzzyGT(ip.x+ip.y+ip.z+ip.t, 1.0, eps) )
{
return false;
}
break;
case Geometry::TESSERACT:
if ( internal::FuzzyLT(ip.x, 0.0, eps)
|| internal::FuzzyGT(ip.x, 1.0, eps)
|| internal::FuzzyLT(ip.y, 0.0, eps)
|| internal::FuzzyGT(ip.y, 1.0, eps)
|| internal::FuzzyLT(ip.z, 0.0, eps)
|| internal::FuzzyGT(ip.z, 1.0, eps)
|| internal::FuzzyLT(ip.t, 0.0, eps)
|| internal::FuzzyGT(ip.t, 1.0, eps) )
{
return false;
}
break;
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
MFEM_ABORT("Unknown type of reference element!");
@@ -732,81 +610,6 @@ inline bool ProjectTriangle(real_t &x, real_t &y)
return true;
}
inline bool ProjectTetrahedron(double &x, double &y, double &z)
{
if (z < 0.0)
{
z = 0.0;
internal::ProjectTriangle(x, y);
return false;
}
if (y < 0.0)
{
y = 0.0;
internal::ProjectTriangle(x, z);
return false;
}
if (x < 0.0)
{
x = 0.0;
internal::ProjectTriangle(y, z);
return false;
}
const double l4 = 1.0-x-y-z;
if (l4 < 0.0)
{
const double l4_3 = l4/3;
x += l4_3;
y += l4_3;
internal::ProjectTriangle(x, y);
z = 1.0-x-y;
return false;
}
return true;
}
inline bool ProjectPentatope(double &x, double &y, double &z, double &t)
{
if (t < 0.0)
{
t = 0.0;
internal::ProjectTetrahedron(x, y, z);
return false;
}
if (z < 0.0)
{
z = 0.0;
internal::ProjectTetrahedron(x, y, t);
return false;
}
if (y < 0.0)
{
y = 0.0;
internal::ProjectTetrahedron(x, z, t);
return false;
}
if (x < 0.0)
{
x = 0.0;
internal::ProjectTetrahedron(y, z, t);
return false;
}
const double l5 = 1.0-x-y-z-t;
if (l5 < 0.0)
{
const double l5_4 = l5/4;
// TODO
// In Geometry::ProjectPoint 4d origianlly had const double l5_4 = l5/5
x += l5_4;
y += l5_4;
z += l5_4;
internal::ProjectTetrahedron(x, y, z);
t = 1.0-x-y-z;
return false;
}
return true;
}
}
// static method
@@ -872,22 +675,6 @@ bool Geometry::ProjectPoint(int GeomType, const IntegrationPoint &beg,
};
return internal::IntersectSegment<6,3>(lbeg, lend, end);
}
case Geometry::PENTATOPE:
{
real_t lend[5] = { end.x, end.y, end.z, end.t, fone-end.x-end.y-end.z-end.t };
real_t lbeg[5] = { beg.x, beg.y, beg.z, beg.t, fone-beg.x-beg.y-beg.z-beg.t };
return internal::IntersectSegment<5,4>(lbeg,lend,end);
}
case Geometry::TESSERACT:
{
real_t lend[8] = { end.x, end.y, end.z, end.t,
fone-end.x, fone-end.y, fone-end.z, fone-end.t
};
real_t lbeg[8] = { beg.x, beg.y, beg.z, beg.t,
fone-beg.x, fone-beg.y, fone-beg.z, fone-beg.t
};
return internal::IntersectSegment<8,3>(lbeg, lend, end);
}
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
MFEM_ABORT("Unknown type of reference element!");
@@ -930,7 +717,35 @@ bool Geometry::ProjectPoint(int GeomType, IntegrationPoint &ip)
case TETRAHEDRON:
{
return internal::ProjectTetrahedron(ip.x, ip.y, ip.z);
if (ip.z < 0.0)
{
ip.z = 0.0;
internal::ProjectTriangle(ip.x, ip.y);
return false;
}
if (ip.y < 0.0)
{
ip.y = 0.0;
internal::ProjectTriangle(ip.x, ip.z);
return false;
}
if (ip.x < 0.0)
{
ip.x = 0.0;
internal::ProjectTriangle(ip.y, ip.z);
return false;
}
const real_t l4 = 1.0-ip.x-ip.y-ip.z;
if (l4 < 0.0)
{
const real_t l4_3 = l4/3;
ip.x += l4_3;
ip.y += l4_3;
internal::ProjectTriangle(ip.x, ip.y);
ip.z = 1.0-ip.x-ip.y;
return false;
}
return true;
}
case CUBE:
@@ -995,29 +810,6 @@ bool Geometry::ProjectPoint(int GeomType, IntegrationPoint &ip)
}
}
case PENTATOPE:
{
return internal::ProjectPentatope(ip.x, ip.y, ip.z, ip.t);
}
case TESSERACT:
{
bool in_x, in_y, in_z, in_t;
if (ip.x < 0.0) { in_x = false; ip.x = 0.0; }
else if (ip.x > 1.0) { in_x = false; ip.x = 1.0; }
else { in_x = true; }
if (ip.y < 0.0) { in_y = false; ip.y = 0.0; }
else if (ip.y > 1.0) { in_y = false; ip.y = 1.0; }
else { in_y = true; }
if (ip.z < 0.0) { in_z = false; ip.z = 0.0; }
else if (ip.z > 1.0) { in_z = false; ip.z = 1.0; }
else { in_z = true; }
if (ip.t < 0.0) { in_t = false; ip.t = 0.0; }
else if (ip.t > 1.0) { in_t = false; ip.t = 1.0; }
else { in_t = true; }
return in_x && in_y && in_z && in_t;
}
case Geometry::POINT:
MFEM_ABORT("Reference element type is not supported!");
case Geometry::INVALID:
@@ -1106,42 +898,6 @@ void Geometry::GetPerfPointMat(int GeomType, DenseMatrix &pm) const
}
break;
case Geometry::PENTATOPE:
{
pm.SetSize(4,5);
pm(0,0) = 0.0; pm(1,0) = 0.0; pm(2,0) = 0.0; pm(3,0) = 0.0;
pm(0,1) = 1.0; pm(1,1) = 0.0; pm(2,1) = 0.0; pm(3,1) = 0.0;
pm(0,2) = 0.5; pm(1,2) = 0.86602540378443864676; pm(2,2) = 0.0; pm(3,2) = 0.0;
pm(0,3) = 0.5; pm(1,3) = 0.28867513459481288225;
pm(2,3) = 0.81649658092772603273; pm(3,3) = 0.0;
pm(0,4) = 0.5; pm(1,4) = 0.28867513459481288225;
pm(2,4) = 0.20412414523193150819; pm(3,4) = 0.7905694150420948330;
}
break;
case Geometry::TESSERACT:
{
pm.SetSize (4, 16);
pm(0,0) = 0.0; pm(1,0) = 0.0; pm(2,0) = 0.0; pm(4,0) = 0.0;
pm(0,1) = 1.0; pm(1,1) = 0.0; pm(2,1) = 0.0; pm(4,1) = 0.0;
pm(0,2) = 1.0; pm(1,2) = 1.0; pm(2,2) = 0.0; pm(4,2) = 0.0;
pm(0,3) = 0.0; pm(1,3) = 1.0; pm(2,3) = 0.0; pm(4,3) = 0.0;
pm(0,4) = 0.0; pm(1,4) = 0.0; pm(2,4) = 1.0; pm(4,4) = 0.0;
pm(0,5) = 1.0; pm(1,5) = 0.0; pm(2,5) = 1.0; pm(4,5) = 0.0;
pm(0,6) = 1.0; pm(1,6) = 1.0; pm(2,6) = 1.0; pm(4,6) = 0.0;
pm(0,7) = 0.0; pm(1,7) = 1.0; pm(2,7) = 1.0; pm(4,7) = 0.0;
pm(0,8) = 0.0; pm(1,8) = 0.0; pm(2,8) = 0.0; pm(4,8) = 1.0;
pm(0,9) = 1.0; pm(1,9) = 0.0; pm(2,9) = 0.0; pm(4,9) = 1.0;
pm(0,10) = 1.0; pm(1,10) = 1.0; pm(2,10) = 0.0; pm(4,10) = 1.0;
pm(0,11) = 0.0; pm(1,11) = 1.0; pm(2,11) = 0.0; pm(4,11) = 1.0;
pm(0,12) = 0.0; pm(1,12) = 0.0; pm(2,12) = 1.0; pm(4,12) = 1.0;
pm(0,13) = 1.0; pm(1,13) = 0.0; pm(2,13) = 1.0; pm(4,13) = 1.0;
pm(0,14) = 1.0; pm(1,14) = 1.0; pm(2,14) = 1.0; pm(4,14) = 1.0;
pm(0,15) = 0.0; pm(1,15) = 1.0; pm(2,15) = 1.0; pm(4,15) = 1.0;
}
break;
case Geometry::POINT:
MFEM_ABORT("Reference element type is not supported!");
case Geometry::INVALID:
@@ -1163,13 +919,13 @@ void Geometry::JacToPerfJac(int GeomType, const DenseMatrix &J,
}
}
const int Geometry::NumBdrArray[NumGeom] = { 0, 2, 3, 4, 4, 6, 5, 5, 5, 24 };
const int Geometry::Dimension[NumGeom] = { 0, 1, 2, 2, 3, 3, 3, 3, 4, 4 };
const int Geometry::DimStart[MaxDim+2] =
{ POINT, SEGMENT, TRIANGLE, TETRAHEDRON, PENTATOPE, NUM_GEOMETRIES };
const int Geometry::NumVerts[NumGeom] = { 1, 2, 3, 4, 4, 8, 6, 5, 5, 16 };
const int Geometry::NumEdges[NumGeom] = { 0, 1, 3, 4, 6, 12, 9, 8, 10, 32 };
const int Geometry::NumFaces[NumGeom] = { 0, 0, 1, 1, 4, 6, 5, 5, 5, 24 };
const int Geometry::NumBdrArray[NumGeom] = { 0, 2, 3, 4, 4, 6, 5, 5 };
const int Geometry::Dimension[NumGeom] = { 0, 1, 2, 2, 3, 3, 3, 3 };
const int Geometry::DimStart[MaxDim+2] =
{ POINT, SEGMENT, TRIANGLE, TETRAHEDRON, NUM_GEOMETRIES };
const int Geometry::NumVerts[NumGeom] = { 1, 2, 3, 4, 4, 8, 6, 5 };
const int Geometry::NumEdges[NumGeom] = { 0, 1, 3, 4, 6, 12, 9, 8 };
const int Geometry::NumFaces[NumGeom] = { 0, 0, 1, 1, 4, 6, 5, 5 };
const int Geometry::
Constants<Geometry::POINT>::Orient[1][1] = {{0}};
@@ -1340,63 +1096,6 @@ Constants<Geometry::PYRAMID>::VertToVert::J[8][2] =
{4, 7} // 3,4:7
};
const int Geometry::
Constants<Geometry::PENTATOPE>::Edges[10][2] =
{{0, 1}, {0, 2}, {0, 3}, {0, 4}, {1, 2}, {1, 3}, {1, 4}, {2, 3}, {2, 4}, {3, 4}};
const int Geometry::
Constants<Geometry::PENTATOPE>::FaceTypes[5] =
{
Geometry::TETRAHEDRON, Geometry::TETRAHEDRON,
Geometry::TETRAHEDRON, Geometry::TETRAHEDRON,
Geometry::TETRAHEDRON
};
const int Geometry::
Constants<Geometry::PENTATOPE>::FaceVert[5][4] =
{
// {0, 1, 2, 3}, {0, 1, 2, 4},
// {0, 1, 3, 4}, {0, 2, 3, 4},
// {1, 2, 3, 4}
{0, 1, 2, 3}, {0, 2, 1, 4}, //<---- sorted such that the normal vectors are outer normal vectors
{0, 1, 3, 4}, {0, 3, 2, 4},
{1, 2, 3, 4}
};
const int Geometry::
Constants<Geometry::PENTATOPE>::PlanarVert[10][3] =
{
{0, 1, 2}, {0, 1, 3}, {0, 1, 4},
{0, 2, 3}, {0, 2, 4}, {0, 3, 4},
{1, 2, 3}, {1, 2, 4}, {1, 3, 4},
{2, 3, 4}
};
//const int Geometry::
//Constants<Geometry::PENTATOPE>::VertToVert::I[4] = {0, 3, 5, 6};
//const int Geometry::
//Constants<Geometry::PENTATOPE>::VertToVert::J[6][2] =
//{{1, 0}, {2, 1}, {3, 2}, {2, 3}, {3, 4}, {3, 5}};
const int Geometry::
Constants<Geometry::TESSERACT>::FaceVert[8][8] =
{
// {8,11,12,15,0,3,4,7}, //x bottom
// {1,2,6,5,9,10,14,13}, //x top
// {0,1,5,4,8,9,13,12}, //y bottom
// {2,3,7,6,10,11,15,14}, //y top
// {8,9,10,11,0,1,2,3}, // z bottom
// {4,5,6,7,12,13,14,15}, //z top
// {0,1,2,3,4,5,6,7}, //t botom
// {12,13,14,15,8,9,10,11} //t top
{8,11,15,12,0,3,7,4}, //x bottom
{1,2,6,5,9,10,14,13}, //x top
{0,1,5,4,8,9,13,12}, //y bottom
{2,3,7,6,10,11,15,14}, //y top
{8,9,10,11,0,1,2,3}, // z bottom
{4,5,6,7,12,13,14,15}, //z top
{0,1,2,3,4,5,6,7}, //t botom
{12,13,14,15,8,9,10,11} //t top
};
GeometryRefiner::~GeometryRefiner()
{
@@ -1957,9 +1656,7 @@ RefinedGeometry *GeometryRefiner::Refine(Geometry::Type Geom, int Times,
RGeom[Geometry::PRISM].Append(RG);
}
break;
case Geometry::PENTATOPE:
case Geometry::TESSERACT:
MFEM_ABORT("Reference element type is not supported!");
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
MFEM_ABORT("Unknown type of reference element!");
@@ -2071,8 +1768,6 @@ const IntegrationRule *GeometryRefiner::RefineInterior(Geometry::Type Geom,
case Geometry::CUBE:
case Geometry::PYRAMID:
case Geometry::PRISM:
case Geometry::PENTATOPE:
case Geometry::TESSERACT:
MFEM_ABORT("Reference element type is not supported!");
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
@@ -2142,24 +1837,6 @@ int GeometryRefiner::GetRefinementLevelFromPoints(Geometry::Type geom, int Npts)
}
case Geometry::PYRAMID:
MFEM_ABORT("Reference element type is not supported!");
case Geometry::PENTATOPE:
{
for (int n = 0, np = 0; (n < 15) && (np < Npts) ; n++)
{
np = (n+4)*(n+3)*(n+2)*(n+1)/24;
if (np == Npts) { return n; }
}
return -1;
}
case Geometry::TESSERACT:
{
for (int n = 0, np = 0; (n < 15) && (np < Npts) ; n++)
{
np = (n+1)*(n+1)*(n+1)*(n+1);
if (np == Npts) { return n; }
}
return -1;
}
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
MFEM_ABORT("Unknown type of reference element!");
@@ -2202,15 +1879,6 @@ int GeometryRefiner::GetRefinementLevelFromElems(Geometry::Type geom, int Nels)
}
case Geometry::PYRAMID:
MFEM_ABORT("Reference element type is not supported!");
case Geometry::PENTATOPE:
case Geometry::TESSERACT:
{
for (int n = 0; (n < 15) && (n*n*n*n < Nels+1) ; n++)
{
if (n*n*n*n == Nels) { return n-1; }
}
return -1;
}
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
MFEM_ABORT("Unknown type of reference element!");
+2 -52
View File
@@ -28,8 +28,6 @@ namespace mfem
Geometry::CUBE - the unit cube
Geometry::PRISM - w/ vert. (0,0,0),(1,0,0),(0,1,0),(0,0,1),(1,0,1),(0,1,1)
Geometry::PYRAMID - w/ vert. (0,0,0),(1,0,0),(1,1,0),(0,1,0),(0,0,1)
Geometry::PENTATOPE - w/ vert. (0,0,0,0),(1,0,0,0),(0,1,0,0),(0,0,1,0),(0,0,0,1)
Geometry::TESSERACT - the 4d unit cube
*/
class MFEM_EXPORT Geometry
{
@@ -37,12 +35,12 @@ public:
enum Type
{
INVALID = -1,
POINT = 0, SEGMENT, TRIANGLE, SQUARE, TETRAHEDRON, CUBE, PRISM, PYRAMID, PENTATOPE, TESSERACT,
POINT = 0, SEGMENT, TRIANGLE, SQUARE, TETRAHEDRON, CUBE, PRISM, PYRAMID,
NUM_GEOMETRIES
};
static const int NumGeom = NUM_GEOMETRIES;
static const int MaxDim = 4;
static const int MaxDim = 3;
static const int NumBdrArray[NumGeom];
static const char *Name[NumGeom];
static const real_t Volume[NumGeom];
@@ -120,7 +118,6 @@ public:
case 1: return SEGMENT;
case 2: return SQUARE;
case 3: return CUBE;
case 4: return TESSERACT;
default: MFEM_ABORT("Invalid dimension."); return INVALID;
}
}
@@ -308,53 +305,6 @@ template <> struct
};
};
template <> struct
/// @cond Suppress_Doxygen_warnings
MFEM_EXPORT
/// @endcond
Geometry::Constants<Geometry::PENTATOPE>
{
static const int Dimension = 4;
static const int NumVert = 5;
static const int NumEdges = 10;
static const int Edges[NumEdges][2];
static const int NumFaces = 5;
static const int FaceTypes[NumFaces];
static const int MaxFaceVert = 4;
static const int FaceVert[NumFaces][MaxFaceVert];
static const int NumPlanar = 10;
static const int MaxPlanarVert = 3;
static const int PlanarVert[NumPlanar][MaxPlanarVert];
// Lower-triangular part of the local vertex-to-vertex graph.
struct VertToVert
{
static const int I[NumVert];
static const int J[NumEdges][2]; // {end,edge_idx}
};
};
template <> struct
/// @cond Suppress_Doxygen_warnings
MFEM_EXPORT
/// @endcond
Geometry::Constants<Geometry::TESSERACT>
{
static const int Dimension = 4;
static const int NumVert = 16;
static const int NumEdges = 32;
static const int Edges[NumEdges][2];
static const int NumFaces = 8;
static const int FaceTypes[NumFaces];
static const int MaxFaceVert = 8;
static const int FaceVert[NumFaces][MaxFaceVert];
// Lower-triangular part of the local vertex-to-vertex graph.
struct VertToVert
{
static const int I[NumVert];
static const int J[NumEdges][2]; // {end,edge_idx}
};
};
// Defined in fe.cpp to ensure construction after 'mfem::TriangleFE' and
// `mfem::TetrahedronFE`.
extern MFEM_EXPORT Geometry Geometries;
+54 -113
View File
@@ -39,7 +39,7 @@ GridFunction::GridFunction(Mesh *m, std::istream &input)
UseDevice(true);
fes = new FiniteElementSpace;
fec_owned = fes->Load(m, input);
fec = fes->Load(m, input);
skip_comment_lines(input, '#');
istream::int_type next_char = input.peek();
@@ -81,10 +81,10 @@ GridFunction::GridFunction(Mesh *m, GridFunction *gf_array[], int num_pieces)
int vdim, ordering;
fes = gf_array[0]->FESpace();
fec_owned = FiniteElementCollection::New(fes->FEColl()->Name());
fec = FiniteElementCollection::New(fes->FEColl()->Name());
vdim = fes->GetVDim();
ordering = fes->GetOrdering();
fes = new FiniteElementSpace(m, fec_owned, vdim, ordering);
fes = new FiniteElementSpace(m, fec, vdim, ordering);
SetSize(fes->GetVSize());
if (m->NURBSext)
@@ -153,11 +153,11 @@ GridFunction::GridFunction(Mesh *m, GridFunction *gf_array[], int num_pieces)
void GridFunction::Destroy()
{
if (fec_owned)
if (fec)
{
delete fes;
delete fec_owned;
fec_owned = NULL;
delete fec;
fec = NULL;
}
}
@@ -325,9 +325,10 @@ int GridFunction::VectorDim() const
const FiniteElement *fe;
if (!fes->GetNE())
{
const FiniteElementCollection *fe_coll = fes->FEColl();
static const Geometry::Type geoms[3] =
{ Geometry::SEGMENT, Geometry::TRIANGLE, Geometry::TETRAHEDRON };
fe = fes->FEColl()->
fe = fe_coll->
FiniteElementForGeometry(geoms[fes->GetMesh()->Dimension()-1]);
}
else
@@ -349,8 +350,8 @@ int GridFunction::CurlDim() const
{
static const Geometry::Type geoms[3] =
{ Geometry::SEGMENT, Geometry::TRIANGLE, Geometry::TETRAHEDRON };
fe = fes->FEColl()->
FiniteElementForGeometry(geoms[fes->GetMesh()->Dimension()-1]);
fe = fes->FEColl()->FiniteElementForGeometry(geoms[fes->GetMesh()->Dimension()
-1]);
}
else
{
@@ -1321,9 +1322,9 @@ void GridFunction::ProjectVectorFieldOn(GridFunction &vec_field, int comp)
}
}
void GridFunction::AccumulateAndCountDerivativeValues(
int comp, int der_comp, GridFunction &der,
Array<int> &zones_per_dof) const
void GridFunction::AccumulateAndCountDerivativeValues(int comp, int der_comp,
GridFunction &der,
Array<int> &zones_per_dof)
{
FiniteElementSpace * der_fes = der.FESpace();
ElementTransformation * transf;
@@ -1374,8 +1375,7 @@ void GridFunction::AccumulateAndCountDerivativeValues(
}
}
void GridFunction::GetDerivative(int comp, int der_comp,
GridFunction &der) const
void GridFunction::GetDerivative(int comp, int der_comp, GridFunction &der)
{
Array<int> overlap;
AccumulateAndCountDerivativeValues(comp, der_comp, der, overlap);
@@ -2062,37 +2062,41 @@ void GridFunction::AccumulateAndCountBdrValues(
Coefficient *coeff[], VectorCoefficient *vcoeff, const Array<int> &attr,
Array<int> &values_counter)
{
int i, j, fdof, d, ind, vdim;
real_t val;
const FiniteElement *fe;
ElementTransformation *transf;
Array<int> vdofs;
Vector vc;
values_counter.SetSize(Size());
values_counter = 0;
const int vdim = fes->GetVDim();
vdim = fes->GetVDim();
HostReadWrite();
for (int i = 0; i < fes->GetNBE(); i++)
for (i = 0; i < fes->GetNBE(); i++)
{
if (attr[fes->GetBdrAttribute(i) - 1] == 0) { continue; }
const FiniteElement *fe = fes->GetBE(i);
const int fdof = fe->GetDof();
ElementTransformation *transf = fes->GetBdrElementTransformation(i);
fe = fes->GetBE(i);
fdof = fe->GetDof();
transf = fes->GetBdrElementTransformation(i);
const IntegrationRule &ir = fe->GetNodes();
fes->GetBdrElementVDofs(i, vdofs);
for (int j = 0; j < fdof; j++)
for (j = 0; j < fdof; j++)
{
const IntegrationPoint &ip = ir.IntPoint(j);
transf->SetIntPoint(&ip);
if (vcoeff) { vcoeff->Eval(vc, *transf, ip); }
for (int d = 0; d < vdim; d++)
for (d = 0; d < vdim; d++)
{
if (!vcoeff && !coeff[d]) { continue; }
real_t val = vcoeff ? vc(d) : coeff[d]->Eval(*transf, ip);
int ind = vdofs[fdof*d+j];
if ( ind < 0 )
val = vcoeff ? vc(d) : coeff[d]->Eval(*transf, ip);
if ( (ind = vdofs[fdof*d+j]) < 0 )
{
val = -val, ind = -1-ind;
}
@@ -2114,38 +2118,37 @@ void GridFunction::AccumulateAndCountBdrValues(
// iff A_ij != 0. It is sufficient to resolve just the first level of
// dependency, since A is a projection matrix: A^n = A due to cR.cP = I.
// Cases like these arise in 3D when boundary edges are constrained by
// (depend on) internal faces/elements, or for internal boundaries in 2 or
// 3D. We use the virtual method GetBoundaryClosure from NCMesh to resolve
// the dependencies.
if (fes->Nonconforming() && (fes->GetMesh()->Dimension() == 2 ||
fes->GetMesh()->Dimension() == 3))
// (depend on) internal faces/elements. We use the virtual method
// GetBoundaryClosure from NCMesh to resolve the dependencies.
if (fes->Nonconforming() && fes->GetMesh()->Dimension() == 3)
{
Vector vals;
Mesh *mesh = fes->GetMesh();
NCMesh *ncmesh = mesh->ncmesh;
Array<int> bdr_edges, bdr_vertices, bdr_faces, bdr_planars;
// if (mesh->Dimension() < 4)
// {
ncmesh->GetBoundaryClosure(attr, bdr_vertices, bdr_edges, bdr_faces);
// }
// else
// {
// ncmesh->GetBoundaryClosure(attr, bdr_vertices, bdr_edges, bdr_faces, bdr_planars);
// }
Array<int> bdr_edges, bdr_vertices, bdr_faces;
ncmesh->GetBoundaryClosure(attr, bdr_vertices, bdr_edges, bdr_faces);
auto mark_dofs = [&](ElementTransformation &transf, const FiniteElement &fe)
for (i = 0; i < bdr_edges.Size(); i++)
{
int edge = bdr_edges[i];
fes->GetEdgeVDofs(edge, vdofs);
if (vdofs.Size() == 0) { continue; }
transf = mesh->GetEdgeTransformation(edge);
transf->Attribute = -1; // TODO: set the boundary attribute
fe = fes->GetEdgeElement(edge);
if (!vcoeff)
{
vals.SetSize(fe.GetDof());
for (int d = 0; d < vdim; d++)
vals.SetSize(fe->GetDof());
for (d = 0; d < vdim; d++)
{
if (!coeff[d]) { continue; }
fe.Project(*coeff[d], transf, vals);
fe->Project(*coeff[d], *transf, vals);
for (int k = 0; k < vals.Size(); k++)
{
const int ind = vdofs[d*vals.Size()+k];
ind = vdofs[d*vals.Size()+k];
if (++values_counter[ind] == 1)
{
(*this)(ind) = vals(k);
@@ -2159,62 +2162,11 @@ void GridFunction::AccumulateAndCountBdrValues(
}
else // vcoeff != NULL
{
vals.SetSize(vdim*fe.GetDof());
fe.Project(*vcoeff, transf, vals);
vals.SetSize(vdim*fe->GetDof());
fe->Project(*vcoeff, *transf, vals);
for (int k = 0; k < vals.Size(); k++)
{
const int ind = vdofs[k];
if (++values_counter[ind] == 1)
{
(*this)(ind) = vals(k);
}
else
{
(*this)(ind) += vals(k);
}
}
}
};
for (auto edge : bdr_edges)
{
fes->GetEdgeVDofs(edge, vdofs);
if (vdofs.Size() == 0) { continue; }
ElementTransformation *transf = mesh->GetEdgeTransformation(edge);
const FiniteElement *fe = fes->GetEdgeElement(edge);
mark_dofs(*transf, *fe);
}
for (auto face : bdr_faces)
{
fes->GetFaceVDofs(face, vdofs);
if (vdofs.Size() == 0) { continue; }
ElementTransformation *transf = mesh->GetFaceTransformation(face);
const FiniteElement *fe = fes->GetFaceElement(face);
mark_dofs(*transf, *fe);
}
for (int i = 0; i < bdr_planars.Size(); i++)
{
const FiniteElement *fe;
ElementTransformation *transf;
int planar = bdr_planars[i];
fes->GetPlanarVDofs(planar, vdofs);
if (vdofs.Size() == 0) { continue; }
transf = mesh->GetPlanarTransformation(planar);
transf->Attribute = -1; // FIXME: set the boundary attribute
fe = fes->GetPlanarElement(planar);
vals.SetSize(fe->GetDof());
for (int d = 0; d < vdim; d++)
{
if (!coeff[d]) { continue; }
fe->Project(*coeff[d], *transf, vals);
for (int k = 0; k < vals.Size(); k++)
{
int ind = vdofs[d*vals.Size()+k];
ind = vdofs[k];
if (++values_counter[ind] == 1)
{
(*this)(ind) = vals(k);
@@ -2277,37 +2229,26 @@ void GridFunction::AccumulateAndCountBdrTangentValues(
accumulate_dofs(dofs, lvec, *this, values_counter);
}
if (fes->Nonconforming() && (fes->GetMesh()->Dimension() == 2 ||
fes->GetMesh()->Dimension() == 3))
if (fes->Nonconforming() && fes->GetMesh()->Dimension() == 3)
{
Mesh *mesh = fes->GetMesh();
NCMesh *ncmesh = mesh->ncmesh;
Array<int> bdr_edges, bdr_vertices, bdr_faces;
ncmesh->GetBoundaryClosure(bdr_attr, bdr_vertices, bdr_edges, bdr_faces);
for (auto edge : bdr_edges)
for (int i = 0; i < bdr_edges.Size(); i++)
{
int edge = bdr_edges[i];
fes->GetEdgeDofs(edge, dofs);
if (dofs.Size() == 0) { continue; }
T = mesh->GetEdgeTransformation(edge);
T->Attribute = -1; // TODO: set the boundary attribute
fe = fes->GetEdgeElement(edge);
lvec.SetSize(fe->GetDof());
fe->Project(vcoeff, *T, lvec);
accumulate_dofs(dofs, lvec, *this, values_counter);
}
for (auto face : bdr_faces)
{
fes->GetFaceDofs(face, dofs);
if (dofs.Size() == 0) { continue; }
T = mesh->GetFaceTransformation(face);
fe = fes->GetFaceElement(face);
lvec.SetSize(fe->GetDof());
fe->Project(vcoeff, *T, lvec);
accumulate_dofs(dofs, lvec, *this, values_counter);
}
}
}
@@ -3964,7 +3905,7 @@ void GridFunction::LegacyNCReorder()
mesh->GetEdgeVertices(i, ev);
if (old_vertex[ev[0]] > old_vertex[ev[1]])
{
const int *ind = fes->FEColl()->DofOrderForOrientation(Geometry::SEGMENT, -1);
const int *ind = fec->DofOrderForOrientation(Geometry::SEGMENT, -1);
fes->GetEdgeInteriorDofs(i, dofs);
for (int k = 0; k < dofs.Size(); k++)
+13 -13
View File
@@ -30,14 +30,14 @@ namespace mfem
class GridFunction : public Vector
{
protected:
/// FE space on which the grid function lives. Owned if #fec_owned is not NULL.
/// FE space on which the grid function lives. Owned if #fec 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 GridFunction. */
FiniteElementCollection *fec_owned;
FiniteElementCollection *fec;
long fes_sequence; // see FiniteElementSpace::sequence, Mesh::sequence
@@ -72,16 +72,16 @@ protected:
public:
GridFunction() { fes = NULL; fec_owned = NULL; fes_sequence = 0; UseDevice(true); }
GridFunction() { fes = NULL; fec = NULL; fes_sequence = 0; UseDevice(true); }
/// Copy constructor. The internal true-dof vector #t_vec is not copied.
GridFunction(const GridFunction &orig)
: Vector(orig), fes(orig.fes), fec_owned(NULL), fes_sequence(orig.fes_sequence)
: Vector(orig), fes(orig.fes), fec(NULL), fes_sequence(orig.fes_sequence)
{ UseDevice(true); }
/// Construct a GridFunction associated with the FiniteElementSpace @a *f.
GridFunction(FiniteElementSpace *f) : Vector(f->GetVSize())
{ fes = f; fec_owned = NULL; fes_sequence = f->GetSequence(); UseDevice(true); }
{ fes = f; fec = NULL; fes_sequence = f->GetSequence(); UseDevice(true); }
/// Construct a GridFunction using previously allocated array @a data.
/** The GridFunction does not assume ownership of @a data which is assumed to
@@ -91,13 +91,13 @@ public:
*/
GridFunction(FiniteElementSpace *f, real_t *data)
: Vector(data, f->GetVSize())
{ fes = f; fec_owned = NULL; fes_sequence = f->GetSequence(); UseDevice(true); }
{ fes = f; fec = NULL; fes_sequence = f->GetSequence(); UseDevice(true); }
/** @brief Construct a GridFunction using previously allocated Vector @a base
starting at the given offset, @a base_offset. */
GridFunction(FiniteElementSpace *f, Vector &base, int base_offset = 0)
: Vector(base, base_offset, f->GetVSize())
{ fes = f; fec_owned = NULL; fes_sequence = f->GetSequence(); UseDevice(true); }
{ fes = f; fec = NULL; fes_sequence = f->GetSequence(); UseDevice(true); }
/// Construct a GridFunction on the given Mesh, using the data from @a input.
/** The content of @a input should be in the format created by the method
@@ -116,12 +116,12 @@ public:
GridFunction &operator=(const GridFunction &rhs)
{ return operator=((const Vector &)rhs); }
/// Make the GridFunction the owner of #fec_owned and #fes.
/** If the new FiniteElementCollection, @a fec_, is NULL, ownership of #fec_owned
/// Make the GridFunction the owner of #fec and #fes.
/** If the new FiniteElementCollection, @a fec_, is NULL, ownership of #fec
and #fes is taken away. */
void MakeOwner(FiniteElementCollection *fec_) { fec_owned = fec_; }
void MakeOwner(FiniteElementCollection *fec_) { fec = fec_; }
FiniteElementCollection *OwnFEC() { return fec_owned; }
FiniteElementCollection *OwnFEC() { return fec; }
int VectorDim() const;
int CurlDim() const;
@@ -321,7 +321,7 @@ public:
@param[out] der The resulting derivative (scalar function). The
FiniteElementSpace of this function must be set
before the call. */
void GetDerivative(int comp, int der_comp, GridFunction &der) const;
void GetDerivative(int comp, int der_comp, GridFunction &der);
real_t GetDivergence(ElementTransformation &tr) const;
@@ -443,7 +443,7 @@ protected:
GetDerivative() method; see its documentation. */
void AccumulateAndCountDerivativeValues(int comp, int der_comp,
GridFunction &der,
Array<int> &zones_per_dof) const;
Array<int> &zones_per_dof);
void AccumulateAndCountBdrValues(Coefficient *coeff[],
VectorCoefficient *vcoeff,
-2
View File
@@ -1393,10 +1393,8 @@ GSOPGSLIB::~GSOPGSLIB()
void GSOPGSLIB::UpdateIdentifiers(const Array<long long> &ids)
{
long long minval = ids.Min();
#ifdef MFEM_USE_MPI
MPI_Allreduce(MPI_IN_PLACE, &minval, 1, MPI_LONG_LONG_INT,
MPI_MIN, gsl_comm->c);
#endif
MFEM_VERIFY(minval >= 0, "Unique identifier cannot be negative.");
if (gsl_data != NULL) { gslib_gs_free(gsl_data); }
num_ids = ids.Size();
+1 -194
View File
@@ -151,14 +151,10 @@ void IntegrationRule::GrundmannMollerSimplexRule(int s, int n)
ip.weight = weight;
ip.x = real_t(2*beta[0] + 1)/(d + n - 2*i);
ip.y = real_t(2*beta[1] + 1)/(d + n - 2*i);
if (n >= 3)
if (n == 3)
{
ip.z = real_t(2*beta[2] + 1)/(d + n - 2*i);
}
if (n == 4)
{
ip.t = real_t(2*beta[3] + 1)/(d + n - 2*i);
}
int j = 0;
while (sums[j] == k)
@@ -998,12 +994,6 @@ IntegrationRules::IntegrationRules(int ref, int type)
CubeIntRules.SetSize(32, h_mt);
CubeIntRules = NULL;
PentatopeIntRules.SetSize(32, h_mt);
PentatopeIntRules = NULL;
TesseractIntRules.SetSize(32, h_mt);
TesseractIntRules = NULL;
#if defined(MFEM_THREAD_SAFE) && defined(MFEM_USE_OPENMP)
IntRuleLocks.SetSize(Geometry::NUM_GEOMETRIES, h_mt);
for (int i = 0; i < Geometry::NUM_GEOMETRIES; i++)
@@ -1027,8 +1017,6 @@ const IntegrationRule &IntegrationRules::Get(int GeomType, int Order)
case Geometry::CUBE: ir_array = &CubeIntRules; break;
case Geometry::PRISM: ir_array = &PrismIntRules; break;
case Geometry::PYRAMID: ir_array = &PyramidIntRules; break;
case Geometry::PENTATOPE: ir_array = &PentatopeIntRules; break;
case Geometry::TESSERACT: ir_array = &TesseractIntRules; break;
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
MFEM_ABORT("Unknown type of reference element!");
@@ -1079,8 +1067,6 @@ void IntegrationRules::Set(int GeomType, int Order, IntegrationRule &IntRule)
case Geometry::CUBE: ir_array = &CubeIntRules; break;
case Geometry::PRISM: ir_array = &PrismIntRules; break;
case Geometry::PYRAMID: ir_array = &PyramidIntRules; break;
case Geometry::PENTATOPE: ir_array = &PentatopeIntRules; break;
case Geometry::TESSERACT: ir_array = &TesseractIntRules; break;
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
MFEM_ABORT("Unknown type of reference element!");
@@ -1139,8 +1125,6 @@ IntegrationRules::~IntegrationRules()
DeleteIntRuleArray(CubeIntRules);
DeleteIntRuleArray(PrismIntRules);
DeleteIntRuleArray(PyramidIntRules);
DeleteIntRuleArray(PentatopeIntRules);
DeleteIntRuleArray(TesseractIntRules);
}
@@ -1165,10 +1149,6 @@ IntegrationRule *IntegrationRules::GenerateIntegrationRule(int GeomType,
return PrismIntegrationRule(Order);
case Geometry::PYRAMID:
return PyramidIntegrationRule(Order);
case Geometry::PENTATOPE:
return PentatopeIntegrationRule(Order);
case Geometry::TESSERACT:
return TesseractIntegrationRule(Order);
case Geometry::INVALID:
case Geometry::NUM_GEOMETRIES:
MFEM_ABORT("Unknown type of reference element!");
@@ -1882,179 +1862,6 @@ IntegrationRule *IntegrationRules::CubeIntegrationRule(int Order)
return CubeIntRules[Order];
}
IntegrationRule *IntegrationRules::PentatopeIntegrationRule(int Order)
{
IntegrationRule *ir;
#ifdef MFEM_DEBUG_INTRULES
mfem::out << "requesting integration rules for pentatopes ( order = " << Order << " )!" << endl;
#endif
switch (Order)
{
case 0: // 1 point - degree 1
case 1:
PentatopeIntRules[0] = PentatopeIntRules[1] = ir = new IntegrationRule(1);
ir->AddPentMidPoint(0, 1./24.);
ir->SetOrder(1);
return ir;
case 2: // 5 points - degree 2 -- taken from https://doi.org/10.1016/j.camwa.2020.07.004
PentatopeIntRules[2] = ir = new IntegrationRule(5);
ir->AddPentPoints5(0, 0.11835034190722738822731940899757, 1/120.);
ir->SetOrder(2);
return ir;
case 3: // 15 points - degree 3 -- taken from https://doi.org/10.1016/j.camwa.2020.07.004
PentatopeIntRules[3] = ir = new IntegrationRule(15);
ir->AddPentPoints5(0, 0.05666638104005152637432374262971, 0.01971744594977651449108080328187 / 24.);
ir->AddPentPoints10(5, 0.08282378463560803594223358459203, 0.5 - 1.5 * 0.08282378463560803594223358459203, 0.09014127702511173789723386562400 / 24.);
ir->SetOrder(3);
return ir;
case 4: // 35 points - degree 5 -- taken from https://doi.org/10.1016/j.camwa.2020.07.004
case 5:
PentatopeIntRules[4] = PentatopeIntRules[5] = ir = new IntegrationRule(35);
ir->AddPentPoints5(0, 0.08639272923225102540634168235556, 0.05144687284129603743743075483508 / 24.);
ir->AddPentPoints10(5, 0.02401496720062019571417799568280, 0.5 - 1.5 * 0.02401496720062019571417799568280, 0.01075810672318828174753857496171 / 24.);
ir->AddPentPoints20(15, 0.29381800402893687440553094347706, 0.06247517556258090631882140542075, 0.03175922842808185514451579933848 / 24.);
ir->SetOrder(5);
return ir;
case 6: // 70 points - degree 6 -- taken from https://doi.org/10.1016/j.camwa.2020.07.004
PentatopeIntRules[6] = ir = new IntegrationRule(70);
ir->AddPentPoints5(0, 0.154743213149364, 0.027287104452858 / 24.);
ir->AddPentPoints5(5, 0.243583446244066, 0.030022493650412 / 24.);
ir->AddPentPoints10(10, 0.045742589279674, 0.5 - 1.5 * 0.045742589279674, 0.010857537843152 / 24.);
ir->AddPentPoints20(20, 0.034061388191316, 0.153237752298796, 0.004213752156913 / 24.);
ir->AddPentPoints30(40, 0.042203997139861, 0.211681755872075, 0.017353386263795 / 24.);
ir->SetOrder(6);
return ir;
case 7: // 126 points - degree 8 -- taken from https://doi.org/10.1016/j.camwa.2020.07.004
case 8:
PentatopeIntRules[7] = PentatopeIntRules[8] = ir = new IntegrationRule(126);
ir->AddPentMidPoint(0, 0.018477072894310 / 24.);
ir->AddPentPoints5(1, 0.041850193209872, 0.003356028785577 / 24.);
ir->AddPentPoints20(6, 0.013234490721597, 0.279965061732618, 0.001166950584118 / 24.);
ir->AddPentPoints20(26, 0.183538643543872, 0.051063845643639, 0.019804745119265 / 24.);
ir->AddPentPoints20(46, 0.311385773831175, 0.014631015332223, 0.005373375682319 / 24.);
ir->AddPentPoints30(66, 0.032042227982220, 0.160928155464441, 0.007544402046650 / 24.);
ir->AddPentPoints30(96, 0.088725307776945, 0.403464343042675, 0.007050309802142 / 24.);
ir->SetOrder(8);
return ir;
case -1:
{
//construct the higher integration rules with the duffy transformation --> 1d integral in time and a tet quad-rule w.r.t space
IntegrationRule *timeIR = SegmentIntegrationRule(Order + 2);
IntegrationRule *tetIR = TetrahedronIntegrationRule(Order);
int NIP = timeIR->GetNPoints() * tetIR->GetNPoints();
AllocIntRule(PentatopeIntRules, Order);
PentatopeIntRules[Order] = ir = new IntegrationRule(NIP);
#ifdef MFEM_DEBUG
mfem::out << "higher integration rules for pentatopes implemented with duffy ( order = " << Order << " ) --> " << NIP << " int. points!" << endl;
#endif
double xi,yi,zi,ti, weight;
int pos = 0;
for (int i=0; i<timeIR->GetNPoints(); i++)
{
ti = timeIR->IntPoint(i).x;
for (int j=0; j<tetIR->GetNPoints(); j++)
{
xi = (1. - ti) * tetIR->IntPoint(j).x;
yi = (1. - ti) * tetIR->IntPoint(j).y;
zi = (1. - ti) * tetIR->IntPoint(j).z;
weight = timeIR->IntPoint(i).weight * tetIR->IntPoint(j).weight * (1.-ti) *
(1.-ti) * (1.-ti);
#ifdef MFEM_DEBUG
if(weight<0) mfem::out << "warning weight is negative!" << endl;
#endif
ir->AddPentPoint(pos, xi,yi,zi,ti,weight);
pos++;
}
}
#ifdef MFEM_DEBUG_INTRULES
char str[256];
mfem::out << "The points and weights are:" << endl;
for (int k = 0; k < ir->Size(); ++k)
{
const IntegrationPoint &ip = ir->IntPoint(k);
sprintf(str, "{%.16f, {%.16f, %.16f, %.16f, %.16f}},", ip.weight, ip.x, ip.y, ip.z, ip.t);
mfem::out << str << endl;
}
#endif
// 2025 November: Don't we need "return ir;"? It was not there
return ir;
break;
}
default:
{
int i = (Order / 2) * 2 + 1; // Get closest odd # >= Order
AllocIntRule(PentatopeIntRules, i);
ir = new IntegrationRule;
ir->GrundmannMollerSimplexRule(i/2,4);
PentatopeIntRules[i-1] = PentatopeIntRules[i] = ir;
return ir;
}
}
return PentatopeIntRules[Order];
}
IntegrationRule *IntegrationRules::TesseractIntegrationRule(int Order)
{
int k, l, m, n, np, index;
int i = (Order / 2) * 2 + 1; // Get closest odd # >= Order
if (!HaveIntRule(SegmentIntRules, i))
{
SegmentIntegrationRule(i);
}
AllocIntRule(TesseractIntRules, i);
np = SegmentIntRules[i] -> GetNPoints();
TesseractIntRules[i-1] = TesseractIntRules[i] = new IntegrationRule(
np*np*np*np);
index = 0;
for (k = 0; k < np; k++)
for (l = 0; l < np; l++)
for (m = 0; m < np; m++)
for (n = 0; n < np; n++)
{
// index = ((k*np+l)*np+m)*np + n;
TesseractIntRules[i] -> IntPoint(index).x =
SegmentIntRules[i] -> IntPoint(n).x;
TesseractIntRules[i] -> IntPoint(index).y =
SegmentIntRules[i] -> IntPoint(m).x;
TesseractIntRules[i] -> IntPoint(index).z =
SegmentIntRules[i] -> IntPoint(l).x;
TesseractIntRules[i] -> IntPoint(index).t =
SegmentIntRules[i] -> IntPoint(k).x;
TesseractIntRules[i] -> IntPoint(index).weight =
SegmentIntRules[i] -> IntPoint(k).weight *
SegmentIntRules[i] -> IntPoint(l).weight *
SegmentIntRules[i] -> IntPoint(m).weight *
SegmentIntRules[i] -> IntPoint(n).weight;
index++;
}
TesseractIntRules[i]->SetOrder(i);
return TesseractIntRules[i];
}
IntegrationRule& NURBSMeshRules::GetElementRule(const int elem,
const int patch, const int *ijk,
Array<const KnotVector*> const& kv,
+4 -124
View File
@@ -34,18 +34,18 @@ class Mesh;
class IntegrationPoint
{
public:
real_t x, y, z, t, weight;
real_t x, y, z, weight;
int index;
void Init(int const i)
{
x = y = z = t = weight = 0.0;
x = y = z = weight = 0.0;
index = i;
}
void Set(const real_t *p, const int dim)
{
MFEM_ASSERT(1 <= dim && dim <= 4, "invalid dim: " << dim);
MFEM_ASSERT(1 <= dim && dim <= 3, "invalid dim: " << dim);
x = p[0];
if (dim > 1)
{
@@ -53,17 +53,13 @@ public:
if (dim > 2)
{
z = p[2];
if (dim > 3)
{
t = p[3];
}
}
}
}
void Get(real_t *p, const int dim) const
{
MFEM_ASSERT(1 <= dim && dim <= 4, "invalid dim: " << dim);
MFEM_ASSERT(1 <= dim && dim <= 3, "invalid dim: " << dim);
p[0] = x;
if (dim > 1)
{
@@ -71,10 +67,6 @@ public:
if (dim > 2)
{
p[2] = z;
if (dim > 3)
{
p[3] = t;
}
}
}
}
@@ -82,17 +74,6 @@ public:
void Set(const real_t x1, const real_t x2, const real_t x3, const real_t w)
{ x = x1; y = x2; z = x3; weight = w; }
void Set4w(const real_t *p) { x = p[0]; y = p[1]; z = p[2]; t = p[3]; weight = p[4]; }
void Set4w(const real_t x1, const real_t x2, const real_t x3, const real_t x4,
const real_t w)
{ x = x1; y = x2; z = x3; t = x4; weight = w; }
void Set4(const real_t *p) { x = p[0]; y = p[1]; z = p[2]; t = p[3]; }
void Set4(const real_t x1, const real_t x2, const real_t x3, const real_t x4)
{ x = x1; y = x2; z = x3; t = x4; }
void Set3w(const real_t *p) { x = p[0]; y = p[1]; z = p[2]; weight = p[3]; }
void Set3(const real_t x1, const real_t x2, const real_t x3)
@@ -238,103 +219,6 @@ private:
AddTetPoints6(off + 6, a, b, c, weight);
}
void AddPentMidPoint(const int off, const double weight)
{ IntPoint(off).Set4w(0.2, 0.2, 0.2, 0.2, weight); }
void AddPentPoint(const int off, const double x, const double y, const double z,
const double t, double weight)
{
IntPoint(off).Set4w(x, y, z, t, weight);
}
// given (a), add the permuations of (a,a,a,a,b), b = 1 - 4*a
void AddPentPoints5(const int off, const double a,
double weight)
{
const double b = 1. - 4 * a;
IntPoint(off + 0).Set4w(a, a, a, a, weight);
IntPoint(off + 1).Set4w(b, a, a, a, weight);
IntPoint(off + 2).Set4w(a, b, a, a, weight);
IntPoint(off + 3).Set4w(a, a, b, a, weight);
IntPoint(off + 4).Set4w(a, a, a, b, weight);
}
// given (a,b), add the permuations of (a,a,a,b,b)
void AddPentPoints10(const int off, const double a, const double b, double weight)
{
IntPoint(off + 0).Set4w(a, a, a, b, weight);
IntPoint(off + 1).Set4w(a, a, b, a, weight);
IntPoint(off + 2).Set4w(a, a, b, b, weight);
IntPoint(off + 3).Set4w(a, b, a, a, weight);
IntPoint(off + 4).Set4w(a, b, a, b, weight);
IntPoint(off + 5).Set4w(a, b, b, a, weight);
IntPoint(off + 6).Set4w(b, a, a, a, weight);
IntPoint(off + 7).Set4w(b, a, a, b, weight);
IntPoint(off + 8).Set4w(b, a, b, a, weight);
IntPoint(off + 9).Set4w(b, b, a, a, weight);
}
// given (a,b,c), add the permuations of (a,a,a,b,c), c = 1 - 3 a - b
void AddPentPoints20(const int off, const double a, const double b, double weight)
{
const double c = 1. - 3. * a - b;
IntPoint(off + 0).Set4w(a, a, a, b, weight);
IntPoint(off + 1).Set4w(a, a, a, c, weight);
IntPoint(off + 2).Set4w(a, a, b, a, weight);
IntPoint(off + 3).Set4w(a, a, b, c, weight);
IntPoint(off + 4).Set4w(a, a, c, a, weight);
IntPoint(off + 5).Set4w(a, a, c, b, weight);
IntPoint(off + 6).Set4w(a, b, a, a, weight);
IntPoint(off + 7).Set4w(a, b, a, c, weight);
IntPoint(off + 8).Set4w(a, b, c, a, weight);
IntPoint(off + 9).Set4w(a, c, a, a, weight);
IntPoint(off + 10).Set4w(a, c, a, b, weight);
IntPoint(off + 11).Set4w(a, c, b, a, weight);
IntPoint(off + 12).Set4w(b, a, a, a, weight);
IntPoint(off + 13).Set4w(b, a, a, c, weight);
IntPoint(off + 14).Set4w(b, a, c, a, weight);
IntPoint(off + 15).Set4w(b, c, a, a, weight);
IntPoint(off + 16).Set4w(c, a, a, a, weight);
IntPoint(off + 17).Set4w(c, a, a, b, weight);
IntPoint(off + 18).Set4w(c, a, b, a, weight);
IntPoint(off + 19).Set4w(c, b, a, a, weight);
}
// given (a,b,c), add the permutations of (a,a,b,b,c), c = 1 - 2 a - 2 b
void AddPentPoints30(const int off, const double a, const double b, double weight)
{
double c = 1. - 2. * a - 2. * b;
IntPoint(off + 0).Set4w(a, a, b, b, weight);
IntPoint(off + 1).Set4w(a, a, b, c, weight);
IntPoint(off + 2).Set4w(a, a, c, b, weight);
IntPoint(off + 3).Set4w(a, b, a, b, weight);
IntPoint(off + 4).Set4w(a, b, a, c, weight);
IntPoint(off + 5).Set4w(a, b, b, a, weight);
IntPoint(off + 6).Set4w(a, b, b, c, weight);
IntPoint(off + 7).Set4w(a, b, c, a, weight);
IntPoint(off + 8).Set4w(a, b, c, b, weight);
IntPoint(off + 9).Set4w(a, c, a, b, weight);
IntPoint(off + 10).Set4w(a, c, b, a, weight);
IntPoint(off + 11).Set4w(a, c, b, b, weight);
IntPoint(off + 12).Set4w(b, a, a, b, weight);
IntPoint(off + 13).Set4w(b, a, a, c, weight);
IntPoint(off + 14).Set4w(b, a, b, a, weight);
IntPoint(off + 15).Set4w(b, a, b, c, weight);
IntPoint(off + 16).Set4w(b, a, c, a, weight);
IntPoint(off + 17).Set4w(b, a, c, b, weight);
IntPoint(off + 18).Set4w(b, b, a, a, weight);
IntPoint(off + 19).Set4w(b, b, a, c, weight);
IntPoint(off + 20).Set4w(b, b, c, a, weight);
IntPoint(off + 21).Set4w(b, c, a, a, weight);
IntPoint(off + 22).Set4w(b, c, a, b, weight);
IntPoint(off + 23).Set4w(b, c, b, a, weight);
IntPoint(off + 24).Set4w(c, a, a, b, weight);
IntPoint(off + 25).Set4w(c, a, b, a, weight);
IntPoint(off + 26).Set4w(c, a, b, b, weight);
IntPoint(off + 27).Set4w(c, b, a, a, weight);
IntPoint(off + 28).Set4w(c, b, a, b, weight);
IntPoint(off + 29).Set4w(c, b, b, a, weight);
}
public:
IntegrationRule() :
Array<IntegrationPoint>() { }
@@ -546,8 +430,6 @@ private:
Array<IntegrationRule *> PyramidIntRules;
Array<IntegrationRule *> PrismIntRules;
Array<IntegrationRule *> CubeIntRules;
Array<IntegrationRule *> PentatopeIntRules;
Array<IntegrationRule *> TesseractIntRules;
#if defined(MFEM_THREAD_SAFE) && defined(MFEM_USE_OPENMP)
Array<omp_lock_t> IntRuleLocks;
@@ -582,8 +464,6 @@ private:
IntegrationRule *PyramidIntegrationRule(int Order);
IntegrationRule *PrismIntegrationRule(int Order);
IntegrationRule *CubeIntegrationRule(int Order);
IntegrationRule *PentatopeIntegrationRule(int Order);
IntegrationRule *TesseractIntegrationRule(int Order);
public:
/// Sets initial sizes for the integration rule arrays, but rules
-6
View File
@@ -249,12 +249,6 @@ public:
FiniteElementSpace #fes. */
LinearForm &operator=(const Vector &v);
/// Change ownership of linear form integrators.
void SetIntegratorOwnership(int _extern_lfs)
{
extern_lfs = _extern_lfs;
}
/// Destroys linear form.
~LinearForm();
};
+1 -51
View File
@@ -174,6 +174,7 @@ public:
using LinearFormIntegrator::AssembleRHSElementVect;
};
/// Class for boundary integration $ L(v) := (g, v) $
class BoundaryLFIntegrator : public LinearFormIntegrator
{
@@ -781,57 +782,6 @@ public:
}
};
class MatFEDomainLFIntegrator : public LinearFormIntegrator
{
private:
MatrixCoefficient &QF;
DenseMatrix vshape;
DenseMatrix mat;
Vector matToVec;
public:
MatFEDomainLFIntegrator (MatrixCoefficient &F) : QF(F) { }
virtual void AssembleRHSElementVect(const FiniteElement &el,
ElementTransformation &Tr,
Vector &elvect)
{
int dof = el.GetDof();
int dim = el.GetDim();
vshape.SetSize(dof,dim*dim);
mat.SetSize(dim,dim);
matToVec.SetSize(dim*dim);
elvect.SetSize(dof);
elvect = 0.0;
const IntegrationRule *ir = IntRule;
if (ir == NULL)
{
// int intorder = 2*el.GetOrder() - 1; // ok for O(h^{k+1}) conv. in L2
int intorder = 2*el.GetOrder() + 2;
ir = &IntRules.Get(el.GetGeomType(), intorder);
}
for (int i = 0; i < ir->GetNPoints(); i++)
{
const IntegrationPoint &ip = ir->IntPoint(i);
Tr.SetIntPoint (&ip);
el.CalcVShape(Tr, vshape);
QF.Eval (mat, Tr, ip);
mat *= ip.weight * fabs(Tr.Weight());
for (int ki=0; ki<dim; ki++) for (int kj=0; kj<dim; kj++) { matToVec(dim*ki+kj) = mat(ki,kj); }
vshape.AddMult(matToVec, elvect);
}
}
using LinearFormIntegrator::AssembleRHSElementVect;
};
}
-12
View File
@@ -330,18 +330,6 @@ public:
/// Compute y += a (P^t A P) x, where x and y are vectors on the true dofs
void TrueAddMult(const Vector &x, Vector &y, const real_t a = 1.0) const;
using MixedBilinearForm::Update;
virtual void Update(ParFiniteElementSpace *ntr_fes = NULL,
ParFiniteElementSpace *nte_fes = NULL)
{
MixedBilinearForm::Update(ntr_fes, nte_fes);
if (ntr_fes && nte_fes )
{
trial_pfes = ntr_fes;
test_pfes = nte_fes;
}
}
virtual ~ParMixedBilinearForm() { }
};
+6 -269
View File
@@ -174,11 +174,10 @@ void ParFiniteElementSpace::Construct()
ngfdofs = pncmesh->GetNGhostFaces()
* fec->DofForGeometry(Geometry::Type::SQUARE);
}
ngpdofs = 0;
// total number of ghost DOFs. Ghost DOFs start at index 'ndofs', i.e.,
// after all regular DOFs
ngdofs = ngvdofs + ngedofs + ngfdofs + ngpdofs;
ngdofs = ngvdofs + ngedofs + ngfdofs;
// get P and R matrices, initialize DOF offsets, etc. NOTE: in the NC
// case this needs to be done here to get the number of true DOFs
@@ -236,11 +235,8 @@ void ParFiniteElementSpace::GetGroupComm(
int gr;
int ng = pmesh->GetNGroups();
int nvd, ned, ntd = 0, nqd = 0;
int nted = 0;
Array<int> dofs;
int dim = pmesh->Dimension();
int group_ldof_counter;
Table &group_ldof = gc.GroupLDofTable();
@@ -257,10 +253,6 @@ void ParFiniteElementSpace::GetGroupComm(
{
nqd = fec->DofForGeometry(Geometry::SQUARE);
}
if (mesh->HasGeometry(Geometry::TETRAHEDRON) && dim > 3)
{
nted = fec->DofForGeometry(Geometry::TETRAHEDRON);
}
}
if (g_ldof_sign)
@@ -277,11 +269,6 @@ void ParFiniteElementSpace::GetGroupComm(
group_ldof_counter += ned * pmesh->GroupNEdges(gr);
group_ldof_counter += ntd * pmesh->GroupNTriangles(gr);
group_ldof_counter += nqd * pmesh->GroupNQuadrilaterals(gr);
if (dim > 3)
{
group_ldof_counter += nted * pmesh->GroupNTetrahedra(
gr); // FIXME: ensure that tet-group is always build
}
}
if (ldof_type)
{
@@ -295,14 +282,13 @@ void ParFiniteElementSpace::GetGroupComm(
group_ldof.GetI()[0] = group_ldof.GetI()[1] = 0;
for (gr = 1; gr < ng; gr++)
{
int j, k, l, m, o, nv, ne, nt, nq, nte;
int j, k, l, m, o, nv, ne, nt, nq;
const int *ind;
nv = pmesh->GroupNVertices(gr);
ne = pmesh->GroupNEdges(gr);
nt = pmesh->GroupNTriangles(gr);
nq = pmesh->GroupNQuadrilaterals(gr);
nte = (dim>3) ? pmesh->GroupNTetrahedra(gr) : 0; // FIXME
// vertices
if (nvd > 0)
@@ -376,14 +362,7 @@ void ParFiniteElementSpace::GetGroupComm(
pmesh->GroupTriangle(gr, j, k, o);
dofs.SetSize(ntd);
if (dim == 4)
{
m = nvdofs+nedofs+pdofs[k];
}
else
{
m = nvdofs + nedofs + FirstFaceDof(k);
}
m = nvdofs + nedofs + FirstFaceDof(k);
ind = fec->DofOrderForOrientation(Geometry::TRIANGLE, o);
for (l = 0; l < ntd; l++)
{
@@ -451,45 +430,6 @@ void ParFiniteElementSpace::GetGroupComm(
}
}
// tetrahedra (4D)
if (nted > 0)
{
for (j = 0; j < nte; j++)
{
pmesh->GroupTetrahedron(gr, j, k, o);
dofs.SetSize(nted);
m = nvdofs+nedofs+npdofs+ FirstFaceDof(k);
ind = fec->DofOrderForOrientation(
mesh->GetFaceGeometry(k), o);
for (l = 0; l < nted; l++)
{
if (ind[l] < 0)
{
dofs[l] = m + (-1-ind[l]);
if (g_ldof_sign)
{
(*g_ldof_sign)[dofs[l]] = -1;
}
}
else
{
dofs[l] = m + ind[l];
}
}
if (ldof_type)
{
DofsToVDofs(dofs);
}
for (l = 0; l < dofs.Size(); l++)
{
group_ldof.GetJ()[group_ldof_counter++] = dofs[l];
}
}
}
group_ldof.GetI()[gr+1] = group_ldof_counter;
}
@@ -711,30 +651,6 @@ void ParFiniteElementSpace::GetSharedQuadrilateralDofs(
}
}
void ParFiniteElementSpace::GetSharedTetrahedronDofs(
int group, int fi, Array<int> &dofs) const
{
int l_face, ori;
MFEM_ASSERT(0 <= fi &&
fi < pmesh->GroupNTetrahedra(group), "invalid face index");
pmesh->GroupTetrahedron(group, fi, l_face, ori);
if (ori == 0)
{
GetFaceDofs(l_face, dofs);
}
else
{
Array<int> rdofs;
fec->SubDofOrder(pmesh->GetFaceGeometry(l_face), 2, ori, dofs);
GetFaceDofs(l_face, rdofs);
for (int i = 0; i < dofs.Size(); i++)
{
const int di = dofs[i];
dofs[i] = (di >= 0) ? rdofs[di] : -1-rdofs[-1-di];
}
}
}
void ParFiniteElementSpace::GenerateGlobalOffsets() const
{
MFEM_ASSERT(Conforming(), "wrong code path");
@@ -1822,115 +1738,6 @@ void ParFiniteElementSpace::GetGhostFaceDofs(const MeshId &face_id,
}
}
void ParFiniteElementSpace::GetGhostFaceDofs4D(const MeshId &face_id,
Array<int> &dofs) const
{
#if 0
MFEM_ASSERT(mesh->GetFaceBaseGeometry(0) == Geometry::TETRAHEDRON, "");
int nv = fec->DofForGeometry(Geometry::POINT);
int ne = fec->DofForGeometry(Geometry::SEGMENT);
int np = fec->DofForGeometry(Geometry::TRIANGLE);
int nf = fec->DofForGeometry(Geometry::TETRAHEDRON);
dofs.SetSize(4*nv + 6*ne + 4*np + nf);
int V[4], E[6], Eo[6], P[4], Po[4];
pmesh->pncmesh->GetFaceVerticesEdgesPlanars(face_id, V, E, Eo, P, Po);
int offset = 0;
for (int i = 0; i < 4; i++)
{
int ghost = pncmesh->GetNVertices();
int first = (V[i] < ghost) ? V[i]*nv : (ndofs + (V[i] - ghost)*nv);
for (int j = 0; j < nv; j++)
{
dofs[offset++] = first + j;
}
}
for (int i = 0; i < 6; i++)
{
int ghost = pncmesh->GetNEdges();
int first = (E[i] < ghost) ? nvdofs + E[i]*ne
/* */ : ndofs + ngvdofs + (E[i] - ghost)*ne;
const int *ind = fec->DofOrderForOrientation(Geometry::SEGMENT, Eo[i]);
for (int j = 0; j < ne; j++)
{
dofs[offset++] = (ind[j] >= 0) ? (first + ind[j])
/* */ : (-1 - (first + (-1 - ind[j])));
}
}
for (int i = 0; i < 4; i++)
{
// TODO higher order
int ghost = pncmesh->GetNPlanars();
int first = (P[i] < ghost) ? nvdofs + nedofs + P[i]*np
/* */ : ndofs + ngvdofs + nedofs + ngedofs + (P[i] - ghost)*np;
// const int *ind = fec->DofOrderForOrientation(Geometry::SEGMENT, Eo[i]);
for (int j = 0; j < np; j++)
{
dofs[offset++] = first + j;
}
}
int first = ndofs + ngvdofs + ngedofs +
(face_id.index - pncmesh->GetNFaces())*nf;
for (int j = 0; j < nf; j++)
{
dofs[offset++] = first + j;
}
#endif
}
void ParFiniteElementSpace::GetGhostPlanarDofs(const MeshId &planar_id,
Array<int> &dofs) const
{
#if 0
MFEM_ASSERT(mesh->GetPlanarBaseGeometry(0) == Geometry::TRIANGLE, "");
int nv = fec->DofForGeometry(Geometry::POINT);
int ne = fec->DofForGeometry(Geometry::SEGMENT);
int np = fec->DofForGeometry(Geometry::TRIANGLE);
dofs.SetSize(3*nv + 3*ne + np);
int V[3], E[3], Eo[3];
pmesh->pncmesh->GetPlanarVerticesEdges(planar_id, V, E, Eo);
int offset = 0;
for (int i = 0; i < 3; i++)
{
int ghost = pncmesh->GetNVertices();
int first = (V[i] < ghost) ? V[i]*nv : (ndofs + (V[i] - ghost)*nv);
for (int j = 0; j < nv; j++)
{
dofs[offset++] = first + j;
}
}
for (int i = 0; i < 3; i++)
{
int ghost = pncmesh->GetNEdges();
int first = (E[i] < ghost) ? nvdofs + E[i]*ne
/* */ : ndofs + ngvdofs + (E[i] - ghost)*ne;
const int *ind = fec->DofOrderForOrientation(Geometry::SEGMENT, Eo[i]);
for (int j = 0; j < ne; j++)
{
dofs[offset++] = (ind[j] >= 0) ? (first + ind[j])
/* */ : (-1 - (first + (-1 - ind[j])));
}
}
int first = ndofs + ngvdofs + ngedofs +
(planar_id.index - pncmesh->GetNPlanars())*np;
for (int j = 0; j < np; j++)
{
dofs[offset++] = first + j;
}
#endif
}
void ParFiniteElementSpace::GetGhostDofs(int entity, const MeshId &id,
Array<int> &dofs) const
{
@@ -1943,19 +1750,6 @@ void ParFiniteElementSpace::GetGhostDofs(int entity, const MeshId &id,
}
}
void ParFiniteElementSpace::GetGhostDofs4D(int entity, const MeshId &id,
Array<int> &dofs) const
{
// helper to get ghost vertex, ghost edge or ghost face DOFs
switch (entity)
{
case 0: GetGhostVertexDofs(id, dofs); break;
case 1: GetGhostEdgeDofs(id, dofs); break;
case 2: GetGhostPlanarDofs(id, dofs); break;
case 3: GetGhostFaceDofs4D(id, dofs); break;
}
}
void ParFiniteElementSpace::GetBareDofs(int entity, int index,
Array<int> &dofs) const
{
@@ -2006,55 +1800,6 @@ void ParFiniteElementSpace::GetBareDofs(int entity, int index,
}
}
void ParFiniteElementSpace::GetBareDofs4D(int entity, int index,
Array<int> &dofs) const
{
#if 0
int ned, ghost, first;
switch (entity)
{
case 0:
ned = fec->DofForGeometry(Geometry::POINT);
ghost = pncmesh->GetNVertices();
first = (index < ghost)
? index*ned // regular vertex
: ndofs + (index - ghost)*ned; // ghost vertex
break;
case 1:
ned = fec->DofForGeometry(Geometry::SEGMENT);
ghost = pncmesh->GetNEdges();
first = (index < ghost)
? nvdofs + index*ned // regular edge
: ndofs + ngvdofs + (index - ghost)*ned; // ghost edge
break;
case 2:
ned = fec->DofForGeometry(mesh->GetPlanarBaseGeometry(0));
ghost = pncmesh->GetNPlanars();
first = (index < ghost)
? nvdofs + nedofs + index*ned
: ndofs + ngvdofs + ngedofs + (index - ghost)*ned;
break;
default:
ned = fec->DofForGeometry(mesh->GetFaceBaseGeometry(0));
ghost = pncmesh->GetNFaces();
first = (index < ghost)
? nvdofs + nedofs + npdofs + index*ned // regular face
: ndofs + ngvdofs + ngedofs + ngpdofs + (index - ghost)*ned; // ghost
break;
}
dofs.SetSize(ned);
for (int i = 0; i < ned; i++)
{
dofs[i] = first + i;
}
#endif
}
int ParFiniteElementSpace::PackDof(int entity, int index, int edof) const
{
// DOFs are ordered as follows:
@@ -2661,7 +2406,7 @@ int ParFiniteElementSpace
Array<int> *dof_tdof,
bool partial) const
{
const bool dg = (nvdofs == 0 && nedofs == 0 && nfdofs == 0 && npdofs == 0);
const bool dg = (nvdofs == 0 && nedofs == 0 && nfdofs == 0);
#ifdef MFEM_PMATRIX_STATS
n_msgs_sent = n_msgs_recv = 0;
@@ -2724,7 +2469,7 @@ int ParFiniteElementSpace
list.OrientedPointMatrix(sf, T.GetPointMat());
fe->GetLocalInterpolation(T, I);
// mfem::out << "**************\n";
// make each slave DOF dependent on all master DOFs
AddDependencies(deps, master_dofs, slave_dofs, I);
}
@@ -2752,14 +2497,7 @@ int ParFiniteElementSpace
GroupId owner = pncmesh->GetEntityOwnerId(entity, id.index);
GroupId group = pncmesh->GetEntityGroupId(entity, id.index);
if (pmesh->Dimension() <= 3)
{
GetBareDofs(entity, id.index, dofs);
}
else
{
GetBareDofs4D(entity, id.index, dofs);
}
GetBareDofs(entity, id.index, dofs);
for (auto dof : dofs)
{
@@ -2768,7 +2506,6 @@ int ParFiniteElementSpace
}
};
// initialize dof_group[], dof_owner[] in sequence
for (int entity : {0,1,2})
{
+1 -7
View File
@@ -45,7 +45,7 @@ private:
mutable int ltdof_size;
/// Number of vertex/edge/face/total ghost DOFs (nonconforming case).
int ngvdofs, ngedofs, ngfdofs, ngdofs, ngpdofs;
int ngvdofs, ngedofs, ngfdofs, ngdofs;
/// The group of each local dof.
Array<int> ldof_group;
@@ -126,13 +126,8 @@ private:
void GetGhostFaceDofs(const MeshId &face_id, Array<int> &dofs) const;
void GetGhostDofs(int entity, const MeshId &id, Array<int> &dofs) const;
void GetGhostFaceDofs4D(const MeshId &face_id, Array<int> &dofs) const;
void GetGhostPlanarDofs(const MeshId &planar_id, Array<int> &dofs) const;
void GetGhostDofs4D(int entity, const MeshId &id, Array<int> &dofs) const;
/// Return the dofs associated with the interior of the given mesh entity.
void GetBareDofs(int entity, int index, Array<int> &dofs) const;
void GetBareDofs4D(int entity, int index, Array<int> &dofs) const;
int PackDof(int entity, int index, int edof) const;
void UnpackDof(int dof, int &entity, int &index, int &edof) const;
@@ -327,7 +322,6 @@ public:
void GetSharedEdgeDofs(int group, int ei, Array<int> &dofs) const;
void GetSharedTriangleDofs(int group, int fi, Array<int> &dofs) const;
void GetSharedQuadrilateralDofs(int group, int fi, Array<int> &dofs) const;
void GetSharedTetrahedronDofs(int group, int fi, Array<int> &dofs) const;
/// The true dof-to-dof interpolation matrix
HypreParMatrix *Dof_TrueDof_Matrix() const
+4 -5
View File
@@ -39,10 +39,9 @@ ParGridFunction::ParGridFunction(ParMesh *pmesh, const GridFunction *gf,
{
const FiniteElementSpace *glob_fes = gf->FESpace();
// duplicate the FiniteElementCollection from 'gf'
fec_owned = FiniteElementCollection::New(glob_fes->FEColl()->Name());
fec = FiniteElementCollection::New(glob_fes->FEColl()->Name());
// create a local ParFiniteElementSpace from the global one:
fes = pfes = new ParFiniteElementSpace(pmesh, glob_fes, partitioning,
fec_owned);
fes = pfes = new ParFiniteElementSpace(pmesh, glob_fes, partitioning, fec);
SetSize(pfes->GetVSize());
if (partitioning)
@@ -82,7 +81,7 @@ ParGridFunction::ParGridFunction(ParMesh *pmesh, std::istream &input)
: GridFunction(pmesh, input)
{
// Convert the FiniteElementSpace, fes, to a ParFiniteElementSpace:
pfes = new ParFiniteElementSpace(pmesh, fec_owned, fes->GetVDim(),
pfes = new ParFiniteElementSpace(pmesh, fec, fes->GetVDim(),
fes->GetOrdering());
delete fes;
fes = pfes;
@@ -521,7 +520,7 @@ void ParGridFunction::CountElementsPerVDof(Array<int> &elem_per_vdof) const
}
void ParGridFunction::GetDerivative(int comp, int der_comp,
ParGridFunction &der) const
ParGridFunction &der)
{
Array<int> overlap;
AccumulateAndCountDerivativeValues(comp, der_comp, der, overlap);
+1 -1
View File
@@ -231,7 +231,7 @@ public:
void CountElementsPerVDof(Array<int> &elem_per_vdof) const override;
/// Parallel version of GridFunction::GetDerivative(); see its documentation.
void GetDerivative(int comp, int der_comp, ParGridFunction &der) const;
void GetDerivative(int comp, int der_comp, ParGridFunction &der);
/** Sets the output vector @a dof_vals to the values of the degrees of
freedom of element @a el. If @a el is greater than or equal to the number
+124 -238
View File
@@ -2949,15 +2949,6 @@ void TMOP_Integrator::EnableSurfaceFitting(const GridFunction &s0,
MFEM_VERIFY(surf_fit_pos == NULL,
"Using both fitting approaches is not supported.");
const int dim = s0.FESpace()->GetMesh()->Dimension();
Mesh *mesh = s0.FESpace()->GetMesh();
MFEM_VERIFY(mesh->GetNodes()->Size() == dim*s0.Size(),
"Mesh and level-set polynomial order must be the same.");
const H1_FECollection *fec = dynamic_cast<const H1_FECollection *>
(s0.FESpace()->FEColl());
MFEM_VERIFY(fec, "Only H1_FECollection is supported for the surface fitting "
"grid function.");
delete surf_fit_gf;
surf_fit_gf = new GridFunction(s0);
surf_fit_gf->CountElementsPerVDof(surf_fit_dof_count);
@@ -2996,24 +2987,12 @@ void TMOP_Integrator::EnableSurfaceFitting(const GridFunction &pos,
void TMOP_Integrator::EnableSurfaceFitting(const ParGridFunction &s0,
const Array<bool> &smarker,
Coefficient &coeff,
AdaptivityEvaluator &ae,
AdaptivityEvaluator *aegrad,
AdaptivityEvaluator *aehess)
AdaptivityEvaluator &ae)
{
// To have both we must duplicate the markers.
MFEM_VERIFY(surf_fit_pos == NULL,
"Using both fitting approaches is not supported.");
const int dim = s0.FESpace()->GetMesh()->Dimension();
ParMesh *pmesh = s0.ParFESpace()->GetParMesh();
MFEM_VERIFY(pmesh->GetNodes()->Size() == dim*s0.Size(),
"Mesh and level-set polynomial order must be the same.");
const H1_FECollection *fec = dynamic_cast<const H1_FECollection *>
(s0.FESpace()->FEColl());
MFEM_VERIFY(fec, "Only H1_FECollection is supported for the surface fitting "
"grid function.");
delete surf_fit_gf;
surf_fit_gf = new GridFunction(s0);
s0.CountElementsPerVDof(surf_fit_dof_count);
@@ -3021,80 +3000,11 @@ void TMOP_Integrator::EnableSurfaceFitting(const ParGridFunction &s0,
surf_fit_coeff = &coeff;
surf_fit_eval = &ae;
surf_fit_eval->SetParMetaInfo(*pmesh, *s0.ParFESpace());
surf_fit_eval->SetParMetaInfo(*s0.ParFESpace()->GetParMesh(),
*s0.ParFESpace());
surf_fit_eval->SetInitialField
(*surf_fit_gf->FESpace()->GetMesh()->GetNodes(), *surf_fit_gf);
if (!aegrad) { return; }
MFEM_VERIFY(aehess, "AdaptivityEvaluator for Hessians must be provided too.");
ParFiniteElementSpace *fes = s0.ParFESpace();
// FE space for gradients.
delete surf_fit_grad;
H1_FECollection *fec_grad = new H1_FECollection(fec->GetOrder(), dim,
fec->GetBasisType());
ParFiniteElementSpace *fes_grad = new ParFiniteElementSpace(pmesh, fec_grad,
dim);
// Initial gradients.
surf_fit_grad = new GridFunction(fes_grad);
surf_fit_grad->MakeOwner(fec_grad);
for (int d = 0; d < dim; d++)
{
ParGridFunction surf_fit_grad_comp(fes, surf_fit_grad->GetData()+d*s0.Size());
s0.GetDerivative(1, d, surf_fit_grad_comp);
}
surf_fit_eval_grad = aegrad;
surf_fit_eval_grad->SetParMetaInfo(*pmesh, *fes_grad);
surf_fit_eval_grad->SetInitialField(*pmesh->GetNodes(), *surf_fit_grad);
// FE space for Hessians.
delete surf_fit_hess;
H1_FECollection *fec_hess = new H1_FECollection(fec->GetOrder(), dim,
fec->GetBasisType());
ParFiniteElementSpace *fes_hess = new ParFiniteElementSpace(pmesh, fec_hess,
dim*dim);
// Initial Hessians.
surf_fit_hess = new GridFunction(fes_hess);
surf_fit_hess->MakeOwner(fec_hess);
int id = 0;
for (int d = 0; d < dim; d++)
{
for (int idir = 0; idir < dim; idir++)
{
ParGridFunction surf_fit_grad_comp(fes,
surf_fit_grad->GetData()+d*s0.Size());
ParGridFunction surf_fit_hess_comp(fes,
surf_fit_hess->GetData()+id*s0.Size());
surf_fit_grad_comp.GetDerivative(1, idir, surf_fit_hess_comp);
id++;
}
}
surf_fit_eval_hess = aehess;
surf_fit_eval_hess->SetParMetaInfo(*pmesh, *fes_hess);
surf_fit_eval_hess->SetInitialField(*pmesh->GetNodes(), *surf_fit_hess);
// Store DOF indices that are marked for fitting. Used to reduce work for
// transferring information between source/background and current mesh.
surf_fit_marker_dof_index.SetSize(0);
#ifdef MFEM_USE_GSLIB
if (dynamic_cast<InterpolatorFP *>(surf_fit_eval) &&
dynamic_cast<InterpolatorFP *>(surf_fit_eval_grad) &&
dynamic_cast<InterpolatorFP *>(surf_fit_eval_hess))
{
for (int i = 0; i < surf_fit_marker->Size(); i++)
{
if ((*surf_fit_marker)[i] == true)
{
surf_fit_marker_dof_index.Append(i);
}
}
}
#endif
*surf_fit_grad = 0.0;
*surf_fit_hess = 0.0;
surf_fit_gf_bg = false;
}
void TMOP_Integrator::EnableSurfaceFittingFromSource(
@@ -3112,17 +3022,16 @@ void TMOP_Integrator::EnableSurfaceFittingFromSource(
// Setup for level set function
delete surf_fit_gf;
surf_fit_gf = new GridFunction(s0);
*surf_fit_gf = 0.0;
surf_fit_marker = &smarker;
surf_fit_coeff = &coeff;
surf_fit_eval = &ae;
surf_fit_gf_bg = true;
surf_fit_eval->SetParMetaInfo(*s_bg.ParFESpace()->GetParMesh(),
*s_bg.ParFESpace());
surf_fit_eval->SetInitialField
(*s_bg.FESpace()->GetMesh()->GetNodes(), s_bg);
GridFunction *nodes = s0.FESpace()->GetMesh()->GetNodes();
surf_fit_eval->ComputeAtNewPosition(*nodes, *surf_fit_gf,
nodes->FESpace()->GetOrdering());
// Setup for gradient on background mesh
MFEM_VERIFY(s_bg_grad.ParFESpace()->GetOrdering() ==
@@ -3132,11 +3041,11 @@ void TMOP_Integrator::EnableSurfaceFittingFromSource(
delete surf_fit_grad;
surf_fit_grad = new GridFunction(s0_grad);
*surf_fit_grad = 0.0;
surf_fit_eval_grad = &age;
surf_fit_eval_hess = &ahe;
surf_fit_eval_grad->SetParMetaInfo(*s_bg_grad.ParFESpace()->GetParMesh(),
*s_bg_grad.ParFESpace());
surf_fit_eval_grad->SetInitialField
surf_fit_eval_bg_grad = &age;
surf_fit_eval_bg_hess = &ahe;
surf_fit_eval_bg_grad->SetParMetaInfo(*s_bg_grad.ParFESpace()->GetParMesh(),
*s_bg_grad.ParFESpace());
surf_fit_eval_bg_grad->SetInitialField
(*s_bg_grad.FESpace()->GetMesh()->GetNodes(), s_bg_grad);
// Setup for Hessian on background mesh
@@ -3147,9 +3056,9 @@ void TMOP_Integrator::EnableSurfaceFittingFromSource(
delete surf_fit_hess;
surf_fit_hess = new GridFunction(s0_hess);
*surf_fit_hess = 0.0;
surf_fit_eval_hess->SetParMetaInfo(*s_bg_hess.ParFESpace()->GetParMesh(),
*s_bg_hess.ParFESpace());
surf_fit_eval_hess->SetInitialField
surf_fit_eval_bg_hess->SetParMetaInfo(*s_bg_hess.ParFESpace()->GetParMesh(),
*s_bg_hess.ParFESpace());
surf_fit_eval_bg_hess->SetInitialField
(*s_bg_hess.FESpace()->GetMesh()->GetNodes(), s_bg_hess);
// Count number of zones that share each of the DOFs
@@ -3954,7 +3863,7 @@ void TMOP_Integrator::AssembleElemVecSurfFit(const FiniteElement &el_x,
Vector sigma_e(dof_s);
DenseMatrix surf_fit_grad_e(dof_s, dim);
if (surf_fit_gf)
if (surf_fit_gf || surf_fit_gf_bg)
{
surf_fit_gf->GetSubVector(vdofs, sigma_e);
@@ -3962,7 +3871,7 @@ void TMOP_Integrator::AssembleElemVecSurfFit(const FiniteElement &el_x,
// The FE coefficients of the gradient go in surf_fit_grad_e.
Vector grad_ptr(surf_fit_grad_e.GetData(), dof_s * dim);
DenseMatrix grad_phys; // This will be (dof x dim, dof).
if (surf_fit_grad)
if (surf_fit_gf_bg)
{
surf_fit_grad->FESpace()->GetElementVDofs(el_id, dofs);
surf_fit_grad->GetSubVector(dofs, grad_ptr);
@@ -4036,7 +3945,7 @@ void TMOP_Integrator::AssembleElemGradSurfFit(const FiniteElement &el_x,
Vector sigma_e(dof_s);
DenseMatrix surf_fit_grad_e(dof_s, dim);
DenseMatrix surf_fit_hess_e(dof_s, dim*dim);
if (surf_fit_gf)
if (surf_fit_gf || surf_fit_gf_bg)
{
surf_fit_gf->GetSubVector(vdofs, sigma_e);
@@ -4044,7 +3953,7 @@ void TMOP_Integrator::AssembleElemGradSurfFit(const FiniteElement &el_x,
// The FE coefficients of the gradient go in surf_fit_grad_e.
Vector grad_ptr(surf_fit_grad_e.GetData(), dof_s * dim);
DenseMatrix grad_phys; // This will be (dof x dim, dof).
if (surf_fit_grad)
if (surf_fit_gf_bg)
{
surf_fit_grad->FESpace()->GetElementVDofs(el_id, dofs);
surf_fit_grad->GetSubVector(dofs, grad_ptr);
@@ -4058,7 +3967,7 @@ void TMOP_Integrator::AssembleElemGradSurfFit(const FiniteElement &el_x,
// Project the Hessian of sigma in the same space.
// The FE coefficients of the Hessian go in surf_fit_hess_e.
Vector hess_ptr(surf_fit_hess_e.GetData(), dof_s*dim*dim);
if (surf_fit_hess)
if (surf_fit_gf_bg)
{
surf_fit_hess->FESpace()->GetElementVDofs(el_id, dofs);
surf_fit_hess->GetSubVector(dofs, hess_ptr);
@@ -4085,7 +3994,7 @@ void TMOP_Integrator::AssembleElemGradSurfFit(const FiniteElement &el_x,
Tpr.SetIntPoint(&ip);
real_t w = surf_fit_normal * surf_fit_coeff->Eval(Tpr, ip);
if (surf_fit_gf)
if (surf_fit_gf || surf_fit_gf_bg)
{
Vector gg_ptr(surf_fit_hess_s.GetData(), dim * dim);
surf_fit_hess_e.GetRow(s, gg_ptr);
@@ -4467,130 +4376,6 @@ void TMOP_Integrator::ComputeMinJac(const Vector &x,
dx = detv_avg_min / dxscale;
}
void TMOP_Integrator::RemapSurfaceFittingLevelSetAtNodes(const Vector &new_x,
int new_x_ordering)
{
if (!surf_fit_gf) { return; }
if (surf_fit_marker_dof_index.Size())
{
// Interpolate information only at DOFs marked for fitting.
const int dim = surf_fit_gf->FESpace()->GetMesh()->Dimension();
const int cnt = surf_fit_marker_dof_index.Size();
const int total_cnt = new_x.Size()/dim;
Vector new_x_sorted(cnt*dim);
if (new_x_ordering == 0)
{
for (int d = 0; d < dim; d++)
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
new_x_sorted(i + d*cnt) = new_x(dof_index + d*total_cnt);
}
}
}
else
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
for (int d = 0; d < dim; d++)
{
new_x_sorted(d + i*dim) = new_x(d + dof_index*dim);
}
}
}
// Interpolate values of the LS.
Vector surf_fit_gf_int, surf_fit_grad_int, surf_fit_hess_int;
surf_fit_eval->ComputeAtNewPosition(new_x_sorted, surf_fit_gf_int,
new_x_ordering);
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
(*surf_fit_gf)[dof_index] = surf_fit_gf_int(i);
}
// Interpolate gradients of the LS.
surf_fit_eval_grad->ComputeAtNewPosition(new_x_sorted, surf_fit_grad_int,
new_x_ordering);
// Assumes surf_fit_grad and surf_fit_gf share the same space
const int grad_dim = surf_fit_grad->VectorDim();
const int grad_cnt = surf_fit_grad->Size()/grad_dim;
if (surf_fit_grad->FESpace()->GetOrdering() == Ordering::byNODES)
{
for (int d = 0; d < grad_dim; d++)
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
(*surf_fit_grad)[dof_index + d*grad_cnt] =
surf_fit_grad_int(i + d*cnt);
}
}
}
else
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
for (int d = 0; d < grad_dim; d++)
{
(*surf_fit_grad)[dof_index*grad_dim + d] =
surf_fit_grad_int(i*grad_dim + d);
}
}
}
// Interpolate Hessians of the LS.
surf_fit_eval_hess->ComputeAtNewPosition(new_x_sorted, surf_fit_hess_int,
new_x_ordering);
// Assumes surf_fit_hess and surf_fit_gf share the same space
const int hess_dim = surf_fit_hess->VectorDim();
const int hess_cnt = surf_fit_hess->Size()/hess_dim;
if (surf_fit_hess->FESpace()->GetOrdering() == Ordering::byNODES)
{
for (int d = 0; d < hess_dim; d++)
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
(*surf_fit_hess)[dof_index + d*hess_cnt] =
surf_fit_hess_int(i + d*cnt);
}
}
}
else
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
for (int d = 0; d < hess_dim; d++)
{
(*surf_fit_hess)[dof_index*hess_dim + d] =
surf_fit_hess_int(i*hess_dim + d);
}
}
}
}
else
{
surf_fit_eval->ComputeAtNewPosition(new_x, *surf_fit_gf, new_x_ordering);
if (surf_fit_eval_grad)
{
surf_fit_eval_grad->ComputeAtNewPosition(new_x, *surf_fit_grad,
new_x_ordering);
}
if (surf_fit_eval_hess)
{
surf_fit_eval_hess->ComputeAtNewPosition(new_x, *surf_fit_hess,
new_x_ordering);
}
}
}
void TMOP_Integrator::
UpdateAfterMeshPositionChange(const Vector &x_new,
const FiniteElementSpace &x_fes)
@@ -4621,11 +4406,112 @@ UpdateAfterMeshPositionChange(const Vector &x_new,
adapt_lim_eval->ComputeAtNewPosition(x_new, *adapt_lim_gf, ordering);
}
// Update surf_fit_gf (and optionally its gradients) if surface
// fitting is enabled.
// Update surf_fit_gf if surface fitting is enabled.
if (surf_fit_gf)
{
RemapSurfaceFittingLevelSetAtNodes(x_new, ordering);
if (surf_fit_gf_bg)
{
// Interpolate information for only DOFs marked for fitting.
const int dim = surf_fit_gf->FESpace()->GetMesh()->Dimension();
const int cnt = surf_fit_marker_dof_index.Size();
const int total_cnt = x_new.Size()/dim;
Vector new_x_sorted(cnt*dim);
if (ordering == 0)
{
for (int d = 0; d < dim; d++)
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
new_x_sorted(i + d*cnt) = x_new(dof_index + d*total_cnt);
}
}
}
else
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
for (int d = 0; d < dim; d++)
{
new_x_sorted(d + i*dim) = x_new(d + dof_index*dim);
}
}
}
Vector surf_fit_gf_int, surf_fit_grad_int, surf_fit_hess_int;
surf_fit_eval->ComputeAtNewPosition(
new_x_sorted, surf_fit_gf_int, ordering);
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
(*surf_fit_gf)[dof_index] = surf_fit_gf_int(i);
}
surf_fit_eval_bg_grad->ComputeAtNewPosition(
new_x_sorted, surf_fit_grad_int, ordering);
// Assumes surf_fit_grad and surf_fit_gf share the same space
const int grad_dim = surf_fit_grad->VectorDim();
const int grad_cnt = surf_fit_grad->Size()/grad_dim;
if (surf_fit_grad->FESpace()->GetOrdering() == Ordering::byNODES)
{
for (int d = 0; d < grad_dim; d++)
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
(*surf_fit_grad)[dof_index + d*grad_cnt] =
surf_fit_grad_int(i + d*cnt);
}
}
}
else
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
for (int d = 0; d < grad_dim; d++)
{
(*surf_fit_grad)[dof_index*dim + d] =
surf_fit_grad_int(i*dim + d);
}
}
}
surf_fit_eval_bg_hess->ComputeAtNewPosition(
new_x_sorted, surf_fit_hess_int, ordering);
// Assumes surf_fit_hess and surf_fit_gf share the same space
const int hess_dim = surf_fit_hess->VectorDim();
const int hess_cnt = surf_fit_hess->Size()/hess_dim;
if (surf_fit_hess->FESpace()->GetOrdering() == Ordering::byNODES)
{
for (int d = 0; d < hess_dim; d++)
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
(*surf_fit_hess)[dof_index + d*hess_cnt] =
surf_fit_hess_int(i + d*cnt);
}
}
}
else
{
for (int i = 0; i < cnt; i++)
{
int dof_index = surf_fit_marker_dof_index[i];
for (int d = 0; d < hess_dim; d++)
{
(*surf_fit_hess)[dof_index*dim + d] =
surf_fit_hess_int(i*dim + d);
}
}
}
}
else
{
surf_fit_eval->ComputeAtNewPosition(x_new, *surf_fit_gf, ordering);
}
}
}
+10 -18
View File
@@ -1784,11 +1784,12 @@ protected:
// Fitting to given physical positions.
TMOP_QuadraticLimiter *surf_fit_limiter; // Owned. Created internally.
const GridFunction *surf_fit_pos; // Not owned. Positions to fit.
real_t surf_fit_normal; // Normalization factor.
GridFunction *surf_fit_grad, *surf_fit_hess; // Owned. Created internally.
AdaptivityEvaluator *surf_fit_eval_grad, *surf_fit_eval_hess; // Not owned.
Array<int> surf_fit_dof_count; // Number of dofs per node.
Array<int> surf_fit_marker_dof_index; // Indices of nodes to fit.
real_t surf_fit_normal;
bool surf_fit_gf_bg;
GridFunction *surf_fit_grad, *surf_fit_hess;
AdaptivityEvaluator *surf_fit_eval_bg_grad, *surf_fit_eval_bg_hess;
Array<int> surf_fit_dof_count;
Array<int> surf_fit_marker_dof_index;
DiscreteAdaptTC *discr_tc;
@@ -1984,10 +1985,6 @@ protected:
real_t ComputeUntanglerMaxMuBarrier(const Vector &x,
const FiniteElementSpace &fes);
// Remaps the internal surface fitting gridfunction object at provided
// locations.
void RemapSurfaceFittingLevelSetAtNodes(const Vector &new_x,
int new_x_ordering);
public:
/** @param[in] m TMOP_QualityMetric for r-adaptivity (not owned).
@param[in] tc Target-matrix construction algorithm to use (not owned).
@@ -2003,8 +2000,9 @@ public:
surf_fit_marker(NULL), surf_fit_coeff(NULL),
surf_fit_gf(NULL), surf_fit_eval(NULL),
surf_fit_limiter(NULL), surf_fit_pos(NULL),
surf_fit_normal(1.0), surf_fit_grad(NULL), surf_fit_hess(NULL),
surf_fit_eval_grad(NULL), surf_fit_eval_hess(NULL),
surf_fit_normal(1.0),
surf_fit_gf_bg(false), surf_fit_grad(NULL), surf_fit_hess(NULL),
surf_fit_eval_bg_grad(NULL), surf_fit_eval_bg_hess(NULL),
discr_tc(dynamic_cast<DiscreteAdaptTC *>(tc)),
fdflag(false), dxscale(1.0e3), fd_call_flag(false), exact_action(false)
{ PA.enabled = false; }
@@ -2105,15 +2103,9 @@ public:
#ifdef MFEM_USE_MPI
/// Parallel support for surface fitting to the zero level set of a function.
/// Here, we add two optional inputs: @a aegrad and @a aehess. When provided,
/// the first and second derivative of the input level set are computed on
/// the initial mesh, and @a aegrad and @a aehess are used to remap grad_s(x)
/// from grad_s0(x0) and hess_s(x) from hess_s0(x0), respectively.
void EnableSurfaceFitting(const ParGridFunction &s0,
const Array<bool> &smarker, Coefficient &coeff,
AdaptivityEvaluator &ae,
AdaptivityEvaluator *aegrad = NULL,
AdaptivityEvaluator *aehess = NULL);
AdaptivityEvaluator &ae);
/** @brief Fitting of certain DOFs in the current mesh to the zero level set
of a function defined on another (finer) source mesh.
+36 -88
View File
@@ -429,13 +429,11 @@ real_t TMOPNewtonSolver::ComputeScalingFactor(const Vector &x,
#endif
real_t scale = 1.0;
bool fitting = IsSurfaceFittingEnabled();
real_t init_fit_avg_err, init_fit_max_err = 0.0;
if (fitting && surf_fit_converge_error)
real_t avg_surf_fit_err, max_surf_fit_err = 0.0;
if (surf_fit_max_threshold > 0.0)
{
GetSurfaceFittingError(x_out_loc, init_fit_avg_err, init_fit_max_err);
// Check for convergence
if (init_fit_max_err < surf_fit_max_err_limit)
GetSurfaceFittingError(x_out_loc, avg_surf_fit_err, max_surf_fit_err);
if (max_surf_fit_err < surf_fit_max_threshold)
{
if (print_options.iterations)
{
@@ -446,12 +444,11 @@ real_t TMOPNewtonSolver::ComputeScalingFactor(const Vector &x,
return scale;
}
}
if (surf_fit_adapt_count >= surf_fit_adapt_count_limit)
if (adapt_inc_count >= max_adapt_inc_count)
{
if (print_options.iterations)
{
mfem::out << "TMOPNewtonSolver terminated "
mfem::out << "TMOPNewtonSolver converged "
"based on max number of times surface fitting weight can"
"be increased. \n";
}
@@ -470,7 +467,7 @@ real_t TMOPNewtonSolver::ComputeScalingFactor(const Vector &x,
// reference to detect deteriorations.
MFEM_VERIFY(min_det_ptr != NULL, " Initial mesh was valid, but"
" intermediate mesh is invalid. Contact TMOP Developers.");
MFEM_VERIFY(min_detJ_limit == 0.0,
MFEM_VERIFY(min_detJ_threshold == 0.0,
"This setup is not supported. Contact TMOP Developers.");
*min_det_ptr = untangle_factor * min_detT_in;
}
@@ -481,7 +478,6 @@ real_t TMOPNewtonSolver::ComputeScalingFactor(const Vector &x,
bool x_out_ok = false;
real_t energy_out = 0.0, min_detT_out;
const real_t norm_in = Norm(r);
real_t avg_fit_err, max_fit_err = 0.0;
const real_t detJ_factor = (solver_type == 1) ? 0.25 : 0.5;
compute_metric_quantile_flag = false;
@@ -492,9 +488,6 @@ real_t TMOPNewtonSolver::ComputeScalingFactor(const Vector &x,
// Perform the line search.
for (int i = 0; i < 12; i++)
{
avg_fit_err = 0.0;
max_fit_err = 0.0;
// Update the mesh and get the L-vector in x_out_loc.
add(x, -scale, c, x_out);
if (serial)
@@ -509,7 +502,7 @@ real_t TMOPNewtonSolver::ComputeScalingFactor(const Vector &x,
// Check the changes in detJ.
min_detT_out = ComputeMinDet(x_out_loc, *fes);
if (untangling == false && min_detT_out <= min_detJ_limit)
if (untangling == false && min_detT_out <= min_detJ_threshold)
{
// No untangling, and detJ got negative (or small) -- no good.
if (print_options.iterations)
@@ -536,19 +529,18 @@ real_t TMOPNewtonSolver::ComputeScalingFactor(const Vector &x,
// Check the changes in total energy.
ProcessNewState(x_out);
// Ensure sufficient decrease in fitting error if we are trying to
// converge based on error.
if (fitting && surf_fit_converge_error)
real_t avg_fit_err, max_fit_err = 0.0;
if (surf_fit_max_threshold > 0.0)
{
GetSurfaceFittingError(x_out_loc, avg_fit_err, max_fit_err);
if (max_fit_err >= 1.2*init_fit_max_err)
}
if (surf_fit_max_threshold > 0.0 && max_fit_err >= 1.2*max_surf_fit_err)
{
if (print_options.iterations)
{
if (print_options.iterations)
{
mfem::out << "Scale = " << scale << " Surf fit err increased.\n";
}
scale *= 0.5; continue;
mfem::out << "Scale = " << scale << " Surf fit err increased.\n";
}
scale *= 0.5; continue;
}
if (serial)
@@ -622,7 +614,7 @@ real_t TMOPNewtonSolver::ComputeScalingFactor(const Vector &x,
if (x_out_ok == false) { scale = 0.0; }
if (surf_fit_scale_factor > 0.0) { surf_fit_coeff_update = true; }
if (surf_fit_scale_factor > 0.0) { update_surf_fit_coeff = true; }
compute_metric_quantile_flag = true;
return scale;
@@ -665,7 +657,7 @@ void TMOPNewtonSolver::GetSurfaceFittingWeight(Array<real_t> &weights) const
for (int i = 0; i < integs.Size(); i++)
{
ti = dynamic_cast<TMOP_Integrator *>(integs[i]);
if (ti && ti->IsSurfaceFittingEnabled())
if (ti)
{
weight = ti->GetSurfaceFittingWeight();
weights.Append(weight);
@@ -676,11 +668,8 @@ void TMOPNewtonSolver::GetSurfaceFittingWeight(Array<real_t> &weights) const
Array<TMOP_Integrator *> ati = co->GetTMOPIntegrators();
for (int j = 0; j < ati.Size(); j++)
{
if (ati[j]->IsSurfaceFittingEnabled())
{
weight = ati[j]->GetSurfaceFittingWeight();
weights.Append(weight);
}
weight = ati[j]->GetSurfaceFittingWeight();
weights.Append(weight);
}
}
}
@@ -727,39 +716,6 @@ void TMOPNewtonSolver::GetSurfaceFittingError(const Vector &x_loc,
}
}
bool TMOPNewtonSolver::IsSurfaceFittingEnabled() const
{
const NonlinearForm *nlf = dynamic_cast<const NonlinearForm *>(oper);
const Array<NonlinearFormIntegrator*> &integs = *nlf->GetDNFI();
TMOP_Integrator *ti = NULL;
TMOPComboIntegrator *co = NULL;
for (int i = 0; i < integs.Size(); i++)
{
ti = dynamic_cast<TMOP_Integrator *>(integs[i]);
if (ti)
{
if (ti->IsSurfaceFittingEnabled())
{
return true;
}
}
co = dynamic_cast<TMOPComboIntegrator *>(integs[i]);
if (co)
{
Array<TMOP_Integrator *> ati = co->GetTMOPIntegrators();
for (int j = 0; j < ati.Size(); j++)
{
if (ati[j]->IsSurfaceFittingEnabled())
{
return true;
}
}
}
}
return false;
}
void TMOPNewtonSolver::ProcessNewState(const Vector &x) const
{
const NonlinearForm *nlf = dynamic_cast<const NonlinearForm *>(oper);
@@ -845,46 +801,38 @@ void TMOPNewtonSolver::ProcessNewState(const Vector &x) const
// adaptive surface fitting is enabled. The idea is to increase the
// coefficient if the surface fitting error does not sufficiently
// decrease between subsequent TMOPNewtonSolver iterations.
if (surf_fit_coeff_update)
if (update_surf_fit_coeff)
{
// Get surface fitting errors.
GetSurfaceFittingError(x_loc, surf_fit_avg_err, surf_fit_max_err);
GetSurfaceFittingError(x_loc, surf_fit_err_avg, surf_fit_err_max);
// Get array with surface fitting weights.
Array<real_t> fitweights;
GetSurfaceFittingWeight(fitweights);
Array<real_t> weights;
GetSurfaceFittingWeight(weights);
if (print_options.iterations)
{
mfem::out << "Avg/Max surface fitting error: " <<
surf_fit_avg_err << " " <<
surf_fit_max_err << "\n";
surf_fit_err_avg << " " <<
surf_fit_err_max << "\n";
mfem::out << "Min/Max surface fitting weight: " <<
fitweights.Min() << " " << fitweights.Max() << "\n";
weights.Min() << " " << weights.Max() << "\n";
}
real_t change_surf_fit_err = surf_fit_avg_err_prvs-surf_fit_avg_err;
real_t rel_change_surf_fit_err = change_surf_fit_err/surf_fit_avg_err_prvs;
real_t change_surf_fit_err = surf_fit_err_avg_prvs-surf_fit_err_avg;
real_t rel_change_surf_fit_err = change_surf_fit_err/surf_fit_err_avg_prvs;
// Increase the surface fitting coefficient if the surface fitting error
// does not decrease sufficiently. If we are converging based on residual,
// also make sure we have not reached the maximum fitting weight and
// error threshold.
if (rel_change_surf_fit_err < surf_fit_err_rel_change_limit &&
(surf_fit_converge_error ||
(fitweights.Max() < surf_fit_weight_limit &&
surf_fit_max_err > surf_fit_max_err_limit)))
// does not decrease sufficiently.
if (rel_change_surf_fit_err < surf_fit_rel_change_threshold)
{
real_t scale_factor = std::min(surf_fit_scale_factor,
surf_fit_weight_limit/fitweights.Max());
UpdateSurfaceFittingWeight(scale_factor);
surf_fit_adapt_count += 1;
UpdateSurfaceFittingWeight(surf_fit_scale_factor);
adapt_inc_count += 1;
}
else
{
surf_fit_adapt_count = 0;
adapt_inc_count = 0;
}
surf_fit_avg_err_prvs = surf_fit_avg_err;
surf_fit_coeff_update = false;
surf_fit_err_avg_prvs = surf_fit_err_avg;
update_surf_fit_coeff = false;
}
}
+26 -87
View File
@@ -134,20 +134,18 @@ protected:
int solver_type;
bool parallel;
// Line search step is rejected if min(detJ) <= min_detJ_limit.
real_t min_detJ_limit = 0.0;
// Line search step is rejected if min(detJ) <= min_detJ_threshold.
real_t min_detJ_threshold = 0.0;
// Surface fitting variables.
mutable real_t surf_fit_avg_err_prvs = 10000.0;
mutable real_t surf_fit_avg_err, surf_fit_max_err;
mutable bool surf_fit_coeff_update = false;
real_t surf_fit_max_err_limit = -1.0;
real_t surf_fit_err_rel_change_limit = 0.001;
mutable real_t surf_fit_err_avg_prvs = 10000.0;
mutable real_t surf_fit_err_avg, surf_fit_err_max;
mutable bool update_surf_fit_coeff = false;
real_t surf_fit_max_threshold = -1.0;
real_t surf_fit_rel_change_threshold = 0.001;
real_t surf_fit_scale_factor = 0.0;
mutable int surf_fit_adapt_count = 0;
mutable int surf_fit_adapt_count_limit = 10;
mutable real_t surf_fit_weight_limit = 1e10;
bool surf_fit_converge_error = false;
mutable int adapt_inc_count = 0;
mutable int max_adapt_inc_count = 10;
// Minimum determinant over the whole mesh. Used for mesh untangling.
real_t *min_det_ptr = nullptr;
@@ -193,9 +191,6 @@ protected:
void GetSurfaceFittingWeight(Array<real_t> &weights) const;
///@}
/// Check if surface fitting is enabled.
bool IsSurfaceFittingEnabled() const;
public:
#ifdef MFEM_USE_MPI
TMOPNewtonSolver(MPI_Comm comm, const IntegrationRule &irule, int type = 0)
@@ -229,94 +224,38 @@ public:
/// (ii) surface fitting weight.
virtual void ProcessNewState(const Vector &x) const;
/** @name Methods for adaptive surface fitting.
\brief These methods control the behavior of the weight and the
termination of the solver. (Experimental)
Adaptive fitting weight: The weight is modified after each
TMOPNewtonSolver iteration as:
w_{k+1} = w_{k} * \ref surf_fit_scale_factor if the relative
change in average fitting error < \ref surf_fit_err_rel_change_limit.
When converging based on the residual, we enforce the fitting weight
to be at-most \ref surf_fit_weight_limit, and increase it only if the
fitting error is below user prescribed threshold
(\ref surf_fit_max_err_limit).
See \ref SetAdaptiveSurfaceFittingScalingFactor and
\ref SetAdaptiveSurfaceFittingRelativeChangeThreshold.
Note that the solver stops if the maximum surface fitting error
does not sufficiently decrease for \ref surf_fit_adapt_count_limit (default 10)
consecutive increments of the fitting weight during weight adaptation.
This typically occurs when the mesh cannot align with the level-set
without degrading element quality.
See \ref SetMaxNumberofIncrementsForAdaptiveFitting.
Convergence criterion: There are two modes, residual- and error-based,
which can be toggled using \ref SetSurfaceFittingConvergenceBasedOnError.
(i) Residual based (default): Stop when the norm of the gradient of the
TMOP objective reaches the prescribed tolerance. This method is best used
with a reasonable value for \ref surf_fit_weight_limit when the
adaptive surface fitting scheme is used. See method
\ref SetSurfaceFittingWeightLimit.
(ii) Error based: Stop when the maximum fitting error
reaches the user-prescribed threshold, \ref surf_fit_max_err_limit.
In this case, \ref surf_fit_weight_limit is ignored during weight
adaptation.
*/
///@{
/** @name Methods for adaptive surface fitting weight. (Experimental) */
/// Enable/Disable adaptive surface fitting weight.
/// The weight is modified after each TMOPNewtonSolver iteration as:
/// w_{k+1} = w_{k} * @a surf_fit_scale_factor if relative change in
/// max surface fitting error < @a surf_fit_rel_change_threshold.
/// The solver terminates if the maximum surface fitting error does
/// not sufficiently decrease for @a max_adapt_inc_count consecutive
/// solver iterations or if the max error falls below @a surf_fit_max_threshold.
void EnableAdaptiveSurfaceFitting()
{
surf_fit_scale_factor = 10.0;
surf_fit_rel_change_threshold = 0.001;
}
void SetAdaptiveSurfaceFittingScalingFactor(real_t factor)
{
MFEM_VERIFY(factor > 1.0, "Scaling factor must be greater than 1.");
surf_fit_scale_factor = factor;
}
void SetAdaptiveSurfaceFittingRelativeChangeThreshold(real_t threshold)
{
surf_fit_err_rel_change_limit = threshold;
surf_fit_rel_change_threshold = threshold;
}
/// Used for stopping based on the number of consecutive failed weight
/// adaptation iterations.
// TODO: Rename to SetMaxNumberofIncrementsForAdaptiveSurfaceFitting
// in future.
void SetMaxNumberofIncrementsForAdaptiveFitting(int count)
{
surf_fit_adapt_count_limit = count;
max_adapt_inc_count = count;
}
/// Used for error-based surface fitting termination.
void SetTerminationWithMaxSurfaceFittingError(real_t max_error)
{
surf_fit_max_err_limit = max_error;
surf_fit_converge_error = true;
surf_fit_max_threshold = max_error;
}
/// Could be used with both error-based or residual-based convergence.
void SetSurfaceFittingMaxErrorLimit(real_t max_error)
{
surf_fit_max_err_limit = max_error;
}
/// Used for residual-based surface fitting termination.
void SetSurfaceFittingWeightLimit(real_t weight)
{
surf_fit_weight_limit = weight;
}
/// Toggle convergence based on residual or error.
void SetSurfaceFittingConvergenceBasedOnError(bool mode)
{
surf_fit_converge_error = mode;
if (surf_fit_converge_error)
{
MFEM_VERIFY(surf_fit_max_err_limit >= 0,
"Fitting error based convergence requires the user to "
"first set the error threshold."
"See SetTerminationWithMaxSurfaceFittingError");
}
}
///@}
/// Set minimum determinant enforced during line-search.
void SetMinimumDeterminantThreshold(real_t threshold)
{
min_detJ_limit = threshold;
min_detJ_threshold = threshold;
}
virtual void Mult(const Vector &b, Vector &x) const
-125
View File
@@ -39,22 +39,12 @@ struct Hashed4
int next;
};
/** A concept for items that should be used in HashTable and be accessible by
* hashing 5 IDs. temporary workaround for 4D (need a structure where all 4 ids a stored)
*/
struct Hashed5
{
int p1, p2, p3, p4; // NOTE: p5 is not hashed nor stored
int next;
};
/** HashTable is a container for items that require associative access through
* pairs (or quadruples) of indices:
*
* (p1, p2) -> item
* (p1, p2, p3, p4) -> item
* (p1, p2, p3, p4, p5) -> item
*
* An example of this are edges and faces in a mesh. Each edge is uniquely
* identified by two parent vertices and so can be easily accessed from
@@ -130,7 +120,6 @@ public:
@warning This method should only be called if T inherits from Hashed4. */
T* Get(int p1, int p2, int p3, int p4 = -1 /* p4 optional */);
T* Get(int p1, int p2, int p3, int p4, int p5);
/// Get id of item whose parents are p1, p2... Create it if it doesn't exist.
/** @brief Get the "id" of an item, this "id" corresponding to the index of the
@@ -156,7 +145,6 @@ public:
@warning This method should only be called if T inherits from Hashed4. */
int GetId(int p1, int p2, int p3, int p4 = -1);
int GetId(int p1, int p2, int p3, int p4, int p5);
/// Find item whose parents are p1, p2... Return NULL if it doesn't exist.
/** @brief Item accessor with key (or parents) the pair 'p1', 'p2'. Return
@@ -181,7 +169,6 @@ public:
@warning This method should only be called if T inherits from Hashed4. */
T* Find(int p1, int p2, int p3, int p4 = -1);
T* Find(int p1, int p2, int p3, int p4, int p5);
/** @brief Item const accessor with key (or parents) the pair 'p1', 'p2'.
Return nullptr if no value correspond to the requested key.
@@ -205,7 +192,6 @@ public:
@warning This method should only be called if T inherits from Hashed4. */
const T* Find(int p1, int p2, int p3, int p4 = -1) const;
const T* Find(int p1, int p2, int p3, int p4, int p5) const;
/// Find id of item whose parents are p1, p2... Return -1 if it doesn't exist.
/** @brief Find the "id" of an item, this "id" corresponding to the index of
@@ -231,7 +217,6 @@ public:
@warning This method should only be called if T inherits from Hashed4. */
int FindId(int p1, int p2, int p3, int p4 = -1) const;
int FindId(int p1, int p2, int p3, int p4, int p5) const;
/// @brief Return the number of elements currently stored in the HashTable.
int Size() const { return Base::Size() - unused.Size(); }
@@ -298,8 +283,6 @@ public:
@warning This method should only be called if T inherits from Hashed4. */
void Reparent(int id, int new_p1, int new_p2, int new_p3, int new_p4 = -1);
void Reparent(int id, int new_p1, int new_p2, int new_p3, int new_p4,
int new_p5);
/// @brief Return total size of allocated memory (tables plus items), in bytes.
std::size_t MemoryUsage() const;
@@ -397,9 +380,6 @@ protected:
inline int Hash(size_t p1, size_t p2, size_t p3) const
{ return (984120265ul*p1 + 125965121ul*p2 + 495698413ul*p3) & mask; }
inline int Hash(int p1, int p2, int p3, int p4) const
{ return (984120265*p1 + 125965121*p2 + 495698413*p3 + 179424673*p4) & mask; }
// Delete() and Reparent() use one of these:
/// @brief Hash function for items of type T that inherit from Hashed2.
inline int Hash(const Hashed2& item) const
@@ -409,9 +389,6 @@ protected:
inline int Hash(const Hashed4& item) const
{ return Hash(item.p1, item.p2, item.p3); }
inline int Hash(const Hashed5& item) const
{ return Hash(item.p1, item.p2, item.p3, item.p4); };
/** @brief Search the index of the item associated to the key (p1,p2)
starting from the item with index @a id.
@@ -434,7 +411,6 @@ protected:
@warning This method should only be called if T inherits from Hashed4. */
int SearchList(int id, int p1, int p2, int p3) const;
int SearchList(int id, int p1, int p2, int p3, int p4) const;
/** @brief Insert the item 'id' into bin 'idx'.
@@ -605,17 +581,6 @@ inline void sort4(int &a, int &b, int &c, int &d)
sort3(b, c, d);
}
inline void sort5(int &a, int &b, int &c, int &d, int &e)
{
sort4(a,b,c,d);
sort4(b,c,d,e);
if (a > b)
{
int t = a; a = b; b = t;
}
}
inline void sort4_ext(int &a, int &b, int &c, int &d)
{
if (d < 0) // support optional last index
@@ -642,12 +607,6 @@ inline T* HashTable<T>::Get(int p1, int p2, int p3, int p4)
return &(Base::At(GetId(p1, p2, p3, p4)));
}
template<typename T>
inline T* HashTable<T>::Get(int p1, int p2, int p3, int p4, int p5)
{
return &(Base::At(GetId(p1, p2, p3, p4, p5)));
}
template<typename T>
int HashTable<T>::GetId(int p1, int p2)
{
@@ -711,39 +670,6 @@ int HashTable<T>::GetId(int p1, int p2, int p3, int p4)
return new_id;
}
template<typename T>
int HashTable<T>::GetId(int p1, int p2, int p3, int p4, int p5)
{
// search for the item in the hashtable
internal::sort5(p1, p2, p3, p4, p5);
int idx = Hash(p1, p2, p3, p4);
int id = SearchList(table[idx], p1, p2, p3, p4);
if (id >= 0) { return id; }
// not found - use an unused item or create a new one
int new_id;
if (unused.Size())
{
new_id = unused.Last();
unused.DeleteLast();
}
else
{
new_id = Base::Append();
}
T& item = Base::At(new_id);
item.p1 = p1;
item.p2 = p2;
item.p3 = p3;
item.p4 = p4;
// insert into hashtable
Insert(idx, new_id, item);
CheckRehash();
return new_id;
}
template<typename T>
inline T* HashTable<T>::Find(int p1, int p2)
{
@@ -758,13 +684,6 @@ inline T* HashTable<T>::Find(int p1, int p2, int p3, int p4)
return (id >= 0) ? &(Base::At(id)) : NULL;
}
template<typename T>
inline T* HashTable<T>::Find(int p1, int p2, int p3, int p4, int p5)
{
int id = FindId(p1, p2, p3, p4, p5);
return (id >= 0) ? &(Base::At(id)) : NULL;
}
template<typename T>
inline const T* HashTable<T>::Find(int p1, int p2) const
{
@@ -779,13 +698,6 @@ inline const T* HashTable<T>::Find(int p1, int p2, int p3, int p4) const
return (id >= 0) ? &(Base::At(id)) : NULL;
}
template<typename T>
inline const T* HashTable<T>::Find(int p1, int p2, int p3, int p4, int p5) const
{
int id = FindId(p1, p2, p3, p4, p5);
return (id >= 0) ? &(Base::At(id)) : NULL;
}
template<typename T>
int HashTable<T>::FindId(int p1, int p2) const
{
@@ -800,13 +712,6 @@ int HashTable<T>::FindId(int p1, int p2, int p3, int p4) const
return SearchList(table[Hash(p1, p2, p3)], p1, p2, p3);
}
template<typename T>
int HashTable<T>::FindId(int p1, int p2, int p3, int p4, int p5) const
{
internal::sort5(p1, p2, p3, p4, p5);
return SearchList(table[Hash(p1, p2, p3, p4)], p1, p2, p3, p4);
}
template<typename T>
int HashTable<T>::SearchList(int id, int p1, int p2) const
{
@@ -831,18 +736,6 @@ int HashTable<T>::SearchList(int id, int p1, int p2, int p3) const
return -1;
}
template<typename T>
int HashTable<T>::SearchList(int id, int p1, int p2, int p3, int p4) const
{
while (id >= 0)
{
const T& item = Base::At(id);
if (item.p1 == p1 && item.p2 == p2 && item.p3 == p3 && item.p4 == p4) { return id; }
id = item.next;
}
return -1;
}
template<typename T>
inline void HashTable<T>::CheckRehash()
{
@@ -984,24 +877,6 @@ void HashTable<T>::Reparent(int id,
Insert(new_idx, id, item);
}
template<typename T>
void HashTable<T>::Reparent(int id,
int new_p1, int new_p2, int new_p3, int new_p4, int new_p5)
{
T& item = Base::At(id);
Unlink(Hash(item), id);
internal::sort5(new_p1, new_p2, new_p3, new_p4, new_p5);
item.p1 = new_p1;
item.p2 = new_p2;
item.p3 = new_p3;
item.p4 = new_p4;
// reinsert under new parent IDs
int new_idx = Hash(new_p1, new_p2, new_p3, new_p4);
Insert(new_idx, id, item);
}
template<typename T>
std::size_t HashTable<T>::MemoryUsage() const
{
+1 -1
View File
@@ -51,7 +51,7 @@ int isockstream::establish()
{
// char myname[129];
char myname[] = "localhost";
int sfd = -1;
int sfd;
struct addrinfo hints, *res, *rp;
memset(&hints, 0, sizeof(hints));
+2 -2
View File
@@ -134,7 +134,7 @@ int socketbuf::open(const char hostname[], int port)
{
closesocket(socket_descriptor);
socket_descriptor = -2;
continue;
return -1;
}
#endif
@@ -148,7 +148,7 @@ int socketbuf::open(const char hostname[], int port)
}
freeaddrinfo(res);
return (socket_descriptor < 0) ? -1 : 0;
return 0;
}
int socketbuf::close()
+30 -247
View File
@@ -10,7 +10,6 @@
// CONTRIBUTING.md for details.
#include <iostream>
#include "error.hpp"
#include "stable3d.hpp"
@@ -32,6 +31,36 @@ STable3D::STable3D (int nr)
NElem = 0;
}
inline void Sort3 (int &r, int &c, int &f)
{
int t;
if (r > c)
if (c > f)
{
t = r; r = f; f = t; // (r,c,f) --> (f,c,r)
}
else if (r > f)
{
t = r; r = c; c = f; f = t; // (r,c,f) --> (c,f,r)
}
else
{
t = r; r = c; c = t; // (r,c,f) --> (c,r,f)
}
else if (c > f)
{
if (r > f)
{
t = f; f = c; c = r; r = t; // (r,c,f) --> (f,r,c)
}
else
{
t = c; c = f; f = t; // (r,c,f) --> (r,f,c)
}
}
}
int STable3D::Push (int r, int c, int f)
{
STable3DNode *node;
@@ -196,250 +225,4 @@ void STable3D::Print(std::ostream & os) const
}
}
STable4D::STable4D (int nr)
{
int i;
Size = nr;
Rows = new STable4DNode *[nr];
for (i = 0; i < nr; i++)
{
Rows[i] = NULL;
}
NElem = 0;
}
int STable4D::Push (int r, int c, int f, int t)
{
STable4DNode *node;
MFEM_ASSERT(r != c && c != f && f != r && r!=t && c!=t && f!=t,
"STable4D::Push : r = " << r << ", c = " << c << ", f = " << f << ", t = " <<
t);
Sort4(r, c, f, t);
for (node = Rows[r]; node != NULL; node = node->Prev)
{
if (node->Column == c)
if (node->Floor == f)
if (node->Trace == t)
{
return node->Number;
}
}
#ifdef MFEM_USE_MEMALLOC
node = NodesMem.Alloc ();
#else
node = new STable4DNode;
#endif
node->Column = c;
node->Floor = f;
node->Trace = t;
node->Number = NElem;
node->Prev = Rows[r];
Rows[r] = node;
NElem++;
return (NElem-1);
}
int STable4D::operator() (int r, int c, int f, int t) const
{
STable4DNode *node;
Sort4(r, c, f, t);
for (node = Rows[r]; node != NULL; node = node->Prev)
{
if (node->Column == c)
if (node->Floor == f)
if (node->Trace == t)
{
return node->Number;
}
}
MFEM_ABORT("STable4D::operator(): (r,c,f,t) = (" << r << "," << c << "," << f <<
"," << t <<")");
return -1;
}
int STable4D::Index (int r, int c, int f, int t) const
{
STable4DNode *node;
Sort4(r, c, f, t);
for (node = Rows[r]; node != NULL; node = node->Prev)
{
if (node->Column == c)
if (node->Floor == f)
if (node->Trace == t)
{
return node->Number;
}
}
return -1;
}
STable4D::~STable4D ()
{
#ifdef MFEM_USE_MEMALLOC
// NodesMem.Clear(); // this is done implicitly
#else
for (int i = 0; i < Size; i++)
{
STable4DNode *aux, *node_p = Rows[i];
while (node_p != NULL)
{
aux = node_p;
node_p = node_p->Prev;
delete aux;
}
}
#endif
delete [] Rows;
}
STable5D::STable5D (int nr)
{
int i;
Size = nr;
Rows = new STable5DNode *[nr];
for (i = 0; i < nr; i++)
{
Rows[i] = NULL;
}
NElem = 0;
}
int STable5D::Push (int r, int c, int f, int t, int u)
{
STable5DNode *node;
MFEM_ASSERT(r != c && c != f && f != r && r!=t && c!=t && f!=t && r!=u &&
c!=u && f!=u && t!=u,
"STable5D::Push : r = " << r << ", c = " << c << ", f = " << f << ", t = " << t
<< ", u = " << u);
Sort5(r, c, f, t, u);
for (node = Rows[r]; node != NULL; node = node->Prev)
{
if (node->Column == c)
if (node->Floor == f)
if (node->Trace == t)
if (node->Next == u)
{
return node->Number;
}
}
#ifdef MFEM_USE_MEMALLOC
node = NodesMem.Alloc ();
#else
node = new STable5DNode;
#endif
node->Column = c;
node->Floor = f;
node->Trace = t;
node->Next = u;
node->Number = NElem;
node->Prev = Rows[r];
Rows[r] = node;
NElem++;
return (NElem-1);
}
int STable5D::operator() (int r, int c, int f, int t, int u) const
{
STable5DNode *node;
Sort5(r, c, f, t, u);
for (node = Rows[r]; node != NULL; node = node->Prev)
{
if (node->Column == c)
if (node->Floor == f)
if (node->Trace == t)
if (node->Next == u)
{
return node->Number;
}
}
MFEM_ABORT("STable4D::operator(): (r,c,f,t,u) = (" << r << "," << c << "," << f
<< "," << t << "," << u <<")");
return 0;
}
int STable5D::Index (int r, int c, int f, int t, int u) const
{
STable5DNode *node;
Sort5(r, c, f, t, u);
for (node = Rows[r]; node != NULL; node = node->Prev)
{
if (node->Column == c)
if (node->Floor == f)
if (node->Trace == t)
{
return node->Number;
}
}
return -1;
}
int STable5D::Push8 (int u1, int u2, int u3, int u4, int u5, int u6, int u7,
int u8)
{
Sort8(u1, u2, u3, u4, u5, u6, u7, u8);
return (*this).Push(u1,u2,u3,u4,u5);
}
int STable5D::operator() (int u1, int u2, int u3, int u4, int u5, int u6,
int u7, int u8) const
{
Sort8(u1, u2, u3, u4, u5, u6, u7, u8);
return (*this)(u1,u2,u3,u4,u5);
}
STable5D::~STable5D ()
{
#ifdef MFEM_USE_MEMALLOC
// NodesMem.Clear(); // this is done implicitly
#else
for (int i = 0; i < Size; i++)
{
STable5DNode *aux, *node_p = Rows[i];
while (node_p != NULL)
{
aux = node_p;
node_p = node_p->Prev;
delete aux;
}
}
#endif
delete [] Rows;
}
}
-159
View File
@@ -75,165 +75,6 @@ public:
~STable3D ();
};
class STable4DNode
{
public:
STable4DNode *Prev;
int Column, Floor, Trace, Number;
};
/// Symmetric 4D Table
class STable4D
{
private:
int Size, NElem;
STable4DNode **Rows;
#ifdef MFEM_USE_MEMALLOC
MemAlloc <STable4DNode, 1024> NodesMem;
#endif
public:
explicit STable4D (int nr);
int Push (int r, int c, int f, int t);
int operator() (int r, int c, int f, int t) const;
int Index (int r, int c, int f, int t) const;
int NumberOfElements() { return NElem; };
~STable4D ();
};
class STable5DNode
{
public:
STable5DNode *Prev;
int Column, Floor, Trace, Next, Number;
};
/// Symmetric 5D Table
class STable5D
{
private:
int Size, NElem;
STable5DNode **Rows;
#ifdef MFEM_USE_MEMALLOC
MemAlloc <STable5DNode, 1024> NodesMem;
#endif
public:
explicit STable5D (int nr);
int Push (int r, int c, int f, int t, int u);
int operator() (int r, int c, int f, int t, int u) const;
int Index (int r, int c, int f, int t, int u) const;
int Push8 (int u1, int u2, int u3, int u4, int u5, int u6, int u7, int u8);
int operator() (int u1, int u2, int u3, int u4, int u5, int u6, int u7,
int u8) const;
int NumberOfElements() { return NElem; };
~STable5D ();
};
inline void Sort3 (int &r, int &c, int &f)
{
int t;
if (r > c)
if (c > f)
{
t = r; r = f; f = t; // (r,c,f) --> (f,c,r)
}
else if (r > f)
{
t = r; r = c; c = f; f = t; // (r,c,f) --> (c,f,r)
}
else
{
t = r; r = c; c = t; // (r,c,f) --> (c,r,f)
}
else if (c > f)
{
if (r > f)
{
t = f; f = c; c = r; r = t; // (r,c,f) --> (f,r,c)
}
else
{
t = c; c = f; f = t; // (r,c,f) --> (r,f,c)
}
}
}
inline void Sort4 (int &r, int &c, int &f, int &u)
{
Sort3(c,f,u);
int t;
if (r > c)
{
if (r <= f) //(r, c, f, u) --> (c, r, f, u)
{
t = r; r = c; c = t;
}
else if (r <= u) //(r, c, f, u) --> (c, f, r, u)
{
t = r; r = c; c = t;
t = c; c = f; f = t;
}
else if (r > u) //(r, c, f, u) --> (c, f, u, r)
{
t = r; r = c; c = t;
t = c; c = f; f = t;
t = f; f = u; u = t;
}
}
}
inline void Sort5 (int &r, int &c, int &f, int &u, int &v)
{
Sort4(r,c,f,u);
Sort4(c,f,u,v);
if (r > c)
{
int t = r; r = c; c = t;
}
}
//should be optimized
inline void Sort8 (int &u1, int &u2, int &u3, int &u4, int &u5, int &u6,
int &u7, int &u8)
{
Sort5(u1,u2,u3,u4,u5);
Sort5(u4,u5,u6,u7,u8);
Sort5(u1,u2,u3,u4,u5);
Sort5(u4,u5,u6,u7,u8);
Sort5(u1,u2,u3,u4,u5);
Sort5(u4,u5,u6,u7,u8);
Sort5(u1,u2,u3,u4,u5);
Sort5(u4,u5,u6,u7,u8);
}
}
#endif
+10 -166
View File
@@ -532,69 +532,6 @@ MatrixInverse *DenseMatrix::Inverse() const
return new DenseMatrixInverse(*this);
}
void DenseMatrix::Exponential()
{
MFEM_ASSERT(Height() == Width() && Height() <= 2,
"The matrix must be square and "
<< "of size less than or equal to 2."
<< " Height() = " << Height()
<< ", Width() = " << Width());
switch (Height())
{
case 1:
{
data[0] = std::exp(data[0]);
break;
}
case 2:
{
/// Formulas from Corollary 2.4 of doi:10.1109/9.233156
/// Note typo in the paper, in the prefactor in the equation under (i).
const real_t a = data[0];
const real_t b = data[1];
const real_t c = data[2];
const real_t d = data[3];
const real_t e = (a - d)*(a - d) + 4*b*c;
const real_t f = std::exp((a + d)/2.0);
const real_t g = std::sqrt(std::abs(e)) / 2.0;
if (e == 0)
{
data[0] = 1.0 + (a - d)/2.0;
data[3] = 1.0 - (a - d)/2.0;
}
else if (e > 0)
{
data[0] = std::cosh(g) + (a - d)/2 * std::sinh(g) / g;
data[1] = b * std::sinh(g) / g;
data[2] = c * std::sinh(g) / g;
data[3] = std::cosh(g) - (a - d)/2 * std::sinh(g) / g;
}
else
{
data[0] = std::cos(g) + (a - d)/2 * std::sin(g) / g;
data[1] = b * std::sin(g) / g;
data[2] = c * std::sin(g) / g;
data[3] = std::cos(g) - (a - d)/2 * std::sin(g) / g;
}
for (int i = 0; i < 4; i++)
{
data[i] *= f;
}
break;
}
case 3:
{
MFEM_ABORT("3x3 matrices are not currently supported");
}
default:
{
MFEM_ABORT("Only 1x1 and 2x2 matrices are currently supported");
}
}
}
real_t DenseMatrix::Det() const
{
MFEM_ASSERT(Height() == Width() && Height() > 0,
@@ -647,7 +584,6 @@ real_t DenseMatrix::Det() const
DenseMatrixInverse lu_factors(*this);
return lu_factors.Det();
}
}
// not reachable
@@ -676,24 +612,6 @@ real_t DenseMatrix::Weight() const
real_t F = d[0] * d[3] + d[1] * d[4] + d[2] * d[5];
return sqrt(E * G - F * F);
}
else if ((Height() == 4) && (Width() == 1))
{
return sqrt(data[0] * data[0] + data[1] * data[1] + data[2] * data[2]
+ data[3] * data[3]);
}
else if ((Height() == 4) && (Width() == 3))
{
const double *d = data;
double A = d[0]*d[0] + d[1]*d[1] + d[2]*d[2] + d[3]*d[3];
double B = d[0]*d[4] + d[1]*d[5] + d[2]*d[6] + d[3]*d[7];
double C = d[0]*d[8] + d[1]*d[9] + d[2]*d[10] + d[3]*d[11];
double D = d[4]*d[4] + d[5]*d[5] + d[6]*d[6] + d[7]*d[7];
double E = d[4]*d[8] + d[5]*d[9] + d[6]*d[10] + d[7]*d[11];
double F = d[8]*d[8] + d[9]*d[9] + d[10]*d[10] + d[11]*d[11];
return sqrt( C *( 2*B*E - C*D ) - A*E*E + F * ( A * D - B * B) );
}
mfem_error("DenseMatrix::Weight(): mismatched or unsupported dimensions");
return 0.0;
}
@@ -1461,7 +1379,7 @@ int DenseMatrix::Rank(real_t tol) const
real_t DenseMatrix::CalcSingularvalue(const int i) const
{
MFEM_ASSERT(Height() == Width() && Height() > 0 && Height() < 5,
MFEM_ASSERT(Height() == Width() && Height() > 0 && Height() < 4,
"The matrix must be square and sized 1, 2, or 3 to compute the"
" singular values."
<< " Height() = " << Height()
@@ -1478,15 +1396,9 @@ real_t DenseMatrix::CalcSingularvalue(const int i) const
{
return kernels::CalcSingularvalue<2>(d,i);
}
else if (n == 3)
{
return kernels::CalcSingularvalue<3>(d,i);
}
else
{
Vector sv(n);
SingularValues(sv);
return sv(i);
return kernels::CalcSingularvalue<3>(d,i);
}
}
@@ -2695,7 +2607,7 @@ void AddMult(const DenseMatrix &b, const DenseMatrix &c, DenseMatrix &a)
void CalcAdjugate(const DenseMatrix &a, DenseMatrix &adja)
{
#ifdef MFEM_DEBUG
if (a.Width() > a.Height() || a.Width() < 1 || a.Height() > 4)
if (a.Width() > a.Height() || a.Width() < 1 || a.Height() > 3)
{
mfem_error("CalcAdjugate(...): unsupported dimensions");
}
@@ -2748,7 +2660,7 @@ void CalcAdjugate(const DenseMatrix &a, DenseMatrix &adja)
adja(1,0) = -a(1,0);
adja(1,1) = a(0,0);
}
else if (a.Width() == 3)
else
{
adja(0,0) = a(1,1)*a(2,2)-a(1,2)*a(2,1);
adja(0,1) = a(0,2)*a(2,1)-a(0,1)*a(2,2);
@@ -2762,51 +2674,13 @@ void CalcAdjugate(const DenseMatrix &a, DenseMatrix &adja)
adja(2,1) = a(0,1)*a(2,0)-a(0,0)*a(2,1);
adja(2,2) = a(0,0)*a(1,1)-a(0,1)*a(1,0);
}
else if (a.Width() == 4)
{
adja(0,0) = -a(1,3)*a(2,2)*a(3,1)+a(1,2)*a(2,3)*a(3,1)+a(1,3)*a(2,1)*a(3,2)-a(1,
1)*a(2,3)*a(3,2)-a(1,2)*a(2,1)*a(3,3)+a(1,1)*a(2,2)*a(3,3);
adja(0,1) = a(0,3)*a(2,2)*a(3,1)-a(0,2)*a(2,3)*a(3,1)-a(0,3)*a(2,1)*a(3,2)+a(0,
1)*a(2,3)*a(3,2)+a(0,2)*a(2,1)*a(3,3)-a(0,1)*a(2,2)*a(3,3);
adja(0,2) = -a(0,3)*a(1,2)*a(3,1)+a(0,2)*a(1,3)*a(3,1)+a(0,3)*a(1,1)*a(3,2)-a(0,
1)*a(1,3)*a(3,2)-a(0,2)*a(1,1)*a(3,3)+a(0,1)*a(1,2)*a(3,3);
adja(0,3) = a(0,3)*a(1,2)*a(2,1)-a(0,2)*a(1,3)*a(2,1)-a(0,3)*a(1,1)*a(2,2)+a(0,
1)*a(1,3)*a(2,2)+a(0,2)*a(1,1)*a(2,3)-a(0,1)*a(1,2)*a(2,3);
adja(1,0) = a(1,3)*a(2,2)*a(3,0)-a(1,2)*a(2,3)*a(3,0)-a(1,3)*a(2,0)*a(3,2)+a(1,
0)*a(2,3)*a(3,2)+a(1,2)*a(2,0)*a(3,3)-a(1,0)*a(2,2)*a(3,3);
adja(1,1) = -a(0,3)*a(2,2)*a(3,0)+a(0,2)*a(2,3)*a(3,0)+a(0,3)*a(2,0)*a(3,2)-a(0,
0)*a(2,3)*a(3,2)-a(0,2)*a(2,0)*a(3,3)+a(0,0)*a(2,2)*a(3,3);
adja(1,2) = a(0,3)*a(1,2)*a(3,0)-a(0,2)*a(1,3)*a(3,0)-a(0,3)*a(1,0)*a(3,2)+a(0,
0)*a(1,3)*a(3,2)+a(0,2)*a(1,0)*a(3,3)-a(0,0)*a(1,2)*a(3,3);
adja(1,3) = -a(0,3)*a(1,2)*a(2,0)+a(0,2)*a(1,3)*a(2,0)+a(0,3)*a(1,0)*a(2,2)-a(0,
0)*a(1,3)*a(2,2)-a(0,2)*a(1,0)*a(2,3)+a(0,0)*a(1,2)*a(2,3);
adja(2,0) = -a(1,3)*a(2,1)*a(3,0)+a(1,1)*a(2,3)*a(3,0)+a(1,3)*a(2,0)*a(3,1)-a(1,
0)*a(2,3)*a(3,1)-a(1,1)*a(2,0)*a(3,3)+a(1,0)*a(2,1)*a(3,3);
adja(2,1) = a(0,3)*a(2,1)*a(3,0)-a(0,1)*a(2,3)*a(3,0)-a(0,3)*a(2,0)*a(3,1)+a(0,
0)*a(2,3)*a(3,1)+a(0,1)*a(2,0)*a(3,3)-a(0,0)*a(2,1)*a(3,3);
adja(2,2) = -a(0,3)*a(1,1)*a(3,0)+a(0,1)*a(1,3)*a(3,0)+a(0,3)*a(1,0)*a(3,1)-a(0,
0)*a(1,3)*a(3,1)-a(0,1)*a(1,0)*a(3,3)+a(0,0)*a(1,1)*a(3,3);
adja(2,3) = a(0,3)*a(1,1)*a(2,0)-a(0,1)*a(1,3)*a(2,0)-a(0,3)*a(1,0)*a(2,1)+a(0,
0)*a(1,3)*a(2,1)+a(0,1)*a(1,0)*a(2,3)-a(0,0)*a(1,1)*a(2,3);
adja(3,0) = a(1,2)*a(2,1)*a(3,0)-a(1,1)*a(2,2)*a(3,0)-a(1,2)*a(2,0)*a(3,1)+a(1,
0)*a(2,2)*a(3,1)+a(1,1)*a(2,0)*a(3,2)-a(1,0)*a(2,1)*a(3,2);
adja(3,1) = -a(0,2)*a(2,1)*a(3,0)+a(0,1)*a(2,2)*a(3,0)+a(0,2)*a(2,0)*a(3,1)-a(0,
0)*a(2,2)*a(3,1)-a(0,1)*a(2,0)*a(3,2)+a(0,0)*a(2,1)*a(3,2);
adja(3,2) = a(0,2)*a(1,1)*a(3,0)-a(0,1)*a(1,2)*a(3,0)-a(0,2)*a(1,0)*a(3,1)+a(0,
0)*a(1,2)*a(3,1)+a(0,1)*a(1,0)*a(3,2)-a(0,0)*a(1,1)*a(3,2);
adja(3,3) = -a(0,2)*a(1,1)*a(2,0)+a(0,1)*a(1,2)*a(2,0)+a(0,2)*a(1,0)*a(2,1)-a(0,
0)*a(1,2)*a(2,1)-a(0,1)*a(1,0)*a(2,2)+a(0,0)*a(1,1)*a(2,2);
}
}
void CalcAdjugateTranspose(const DenseMatrix &a, DenseMatrix &adjat)
{
#ifdef MFEM_DEBUG
if (a.Height() != a.Width() || adjat.Height() != adjat.Width() ||
a.Width() != adjat.Width() || a.Width() < 1 || a.Width() > 4)
a.Width() != adjat.Width() || a.Width() < 1 || a.Width() > 3)
{
mfem_error("CalcAdjugateTranspose(...): dimension mismatch");
}
@@ -2822,7 +2696,7 @@ void CalcAdjugateTranspose(const DenseMatrix &a, DenseMatrix &adjat)
adjat(0,1) = -a(1,0);
adjat(1,1) = a(0,0);
}
else if (a.Width() == 3)
else
{
adjat(0,0) = a(1,1)*a(2,2)-a(1,2)*a(2,1);
adjat(1,0) = a(0,2)*a(2,1)-a(0,1)*a(2,2);
@@ -2836,17 +2710,11 @@ void CalcAdjugateTranspose(const DenseMatrix &a, DenseMatrix &adjat)
adjat(1,2) = a(0,1)*a(2,0)-a(0,0)*a(2,1);
adjat(2,2) = a(0,0)*a(1,1)-a(0,1)*a(1,0);
}
else if (a.Width() == 4)
{
CalcAdjugate(a, adjat);
adjat.Transpose();
// mfem_error("CalcAdjugateTranspose(...) - please implement the case for d = 4");
}
}
void CalcInverse(const DenseMatrix &a, DenseMatrix &inva)
{
MFEM_ASSERT(a.Width() <= a.Height() && a.Width() >= 1 && a.Height() <= 4, "");
MFEM_ASSERT(a.Width() <= a.Height() && a.Width() >= 1 && a.Height() <= 3, "");
MFEM_ASSERT(inva.Height() == a.Width(), "incorrect dimensions");
MFEM_ASSERT(inva.Width() == a.Height(), "incorrect dimensions");
@@ -2889,12 +2757,6 @@ void CalcInverse(const DenseMatrix &a, DenseMatrix &inva)
case 3:
kernels::CalcInverse<3>(a.Data(), inva.Data());
break;
case 4:
{
CalcAdjugate(a, inva);
inva *= 1./a.Det();
break;
}
}
}
@@ -2934,22 +2796,15 @@ void CalcInverseTranspose(const DenseMatrix &a, DenseMatrix &inva)
inva(1,2) = (a(0,1)*a(2,0)-a(0,0)*a(2,1))*t;
inva(2,2) = (a(0,0)*a(1,1)-a(0,1)*a(1,0))*t;
break;
case 4:
{
CalcAdjugateTranspose(a, inva);
inva *= t;
break;
}
}
}
void CalcOrtho(const DenseMatrix &J, Vector &n)
{
MFEM_ASSERT( ((J.Height() == 2 && J.Width() == 1)
|| (J.Height() == 3 && J.Width() == 2)
|| (J.Height() == 4 && J.Width() == 3))
|| (J.Height() == 3 && J.Width() == 2))
&& (J.Height() == n.Size()),
"Matrix must be 4x3, 3x2 or 2x1, "
"Matrix must be 3x2 or 2x1, "
<< "and the Vector must be sized with the rows. "
<< " J.Height() = " << J.Height()
<< ", J.Width() = " << J.Width()
@@ -2962,23 +2817,12 @@ void CalcOrtho(const DenseMatrix &J, Vector &n)
n(0) = d[1];
n(1) = -d[0];
}
else if (J.Height() == 3)
else
{
n(0) = d[1]*d[5] - d[2]*d[4];
n(1) = d[2]*d[3] - d[0]*d[5];
n(2) = d[0]*d[4] - d[1]*d[3];
}
else if (J.Height() == 4)
{
n(0) = -d[3]*d[6]*d[9]+d[2]*d[7]*d[9]+d[3]*d[5]*d[10]-d[1]*d[7]*d[10]
-d[2]*d[5]*d[11]+d[1]*d[6]*d[11];
n(1) = d[3]*d[6]*d[8]-d[2]*d[7]*d[8]-d[3]*d[4]*d[10]+d[0]*d[7]*d[10]
+d[2]*d[4]*d[11]-d[0]*d[6]*d[11];
n(2) = -d[3]*d[5]*d[8]+d[1]*d[7]*d[8]+d[3]*d[4]*d[9]-d[0]*d[7]*d[9]
-d[1]*d[4]*d[11]+d[0]*d[5]*d[11];
n(3) = d[2]*d[5]*d[8]-d[1]*d[6]*d[8]-d[2]*d[4]*d[9]+d[0]*d[6]*d[9]
+d[1]*d[4]*d[10]-d[0]*d[5]*d[10];
}
}
void MultAAt(const DenseMatrix &a, DenseMatrix &aat)
-4
View File
@@ -207,10 +207,6 @@ public:
/// Replaces the current matrix with its square root inverse
void SquareRootInverse();
/// Replaces the current matrix with its exponential
/// (currently only supports 2x2 matrices)
void Exponential();
/// Calculates the determinant of the matrix
/// (optimized for 2x2, 3x3, and 4x4 matrices)
real_t Det() const;
+66 -71
View File
@@ -410,19 +410,19 @@ HYPRE_Int HypreParVector::Randomize(HYPRE_Int seed)
return hypre_ParVectorSetRandomValues(x,seed);
}
void HypreParVector::Print(const std::string &fname) const
void HypreParVector::Print(const char *fname) const
{
hypre_ParVectorPrint(x, fname.c_str());
hypre_ParVectorPrint(x,fname);
}
void HypreParVector::Read(MPI_Comm comm, const std::string &fname)
void HypreParVector::Read(MPI_Comm comm, const char *fname)
{
if (own_ParVector)
{
hypre_ParVectorDestroy(x);
}
data.Delete();
x = hypre_ParVectorRead(comm, fname.c_str());
x = hypre_ParVectorRead(comm, fname);
own_ParVector = true;
_SetDataAndSize_();
}
@@ -792,44 +792,6 @@ static void SyncBackBoolCSR(Table *bool_csr, MemoryIJData &mem_csr)
}
}
/// @brief Return the size of the partitioning arrays, see @ref
/// hypre_partitioning_descr.
static int GetPartitioningArraySize(MPI_Comm comm)
{
if (HYPRE_AssumedPartitionCheck())
{
return 2;
}
else
{
int comm_size;
MPI_Comm_size(comm, &comm_size);
return comm_size + 1;
}
}
/// @brief Returns true if the row and col arrays are equal (across all MPI
/// ranks).
///
/// Both @a row and @a col are partitioning arrays, whose length is returned by
/// GetPartitioningArraySize(), see @ref hypre_partitioning_descr.
static bool RowAndColStartsAreEqual(MPI_Comm comm, HYPRE_BigInt *rows,
HYPRE_BigInt *cols)
{
const int part_size = GetPartitioningArraySize(comm);
bool are_equal = true;
for (int i = 0; i < part_size; ++i)
{
if (rows[i] != cols[i])
{
are_equal = false;
break;
}
}
MPI_Allreduce(MPI_IN_PLACE, &are_equal, 1, MPI_C_BOOL, MPI_LAND, comm);
return are_equal;
}
// static method
signed char HypreParMatrix::HypreCsrToMem(hypre_CSRMatrix *h_mat,
MemoryType h_mat_mt,
@@ -962,7 +924,7 @@ HypreParMatrix::HypreParMatrix(MPI_Comm comm,
hypre_ParCSRMatrixSetNumNonzeros(A);
/* Make sure that the first entry in each row is the diagonal one. */
if (RowAndColStartsAreEqual(comm, row_starts, col_starts))
if (row_starts == col_starts)
{
HypreReadWrite();
hypre_CSRMatrixReorder(hypre_ParCSRMatrixDiag(A));
@@ -1012,12 +974,11 @@ HypreParMatrix::HypreParMatrix(MPI_Comm comm,
hypre_ParCSRMatrixSetNumNonzeros(A);
/* Make sure that the first entry in each row is the diagonal one. */
if (RowAndColStartsAreEqual(comm, row_starts, col_starts))
if (row_starts == col_starts)
{
HypreReadWrite();
hypre_CSRMatrixReorder(hypre_ParCSRMatrixDiag(A));
// update diag, if needed
if (!own_diag_offd) { SyncBackCSR(diag, mem_diag); }
SyncBackCSR(diag, mem_diag); // update diag, if needed
}
hypre_MatvecCommPkgCreate(A);
@@ -1070,7 +1031,7 @@ HypreParMatrix::HypreParMatrix(
hypre_ParCSRMatrixSetNumNonzeros(A);
/* Make sure that the first entry in each row is the diagonal one. */
if (RowAndColStartsAreEqual(comm, row_starts, col_starts))
if (row_starts == col_starts)
{
hypre_CSRMatrixReorder(hypre_ParCSRMatrixDiag(A));
}
@@ -1132,7 +1093,7 @@ HypreParMatrix::HypreParMatrix(MPI_Comm comm,
hypre_CSRMatrixDestroy(csr_a);
/* Make sure that the first entry in each row is the diagonal one. */
if (RowAndColStartsAreEqual(comm, row_starts, col_starts))
if (row_starts == col_starts)
{
hypre_CSRMatrixReorder(hypre_ParCSRMatrixDiag(new_A));
}
@@ -1171,7 +1132,7 @@ HypreParMatrix::HypreParMatrix(MPI_Comm comm,
hypre_ParCSRMatrixSetNumNonzeros(A);
/* Make sure that the first entry in each row is the diagonal one. */
if (RowAndColStartsAreEqual(comm, row_starts, col_starts))
if (row_starts == col_starts)
{
HypreReadWrite();
hypre_CSRMatrixReorder(hypre_ParCSRMatrixDiag(A));
@@ -1286,10 +1247,11 @@ HypreParMatrix::HypreParMatrix(MPI_Comm comm, int nrows,
Init();
// Determine partitioning size, and my column start and end
const int part_size = GetPartitioningArraySize(comm);
int part_size;
HYPRE_BigInt my_col_start, my_col_end; // my range: [my_col_start, my_col_end)
if (HYPRE_AssumedPartitionCheck())
{
part_size = 2;
my_col_start = cols[0];
my_col_end = cols[1];
}
@@ -1297,14 +1259,15 @@ HypreParMatrix::HypreParMatrix(MPI_Comm comm, int nrows,
{
int myid;
MPI_Comm_rank(comm, &myid);
MPI_Comm_size(comm, &part_size);
part_size++;
my_col_start = cols[myid];
my_col_end = cols[myid+1];
}
// Copy in the row and column partitionings
const bool rows_eq_cols = RowAndColStartsAreEqual(comm, rows, cols);
HYPRE_BigInt *row_starts, *col_starts;
if (rows_eq_cols)
if (rows == cols)
{
row_starts = col_starts = mfem_hypre_TAlloc_host(HYPRE_BigInt, part_size);
for (int i = 0; i < part_size; i++)
@@ -1397,14 +1360,14 @@ HypreParMatrix::HypreParMatrix(MPI_Comm comm, int nrows,
}
hypre_ParCSRMatrixSetNumNonzeros(A);
// Make sure that the first entry in each row is the diagonal one.
if (rows_eq_cols)
/* Make sure that the first entry in each row is the diagonal one. */
if (row_starts == col_starts)
{
hypre_CSRMatrixReorder(hypre_ParCSRMatrixDiag(A));
}
#if MFEM_HYPRE_VERSION > 22200
mfem_hypre_TFree_host(row_starts);
if (!rows_eq_cols)
if (rows != cols)
{
mfem_hypre_TFree_host(col_starts);
}
@@ -1517,7 +1480,16 @@ void HypreParMatrix::CopyRowStarts()
return;
}
const int row_starts_size = GetPartitioningArraySize(hypre_ParCSRMatrixComm(A));
int row_starts_size;
if (HYPRE_AssumedPartitionCheck())
{
row_starts_size = 2;
}
else
{
MPI_Comm_size(hypre_ParCSRMatrixComm(A), &row_starts_size);
row_starts_size++; // num_proc + 1
}
HYPRE_BigInt *old_row_starts = hypre_ParCSRMatrixRowStarts(A);
HYPRE_BigInt *new_row_starts = mfem_hypre_CTAlloc_host(HYPRE_BigInt,
@@ -1548,7 +1520,16 @@ void HypreParMatrix::CopyColStarts()
return;
}
const int col_starts_size = GetPartitioningArraySize(hypre_ParCSRMatrixComm(A));
int col_starts_size;
if (HYPRE_AssumedPartitionCheck())
{
col_starts_size = 2;
}
else
{
MPI_Comm_size(hypre_ParCSRMatrixComm(A), &col_starts_size);
col_starts_size++; // num_proc + 1
}
HYPRE_BigInt *old_col_starts = hypre_ParCSRMatrixColStarts(A);
HYPRE_BigInt *new_col_starts = mfem_hypre_CTAlloc_host(HYPRE_BigInt,
@@ -2310,8 +2291,13 @@ void HypreParMatrix::Threshold(real_t threshold)
A = parcsr_A_ptr;
hypre_ParCSRMatrixSetNumNonzeros(A);
// Make sure that the first entry in each row is the diagonal one.
if (RowAndColStartsAreEqual(comm, row_starts, col_starts))
/* Make sure that the first entry in each row is the diagonal one. */
#if MFEM_HYPRE_VERSION <= 22200
if (row_starts == col_starts)
#else
if ((row_starts[0] == col_starts[0]) &&
(row_starts[1] == col_starts[1]))
#endif
{
hypre_CSRMatrixReorder(hypre_ParCSRMatrixDiag(A));
}
@@ -2637,38 +2623,48 @@ void HypreParMatrix::EliminateBC(const Array<int> &ess_dofs,
mfem_hypre_TFree(eliminate_col);
}
void HypreParMatrix::Print(const std::string &fname, HYPRE_Int offi,
void HypreParMatrix::Print(const char *fname, HYPRE_Int offi,
HYPRE_Int offj) const
{
HostRead();
hypre_ParCSRMatrixPrintIJ(A, offi, offj, fname.c_str());
hypre_ParCSRMatrixPrintIJ(A,offi,offj,fname);
HypreRead();
}
void HypreParMatrix::Read(MPI_Comm comm, const std::string &fname)
void HypreParMatrix::Read(MPI_Comm comm, const char *fname)
{
HYPRE_ParCSRMatrix A_parcsr;
Destroy();
Init();
HYPRE_Int base_i, base_j;
hypre_ParCSRMatrixReadIJ(comm, fname.c_str(), &base_i, &base_j, &A_parcsr);
WrapHypreParCSRMatrix(A_parcsr, true);
hypre_ParCSRMatrixReadIJ(comm, fname, &base_i, &base_j, &A);
hypre_ParCSRMatrixSetNumNonzeros(A);
if (!hypre_ParCSRMatrixCommPkg(A)) { hypre_MatvecCommPkgCreate(A); }
height = GetNumRows();
width = GetNumCols();
}
void HypreParMatrix::Read_IJMatrix(MPI_Comm comm, const std::string &fname)
void HypreParMatrix::Read_IJMatrix(MPI_Comm comm, const char *fname)
{
Destroy();
Init();
HYPRE_IJMatrix A_ij;
HYPRE_IJMatrixRead(fname.c_str(), comm, 5555, &A_ij); // HYPRE_PARCSR = 5555
HYPRE_IJMatrixRead(fname, comm, 5555, &A_ij); // HYPRE_PARCSR = 5555
HYPRE_ParCSRMatrix A_parcsr;
HYPRE_IJMatrixGetObject(A_ij, (void**) &A_parcsr);
WrapHypreParCSRMatrix(A_parcsr, true);
A = (hypre_ParCSRMatrix*)A_parcsr;
hypre_ParCSRMatrixSetNumNonzeros(A);
if (!hypre_ParCSRMatrixCommPkg(A)) { hypre_MatvecCommPkgCreate(A); }
height = GetNumRows();
width = GetNumCols();
}
void HypreParMatrix::PrintCommPkg(std::ostream &os) const
@@ -3513,7 +3509,6 @@ HypreSmoother::HypreSmoother() : Solver()
omega = 1.0;
poly_order = 2;
poly_fraction = .3;
poly_iter = 10;
lambda = 0.5;
mu = -0.5;
taubin_iter = 40;
+6 -10
View File
@@ -364,10 +364,10 @@ public:
HYPRE_Int Randomize(HYPRE_Int seed);
/// Prints the locally owned rows in parallel
void Print(const std::string &fname) const;
void Print(const char *fname) const;
/// Reads a HypreParVector from files saved with HypreParVector::Print
void Read(MPI_Comm comm, const std::string &fname);
void Read(MPI_Comm comm, const char *fname);
/// Calls hypre's destroy function
~HypreParVector();
@@ -919,14 +919,12 @@ public:
const Memory<HYPRE_Int> &GetDiagMemoryJ() const { return mem_diag.J; }
const Memory<real_t> &GetDiagMemoryData() const { return mem_diag.data; }
/// @brief Prints the locally owned rows in parallel. The resulting files can
/// be read with Read_IJMatrix().
void Print(const std::string &fname, HYPRE_Int offi = 0,
HYPRE_Int offj = 0) const;
/// Prints the locally owned rows in parallel
void Print(const char *fname, HYPRE_Int offi = 0, HYPRE_Int offj = 0) const;
/// Reads the matrix from a file
void Read(MPI_Comm comm, const std::string &fname);
void Read(MPI_Comm comm, const char *fname);
/// Read a matrix saved as a HYPRE_IJMatrix
void Read_IJMatrix(MPI_Comm comm, const std::string &fname);
void Read_IJMatrix(MPI_Comm comm, const char *fname);
/// Print information about the hypre_ParCSRCommPkg of the HypreParMatrix.
void PrintCommPkg(std::ostream &out = mfem::out) const;
@@ -1049,8 +1047,6 @@ protected:
real_t poly_fraction;
/// Apply the polynomial smoother to A or D^{-1/2} A D^{-1/2}
int poly_scale;
/// Number of CG iterations to determine eigenvalue estimates, 0 means the max norm
int poly_iter;
/// Taubin's lambda-mu method parameters
real_t lambda;
+52 -130
View File
@@ -309,51 +309,18 @@ public:
/// Base abstract class for first order time dependent operators.
/** Operator of the form: (u,t) -> k(u,t), where k generally solves the
algebraic equation F(u,k,t) = G(u,t). The functions F and G represent the
_implicit_ and _explicit_ parts of the operator, respectively.
A common use for this class is representing a differential algebraic
equation of the form $ F(y,\frac{dy}{dt},t) = G(y,t) $.
For example, consider an ordinary differential equation of the form
$ M \frac{dy}{dt} = g(y,t) $. There are various ways of expressing this ODE
as a TimeDependentOperator depending on the choices for F and G. Here are
some common choices:
1. F(u,k,t) = k and G(u,t) = inv(M) g(u,t),
2. F(u,k,t) = M k and G(u,t) = g(u,t),
3. F(u,k,t) = M k - g(u,t) and G(u,t) = 0.
Note that depending on the ODE solver, some of the above choices may be
preferable to the others.
*/
/** Operator of the form: (x,t) -> f(x,t), where k = f(x,t) generally solves the
algebraic equation F(x,k,t) = G(x,t). The functions F and G represent the
_implicit_ and _explicit_ parts of the operator, respectively. For explicit
operators, F(x,k,t) = k, so f(x,t) = G(x,t). */
class TimeDependentOperator : public Operator
{
public:
/// Enum used to describe the form of the time-dependent operator.
/** The type should be set by classes derived from TimeDependentOperator to
describe the form, in terms of the functions F and G, used by the
specific derived class. This information can be queried by classes or
functions (like time stepping algorithms) to make choices about the
algorithm to use, or to ensure that the TimeDependentOperator uses the
form expected by the class/function.
For example, assume that a derived class is implementing the ODE
$M \frac{dy}{dt} = g(y,t)$ and chooses to define $F(u,k,t) = M k$ and
$G(u,t) = g(u,t)$. Then it cannot use type EXPLICIT, unless $M = I$, or
type HOMOGENEOUS, unless $g(u,t) = 0$. If, on the other hand, the derived
class chooses to define $F(u,k,t) = k$ and $G(u,t) = M^{-1} g(y,t)$, then
the natural choice is to set the type to EXPLICIT, even though setting it
to IMPLICIT is also not wrong -- doing so will simply fail to inform
methods that query this information that it uses a more specific
implementation, EXPLICIT, that may allow the use of algorithms that
support only the EXPLICIT type. */
enum Type
{
EXPLICIT, ///< This type assumes F(u,k,t) = k.
EXPLICIT, ///< This type assumes F(x,k,t) = k, i.e. k = f(x,t) = G(x,t).
IMPLICIT, ///< This is the most general type, no assumptions on F and G.
HOMOGENEOUS ///< This type assumes that G(u,t) = 0.
HOMOGENEOUS ///< This type assumes that G(x,t) = 0.
};
/// Evaluation mode. See SetEvalMode() for details.
@@ -361,30 +328,29 @@ public:
{
/** Normal evaluation. */
NORMAL,
/** Assuming additive split, k(u,t) = k1(u,t) + k2(u,t), evaluate the
first term, k1. */
/** Assuming additive split, f(x,t) = f1(x,t) + f2(x,t), evaluate the
first term, f1. */
ADDITIVE_TERM_1,
/** Assuming additive split, k(u,t) = k1(u,t) + k2(u,t), evaluate the
second term, k2. */
/** Assuming additive split, f(x,t) = f1(x,t) + f2(x,t), evaluate the
second term, f2. */
ADDITIVE_TERM_2
};
protected:
real_t t; ///< Current time.
Type type; /**< @brief Describes the form of the TimeDependentOperator, see
the documentation of #Type. */
Type type; ///< Describes the form of the TimeDependentOperator.
EvalMode eval_mode; ///< Current evaluation mode.
public:
/** @brief Construct a "square" TimeDependentOperator (u,t) -> k(u,t), where
u and k have the same dimension @a n. */
/** @brief Construct a "square" TimeDependentOperator y = f(x,t), where x and
y have the same dimension @a n. */
explicit TimeDependentOperator(int n = 0, real_t t_ = 0.0,
Type type_ = EXPLICIT)
: Operator(n) { t = t_; type = type_; eval_mode = NORMAL; }
/** @brief Construct a TimeDependentOperator (u,t) -> k(u,t), where u and k
have dimensions @a w and @a h, respectively. */
TimeDependentOperator(int h, int w, double t_ = 0.0, Type type_ = EXPLICIT)
/** @brief Construct a TimeDependentOperator y = f(x,t), where x and y have
dimensions @a w and @a h, respectively. */
TimeDependentOperator(int h, int w, real_t t_ = 0.0, Type type_ = EXPLICIT)
: Operator(h, w) { t = t_; type = type_; eval_mode = NORMAL; }
/// Read the currently set time.
@@ -407,7 +373,7 @@ public:
/** The evaluation mode is a switch that allows time-stepping methods to
request evaluation of separate components/terms of the time-dependent
operator. For example, IMEX methods typically assume additive split of
the operator: k(u,t) = k1(u,t) + k2(u,t) and they rely on the ability to
the operator: f(x,t) = f1(x,t) + f2(x,t) and they rely on the ability to
evaluate the two terms separately.
Generally, setting the evaluation mode should affect the behavior of all
@@ -418,104 +384,62 @@ public:
{ eval_mode = new_eval_mode; }
/** @brief Perform the action of the explicit part of the operator, G:
@a v = G(@a u, t) where t is the current time.
@a y = G(@a x, t) where t is the current time.
Presently, this method is used by some PETSc ODE solvers, for more
details, see the PETSc Manual. */
virtual void ExplicitMult(const Vector &u, Vector &v) const;
virtual void ExplicitMult(const Vector &x, Vector &y) const;
/** @brief Perform the action of the implicit part of the operator, F:
@a v = F(@a u, @a k, t) where t is the current time.
@a y = F(@a x, @a k, t) where t is the current time.
Presently, this method is used by some PETSc ODE solvers, for more
details, see the PETSc Manual.*/
virtual void ImplicitMult(const Vector &u, const Vector &k, Vector &v) const;
virtual void ImplicitMult(const Vector &x, const Vector &k, Vector &y) const;
/** @brief Perform the action of the operator (u,t) -> k(u,t) where t is the
current time set by SetTime() and @a k satisfies
F(@a u, @a k, t) = G(@a u, t).
/** @brief Perform the action of the operator: @a y = k = f(@a x, t), where
k solves the algebraic equation F(@a x, k, t) = G(@a x, t) and t is the
current time. */
virtual void Mult(const Vector &x, Vector &y) const;
For solving an ordinary differential equation of the form
$ M \frac{dy}{dt} = g(y,t) $, recall that F and G can be defined in
various ways, e.g.:
/** @brief Solve the equation: @a k = f(@a x + @a dt @a k, t), for the
unknown @a k at the current time t.
1. F(u,k,t) = k and G(u,t) = inv(M) g(u,t)
2. F(u,k,t) = M k and G(u,t) = g(u,t)
3. F(u,k,t) = M k - g(u,t) and G(u,t) = 0.
For general F and G, the equation for @a k becomes:
F(@a x + @a dt @a k, @a k, t) = G(@a x + @a dt @a k, t).
Regardless of the choice of F and G, this function should always compute
@a k = inv(M) g(@a u, t). */
virtual void Mult(const Vector &u, Vector &v) const override;
The input vector @a x corresponds to time index (or cycle) n, while the
currently set time, #t, and the result vector @a k correspond to time
index n+1. The time step @a dt corresponds to the time interval between
cycles n and n+1.
/** @brief Solve for the unknown @a k, at the current time t, the following
equation:
F(@a u + @a gamma @a k, @a k, t) = G(@a u + @a gamma @a k, t).
For solving an ordinary differential equation of the form
$ M \frac{dy}{dt} = g(y,t) $, recall that F and G can be defined in
various ways, e.g.:
1. F(u,k,t) = k and G(u,t) = inv(M) g(u,t)
2. F(u,k,t) = M k and G(u,t) = g(u,t)
3. F(u,k,t) = M k - g(u,t) and G(u,t) = 0
Regardless of the choice of F and G, this function should solve for @a k
in M @a k = g(@a u + @a gamma @a k, t).
To see how @a k can be useful, consider the backward Euler method defined
by $ y(t + \Delta t) = y(t) + \Delta t k_0 $ where
$ M k_0 = g \big( y(t) + \Delta t k_0, t + \Delta t \big) $. A backward
Euler integrator can use @a k from this function for $k_0$, with the call
using @a u set to $ y(t) $, @a gamma set to $ \Delta t$, and time set to
$t + \Delta t$. See class BackwardEulerSolver.
Generalizing further, consider a diagonally implicit Runge-Kutta (DIRK)
method defined by
$ y(t + \Delta t) = y(t) + \Delta t \sum_{i=1}^s b_i k_i $ where
$ M k_i = g \big( y(t) + \Delta t \sum_{j=1}^i a_{ij} k_j,
t + c_i \Delta t \big) $.
A DIRK integrator can use @a k from this function, with @a u set to
$ y(t) + \Delta t \sum_{j=1}^{i-1} a_{ij} k_j $ and @a gamma set to
$ a_{ii} \Delta t $, for $ k_i $. For example, see class SDIRK33Solver.
This method allows for the abstract implementation of some time
integration methods, including diagonal implicit Runge-Kutta (DIRK)
methods and the backward Euler method in particular.
If not re-implemented, this method simply generates an error. */
virtual void ImplicitSolve(const real_t gamma, const Vector &u, Vector &k);
virtual void ImplicitSolve(const real_t dt, const Vector &x, Vector &k);
/** @brief Return an Operator representing (dF/dk @a shift + dF/du) at the
given @a u, @a k, and the currently set time.
/** @brief Return an Operator representing (dF/dk @a shift + dF/dx) at the
given @a x, @a k, and the currently set time.
Presently, this method is used by some PETSc ODE solvers, for more
details, see the PETSc Manual. */
virtual Operator& GetImplicitGradient(const Vector &u, const Vector &k,
virtual Operator& GetImplicitGradient(const Vector &x, const Vector &k,
real_t shift) const;
/** @brief Return an Operator representing dG/du at the given point @a u and
/** @brief Return an Operator representing dG/dx at the given point @a x and
the currently set time.
Presently, this method is used by some PETSc ODE solvers, for more
details, see the PETSc Manual. */
virtual Operator& GetExplicitGradient(const Vector &u) const;
virtual Operator& GetExplicitGradient(const Vector &x) const;
/** @brief Setup a linear system as needed by some SUNDIALS ODE solvers.
/** @brief Setup the ODE linear system $ A(x,t) = (I - gamma J) $ or
$ A = (M - gamma J) $, where $ J(x,t) = \frac{df}{dt(x,t)} $.
For solving an ordinary differential equation of the form
$ M \frac{dy}{dt} = g(y,t) $, recall that F and G can be defined as one
of the following:
1. F(u,k,t) = k and G(u,t) = inv(M) g(u,t)
2. F(u,k,t) = M k and G(u,t) = g(u,t)
3. F(u,k,t) = M k - g(u,t) and G(u,t) = 0
This function performs setup to solve $ A x = b $ where A is either
1. A(@a y,t) = I - @a gamma inv(M) J(@a y,t)
2. A(@a y,t) = M - @a gamma J(@a y,t)
3. A(@a y,t) = M - @a gamma J(@a y,t)
with J = dg/dy (or a reasonable approximation thereof).
@param[in] y The state at which A(@a y,t) should be evaluated.
@param[in] v The value of inv(M) g(y,t) for 1 or g(y,t) for 2 & 3.
@param[in] x The state at which $A(x,t)$ should be evaluated.
@param[in] fx The current value of the ODE rhs function, $f(x,t)$.
@param[in] jok Flag indicating if the Jacobian should be updated.
@param[out] jcur Flag to signal if the Jacobian was updated.
@param[in] gamma The scaled time step value.
@@ -524,10 +448,10 @@ public:
Presently, this method is used by SUNDIALS ODE solvers, for more
details, see the SUNDIALS User Guides. */
virtual int SUNImplicitSetup(const Vector &y, const Vector &v,
virtual int SUNImplicitSetup(const Vector &x, const Vector &fx,
int jok, int *jcur, real_t gamma);
/** @brief Solve the ODE linear system A @a x = @a b, where A is defined by
/** @brief Solve the ODE linear system $ A x = b $ as setup by
the method SUNImplicitSetup().
@param[in] b The linear system right-hand side.
@@ -540,8 +464,7 @@ public:
details, see the SUNDIALS User Guides. */
virtual int SUNImplicitSolve(const Vector &b, Vector &x, real_t tol);
/** @brief Setup the mass matrix in the ODE system
$ M \frac{dy}{dt} = g(y,t) $ .
/** @brief Setup the mass matrix in the ODE system $ M y' = f(y,t) $ .
If not re-implemented, this method simply generates an error.
@@ -549,8 +472,8 @@ public:
details, see the ARKode User Guide. */
virtual int SUNMassSetup();
/** @brief Solve the mass matrix linear system M @a x = @a b, where M is
defined by the method SUNMassSetup().
/** @brief Solve the mass matrix linear system $ M x = b $
as setup by the method SUNMassSetup().
@param[in] b The linear system right-hand side.
@param[in,out] x On input, the initial guess. On output, the solution.
@@ -562,8 +485,7 @@ public:
details, see the ARKode User Guide. */
virtual int SUNMassSolve(const Vector &b, Vector &x, real_t tol);
/** @brief Compute the mass matrix-vector product @a v = M @a x, where M is
defined by the method SUNMassSetup().
/** @brief Compute the mass matrix-vector product $ v = M x $ .
@param[in] x The vector to multiply.
@param[out] v The result of the matrix-vector product.
+5 -14
View File
@@ -58,20 +58,6 @@ DenseSymmetricMatrix &DenseSymmetricMatrix::operator=(real_t c)
return *this;
}
DenseSymmetricMatrix &DenseSymmetricMatrix::operator=(const DenseSymmetricMatrix
&m)
{
SetSize(m.height);
const int hw = m.GetStoredSize();
for (int i = 0; i < hw; i++)
{
data[i] = m.data[i];
}
return *this;
}
real_t &DenseSymmetricMatrix::Elem(int i, int j)
{
return (*this)(i,j);
@@ -103,6 +89,11 @@ MatrixInverse *DenseSymmetricMatrix::Inverse() const
return nullptr;
}
void DenseSymmetricMatrix::Print (std::ostream & os, int width_) const
{
mfem_error("DenseSymmetricMatrix::Print() not implemented!");
}
DenseSymmetricMatrix::~DenseSymmetricMatrix()
{
data.Delete();
+3 -3
View File
@@ -102,9 +102,6 @@ public:
DenseSymmetricMatrix &operator*=(real_t c);
/// Sets the matrix size and elements equal to those of m
DenseSymmetricMatrix &operator=(const DenseSymmetricMatrix &m);
std::size_t MemoryUsage() const { return data.Capacity() * sizeof(real_t); }
/// Shortcut for mfem::Read( GetMemory(), TotalSize(), on_dev).
@@ -137,6 +134,9 @@ public:
/// Returns a pointer to (an approximation) of the matrix inverse.
virtual MatrixInverse *Inverse() const;
/// Prints matrix to stream out.
virtual void Print (std::ostream & out = mfem::out, int width_ = 4) const;
/// Destroys the symmetric matrix.
virtual ~DenseSymmetricMatrix();
};
+1 -5
View File
@@ -30,8 +30,6 @@ set(SRCS
vertex.cpp
vtk.cpp
wedge.cpp
pentatope.cpp
tesseract.cpp
submesh/submesh.cpp
submesh/submesh_utils.cpp
submesh/transfermap.cpp
@@ -59,13 +57,11 @@ set(HDRS
vertex.hpp
vtk.hpp
wedge.hpp
pentatope.hpp
tesseract.hpp
submesh/submesh.hpp
submesh/submesh_utils.hpp
submesh/transfer_category.hpp
submesh/transfermap.hpp
)
)
if (MFEM_USE_MPI)
list(APPEND SRCS
+1 -16
View File
@@ -39,8 +39,7 @@ public:
/// Constants for the classes derived from Element.
enum Type { POINT, SEGMENT, TRIANGLE, QUADRILATERAL,
TETRAHEDRON, HEXAHEDRON, WEDGE, PYRAMID,
PENTATOPE, TESSERACT
TETRAHEDRON, HEXAHEDRON, WEDGE, PYRAMID
};
/// Default element constructor.
@@ -77,22 +76,8 @@ public:
virtual int GetNEdges() const = 0;
virtual int GetNPlanars() const
{
mfem_error ("Element::GetNPlanars(...)\n"
" is not implemented for this class!");
return 0;
}
virtual const int *GetEdgeVertices(int) const = 0;
virtual const int *GetPlanarsVertices(int) const
{
mfem_error ("Element::GetPlanarsVertices(...)\n"
" is not implemented for this class!");
return NULL;
}
/// @deprecated Use GetNFaces(void) and GetNFaceVertices(int) instead.
MFEM_DEPRECATED virtual int GetNFaces(int &nFaceVertices) const = 0;
+32 -2214
View File
File diff suppressed because it is too large Load Diff
+2 -158
View File
@@ -70,7 +70,6 @@ protected:
int NumOfVertices, NumOfElements, NumOfBdrElements;
int NumOfEdges, NumOfFaces;
int NumOfPlanars;
/** These variables store the number of Interior and Boundary faces. Calling
fes->GetMesh()->GetNBE() doesn't return the expected value in 3D because
periodic meshes in 3D have some of their faces marked as boundary for
@@ -98,13 +97,6 @@ protected:
Array<Vertex> vertices;
Array<Element *> boundary;
Array<Element *> faces;
Array<Element *> planars; //only for 4d meshes
Array<bool> swappedFaces; //only for 4d meshes
Array<bool> swappedBdr; //only for 4d meshes
// Flag to indicate if two neighbours are reflected neighbours (4D)
bool is_reflected;
/** @brief This structure stores the low level information necessary to
interpret the configuration of elements on a specific face. This
@@ -234,12 +226,10 @@ protected:
Table *el_to_edge;
Table *el_to_face;
Table *el_to_planar; // for 4D
Table *el_to_el;
Array<int> be_to_face; // faces = vertices (1D), edges (2D), faces (3D)
Table *bel_to_edge; // for 3D only
Table *bel_to_planar; // for 4D only
// Note that the following tables are owned by this class and should not be
// deleted by the caller. Of these three tables, only face_edge and
@@ -248,13 +238,9 @@ protected:
mutable Table *face_edge; // Returned by GetFaceEdgeTable().
mutable Table *edge_vertex; // Returned by GetEdgeVertexTable().
mutable Table *face_planar; // for 4D
mutable Table *planar_edge; // for 4D
IsoparametricTransformation Transformation, Transformation2;
IsoparametricTransformation BdrTransformation;
IsoparametricTransformation FaceTransformation, PlanarTransformation,
EdgeTransformation;
IsoparametricTransformation FaceTransformation, EdgeTransformation;
FaceElementTransformations FaceElemTr;
// refinement embeddings for forward compatibility with NCMesh
@@ -287,8 +273,6 @@ public:
typedef Geometry::Constants<Geometry::CUBE> hex_t;
typedef Geometry::Constants<Geometry::PRISM> pri_t;
typedef Geometry::Constants<Geometry::PYRAMID> pyr_t;
typedef Geometry::Constants<Geometry::PENTATOPE> pent_t;
typedef Geometry::Constants<Geometry::TESSERACT> tess_t;
enum Operation { NONE, REFINE, DEREFINE, REBALANCE };
@@ -371,10 +355,6 @@ protected:
void GetEdgeOrdering(const DSTable &v_to_v, Array<int> &order);
virtual void MarkTetMeshForRefinement(const DSTable &v_to_v);
// Removed 2025 November
// virtual void MarkTetMeshForRefinement(DSTable &v_to_v);
virtual void MakeReflectedPentMesh();
// Methods used to prepare and apply permutation of the mesh nodes assuming
// that the mesh elements may be rotated (e.g. to mark triangle or tet edges
// for refinement) between the two calls - PrepareNodeReorder() and
@@ -385,8 +365,6 @@ protected:
STable3D *GetFacesTable();
STable3D *GetElementToFaceTable(int ret_ftbl = 0);
STable4D *GetElementToFaceTable4D(int ret_ftbl = 0);
STable3D *GetElementToPlanarTable(int ret_ftbl = 0);
/** Red refinement. Element with index i is refined. The default
red refinement for now is Uniform. */
@@ -409,9 +387,6 @@ protected:
/// Bisect a boundary triangle: boundary element with index @a i is bisected.
void BdrBisection(int i, const HashTable<Hashed2> &);
void RedRefinementPentatope(int i, HashTable<Hashed2> & v_to_v);
void RedRefinementBoundaryTet(int i, HashTable<Hashed2> & v_to_v);
/** Uniform Refinement. Element with index i is refined uniformly. */
void UniformRefinement(int i, const DSTable &, int *, int *, int *);
@@ -501,8 +476,6 @@ protected:
int i) const;
void GetLocalQuadToPyrTransformation(IsoparametricTransformation &loc,
int i) const;
void GetLocalTetToPentTransformation(IsoparametricTransformation &loc,
int i) const;
/** Used in GetFaceElementTransformations to account for the fact that a
slave face occupies only a portion of its master face. */
@@ -540,8 +513,6 @@ protected:
/// Returns the orientation of "test" relative to "base"
static int GetTetOrientation(const int *base, const int *test);
static int GetHexOrientation(const int * base, const int * test);
static void GetElementArrayEdgeTable(const Array<Element*> &elem_array,
const DSTable &v_to_v,
Table &el_to_edge);
@@ -563,15 +534,6 @@ protected:
void AddQuadFaceElement (int lf, int gf, int el,
int v0, int v1, int v2, int v3);
void AddTetrahedralFaceElement(int lf, int gf, int el,
int v0, int v1, int v2, int v3);
void AddHexahedralFaceElement(int lf, int gf, int el,
int v0, int v1, int v2, int v3,
int v4, int v5, int v6, int v7);
/** For a serial Mesh, return true if the face is interior. For a parallel
ParMesh return true if the face is interior or shared. In parallel, this
method only works if the face neighbor data is exchanged. */
@@ -580,14 +542,10 @@ protected:
return FaceIsInterior(FaceNo) || (faces_info[FaceNo].Elem2Inf >= 0);
}
//swap first two entries of *a
inline void Swap(int *a) const;
void FreeElement(Element *E);
void GenerateFaces();
void GenerateNCFaceInfo();
void GeneratePlanars();
/// Begin construction of a mesh
void InitMesh(int Dim_, int spaceDim_, int NVert, int NElem, int NBdrElem);
@@ -607,16 +565,6 @@ protected:
std::string section_delimiter = "",
const std::string &comments = "") const;
/** Creates mesh for the hyper-prism spatial_mesh x[0,st], divided into
4*nt*spatial_mesh.NumElem pentatopes. */
void Make4D(Mesh* spatial_mesh, int nt, Element::Type type, double st);
/** Creates mesh for the 4-parallelotope [0,sx]x[0,sy]x[0,sz]x[0,st], divided into
nx*ny*nz*nt tesseracts if type=TESSERACT or into 24*nx*ny*nz*nt pentatopes if
type=PENTATOPE. */
void Make4D(int nx, int ny, int nz, int nt, Element::Type type, double sx,
double sy, double sz, double st);
/// @brief Creates a mesh for the parallelepiped [0,sx]x[0,sy]x[0,sz],
/// divided into nx*ny*nz hexahedra if @a type = HEXAHEDRON or into
/// 6*nx*ny*nz tetrahedrons if @a type = TETRAHEDRON.
@@ -909,9 +857,7 @@ public:
vectors using Mesh::CreatePeriodicVertexMapping.
@note MFEM requires that each edge of the resulting mesh be uniquely
identifiable by a pair of distinct vertices. As a consequence, periodic
boundaries must be separated by at least two interior vertices.
@note The resulting mesh uses a discontinuous nodal function, see
SetCurvature() for further details. */
boundaries must be connected by at least three edges. */
static Mesh MakePeriodic(const Mesh &orig_mesh, const std::vector<int> &v2v);
///@}
@@ -982,11 +928,6 @@ public:
/// 8 vertices @a vi.
void AddHexAsPyramids(const int *vi, int attr = 1);
int AddPent(const int *vi, int attr = 1);
int AddTes(const int *vi, int attr = 1);
void AddTesAsPentatopes(const int *vi, int attr = 1);
void AddHyperPrismAsPentatopes(const int *vi, int attr = 1);
/// @brief Adds 24 tetrahedrons to the mesh by splitting a hexahedron.
///
/// @a vi are the 8 vertices of the hexahedron, @a hex_face_verts has the
@@ -1028,10 +969,6 @@ public:
int AddBdrQuad(int v1, int v2, int v3, int v4, int attr = 1);
int AddBdrQuad(const int *vi, int attr = 1);
void AddBdrQuadAsTriangles(const int *vi, int attr = 1);
int AddBdrTet(const int *vi, int attr = 1);
int AddBdrHex(const int *vi, int attr = 1);
void AddBdrHexAsTets(const int *vi, int perm, int attr = 1);
void AddBdrPrismAsTets(const int *vi, int attr = 1);
int AddBdrPoint(int v, int attr = 1);
@@ -1051,8 +988,6 @@ public:
/// Finalize the construction of a hexahedral Mesh.
void FinalizeHexMesh(int generate_edges = 0, int refine = 0,
bool fix_orientation = true);
void FinalizeTesMesh(int generate_edges = 0, int refine = 0,
bool fix_orientation = true);
/// Finalize the construction of any type of Mesh.
/** This method calls FinalizeTopology() and Finalize(). */
void FinalizeMesh(int refine = 0, bool fix_orientation = true);
@@ -1218,32 +1153,6 @@ public:
/// @}
/** Creates mesh for the hyper-prism spatial_mesh x[0,st], divided into
4*nt*spatial_mesh.NumElem pentatopes. If refine = true (default) the
mesh is made conforming for the bisection algorithm, i.e., each
pentatope is again subdivided into 60 sub-pentatopes. */
Mesh(Mesh* spatial_mesh, int nt, Element::Type type, bool refine = true, double st = 1.0)
: attribute_sets(attributes), bdr_attribute_sets(bdr_attributes)
{
Make4D(spatial_mesh, nt, type, st);
Finalize(refine, true);
}
/** Creates mesh for the 4-parallelotope [0,sx]x[0,sy]x[0,sz]x[0,st], divided into
nx*ny*nz*nt tesseracts if type=TESSERACT or into 24*nx*ny*nz*nt pentatopes if
type=PENTATOPE. If refine = true (default) the mesh is made conforming
for the bisection algorithm, i.e., each pentatope is again subdivided
into 60 sub-pentatopes. */
Mesh(int nx, int ny, int nz, int nt, Element::Type type, bool refine = true,
double sx = 1.0, double sy = 1.0, double sz = 1.0, double st = 1.0)
: attribute_sets(attributes), bdr_attribute_sets(bdr_attributes)
{
Make4D(nx, ny, nz, nt, type, sx, sy, sz, st);
Finalize(refine,true);
}
/// @name Information about the mesh as a whole
/// @{
@@ -1260,9 +1169,6 @@ public:
inline int EulerNumber2D() const
{ return NumOfVertices - NumOfEdges + NumOfElements; }
inline int EulerNumber4D() const
{ return NumOfVertices - NumOfEdges + NumOfPlanars - NumOfFaces + NumOfElements;}
/** @brief Get the mesh generator/type.
The purpose of this is to be able to quickly tell what type of elements
@@ -1328,9 +1234,6 @@ public:
/// Return the number of faces in a 3D mesh.
inline int GetNFaces() const { return NumOfFaces; }
/// Return the number of planars in a 4D mesh.
inline int GetNPlanars() const { return NumOfPlanars; }
/// Return the number of faces (3D), edges (2D) or vertices (1D).
int GetNumFaces() const;
@@ -1386,11 +1289,6 @@ public:
/// the Element object itself should not be deleted by the caller.
Element *GetElement(int i) { return elements[i]; }
bool getSwappedElementInfo(int i) const { return false; }
bool getSwappedFaceElementInfo(int i) const { return swappedFaces[i]; }
bool getSwappedBdrElementInfo(int i) const { return swappedBdr[i]; }
/// @brief Return pointer to the i'th boundary element object
///
/// The index @a i should be in the range [0, Mesh::GetNBE())
@@ -1470,14 +1368,6 @@ public:
/// Return the Geometry::Type associated with face @a i.
Geometry::Type GetFaceGeometry(int i) const;
const Element *GetPlanar(int i) const
{ return planars[i]; }
Geometry::Type GetPlanarBaseGeometry(int i) const
{
return planars[i]->GetGeometryType();
}
Geometry::Type GetElementGeometry(int i) const
{
return elements[i]->GetGeometryType();
@@ -1488,8 +1378,6 @@ public:
return boundary[i]->GetGeometryType();
}
Geometry::Type GetBdrPlanarBaseGeometry(int i) const;
/// Deprecated in favor of Mesh::GetFaceGeometry
MFEM_DEPRECATED Geometry::Type GetFaceBaseGeometry(int i) const
{ return GetFaceGeometry(i); }
@@ -1560,21 +1448,10 @@ public:
/// Return the indices and the orientations of all edges of bdr element i.
void GetBdrElementEdges(int i, Array<int> &edges, Array<int> &cor) const;
/// Return the indices and the orientations of all planars of element i.
void GetBdrElementPlanars(int i, Array<int> &pls, Array<int> &cor) const;
/** Return the indices and the orientations of all edges of face i.
Works for both 2D (face=edge) and 3D faces. */
void GetFaceEdges(int i, Array<int> &edges, Array<int> &o) const;
/** Return the indices and the orientations of all edges of planar i.
Works only in 4D. */
void GetPlanarEdges(int i, Array<int> &, Array<int> &) const;
/** Return the indices and the orientations of all planars of face i.
Works for 4D faces. */
void GetFacePlanars(int i, Array<int> &, Array<int> &) const;
/// Returns the indices of the vertices of face i.
void GetFaceVertices(int i, Array<int> &vert) const
{
@@ -1591,9 +1468,6 @@ public:
/// Returns the indices of the vertices of edge i.
void GetEdgeVertices(int i, Array<int> &vert) const;
/// Returns the indices of the vertices of planar i.
void GetPlanVertices(int i, Array<int> &vert) const;
/// Return the indices and the orientations of all faces of element i.
void GetElementFaces(int i, Array<int> &faces, Array<int> &ori) const;
@@ -1609,9 +1483,6 @@ public:
GetElementEdges/GetBdrElementEdges. */
void GetBdrElementFace(int i, int *f, int *o) const;
/// Return the indices and the orientations of all planars of element i.
void GetElementPlanars(int i, Array<int> &pls, Array<int> &cor) const;
/** @brief For the given boundary element, bdr_el, return its adjacent
element and its info, i.e. 64*local_bdr_index+bdr_orientation.
@@ -1680,15 +1551,6 @@ public:
/// @note The returned object should NOT be deleted by the caller.
Table *GetEdgeVertexTable() const;
Table *GetFacePlanarTable() const;
/// Returns the planar-to-edge Table (4D)
///
/// @note The returned object should NOT be deleted by the caller.
Table *GetPlanarEdgeTable() const;
/** Return vertex to vertex table. The connections stored in the table
are from smaller to bigger vertex index, i.e. if i<j and (i, j) is
in the table, then (j, i) is not stored.
@@ -1818,13 +1680,6 @@ public:
/// Also, the returned object should NOT be deleted by the caller.
ElementTransformation *GetEdgeTransformation(int EdgeNo);
/** Returns the transformation defining the given planar element.
The transformation is stored in a user-defined variable. */
void GetPlanarTransformation(int i, IsoparametricTransformation *PlTr);
/// Returns the transformation defining the given face element
ElementTransformation *GetPlanarTransformation(int PlanarNo);
/// Returns (a pointer to an object containing) the following data:
///
/// 1) Elem1No - the index of the first element that contains this face this
@@ -2157,10 +2012,6 @@ public:
/// @}
const Table &ElementToPlanTable() const;
void ReplaceBoundaryFromFaces();
/// @name Methods related to mesh partitioning
/// @{
@@ -3064,13 +2915,6 @@ Mesh *Extrude1D(Mesh *mesh, const int ny, const real_t sy,
/// Extrude a 2D mesh
Mesh *Extrude2D(Mesh *mesh, const int nz, const real_t sz);
inline void Mesh::Swap(int *a) const
{
int temp = a[0];
a[0] = a[1];
a[1] = temp;
}
// shift cyclically 3 integers left-to-right
inline void ShiftRight(int &a, int &b, int &c)
{
-2
View File
@@ -22,8 +22,6 @@
#include "quadrilateral.hpp"
#include "hexahedron.hpp"
#include "tetrahedron.hpp"
#include "pentatope.hpp"
#include "tesseract.hpp"
#include "ncmesh.hpp"
#include "mesh.hpp"
#include "mesh_operators.hpp"
+4 -16
View File
@@ -1151,24 +1151,15 @@ void Mesh::ReadXML_VTKMesh(std::istream &input, int &curved, int &read_gf,
}
if (cells_xml == NULL) { MFEM_ABORT(erstr); }
// Read the element attributes, which are stored as CellData named either
// "material" or "attribute". We prioritize "material" over "attribute" for
// backwards compatibility.
// Read the element attributes, which are stored as CellData named "material"
Array<int> cell_attributes;
bool found_attributes = false;
for (const XMLElement *cell_data_xml = piece->FirstChildElement();
cell_data_xml != NULL;
cell_data_xml = cell_data_xml->NextSiblingElement())
{
const bool is_cell_data =
StringCompare(cell_data_xml->Name(), "CellData");
const bool is_material =
StringCompare(cell_data_xml->Attribute("Scalars"), "material");
const bool is_attribute =
StringCompare(cell_data_xml->Attribute("Scalars"), "attribute");
if (is_cell_data && (is_material || (is_attribute && !found_attributes)))
if (StringCompare(cell_data_xml->Name(), "CellData")
&& StringCompare(cell_data_xml->Attribute("Scalars"), "material"))
{
found_attributes = true;
const XMLElement *data_xml = cell_data_xml->FirstChildElement();
if (data_xml != NULL && StringCompare(data_xml->Name(), "DataArray"))
{
@@ -1283,7 +1274,6 @@ void Mesh::ReadVTKMesh(std::istream &input, int &curved, int &read_gf,
// Read the cell materials
// bool found_material = false;
Array<int> cell_attributes;
bool found_attributes = false;
while ((input.good()))
{
getline(input, buff);
@@ -1291,10 +1281,8 @@ void Mesh::ReadVTKMesh(std::istream &input, int &curved, int &read_gf,
{
break; // We have entered the POINT_DATA block. Quit.
}
else if (buff.rfind("SCALARS material") == 0 ||
(buff.rfind("SCALARS attribute") == 0 && !found_attributes))
else if (buff.rfind("SCALARS material") == 0)
{
found_attributes = true;
getline(input, buff); // LOOKUP_TABLE default
if (buff.rfind("LOOKUP_TABLE default") != 0)
{
+1 -1
View File
@@ -2452,7 +2452,7 @@ const real_t* NCMesh::CalcVertexPos(int node) const
const real_t* pos1 = CalcVertexPos(nd.p1);
const real_t* pos2 = CalcVertexPos(nd.p2);
for (int i = 0; i < Dim; i++) // TODO check if any memory violations occur
for (int i = 0; i < 3; i++)
{
tv.pos[i] = (pos1[i] + pos2[i]) * 0.5;
}
+4 -9
View File
@@ -935,7 +935,7 @@ protected: // implementation
struct Point
{
int dim;
real_t coord[4];
real_t coord[3];
Point() { dim = 0; }
@@ -950,9 +950,6 @@ protected: // implementation
Point(real_t x, real_t y, real_t z)
{ dim = 3; coord[0] = x; coord[1] = y; coord[2] = z; }
Point(double x, double y, double z, double t)
{ dim = 4; coord[0] = x; coord[1] = y; coord[2] = z; coord[3] = t; }
Point(const Point& p0, const Point& p1)
{
dim = p0.dim;
@@ -1013,14 +1010,13 @@ protected: // implementation
PointMatrix(const Point& p0, const Point& p1, const Point& p2, const Point& p3)
{ np = 4; points[0] = p0; points[1] = p1; points[2] = p2; points[3] = p3; }
PointMatrix(const Point& p0, const Point& p1, const Point& p2, const Point& p3,
const Point& p4)
PointMatrix(const Point& p0, const Point& p1, const Point& p2,
const Point& p3, const Point& p4)
{
np = 5;
points[0] = p0; points[1] = p1; points[2] = p2;
points[3] = p3; points[4] = p4;
}
PointMatrix(const Point& p0, const Point& p1, const Point& p2,
const Point& p3, const Point& p4, const Point& p5)
{
@@ -1028,7 +1024,6 @@ protected: // implementation
points[0] = p0; points[1] = p1; points[2] = p2;
points[3] = p3; points[4] = p4; points[5] = p5;
}
PointMatrix(const Point& p0, const Point& p1, const Point& p2,
const Point& p3, const Point& p4, const Point& p5,
const Point& p6, const Point& p7)
@@ -1077,7 +1072,7 @@ protected: // implementation
struct TmpVertex
{
bool valid, visited;
real_t pos[4];
real_t pos[3];
TmpVertex() : valid(false), visited(false) {}
};
-246
View File
@@ -1,246 +0,0 @@
// Copyright (c) 2010, Lawrence Livermore National Security, LLC. Produced at
// the Lawrence Livermore National Laboratory. LLNL-CODE-443211. All Rights
// reserved. See file COPYRIGHT for details.
//
// This file is part of the MFEM library. For more information and source code
// availability see http://mfem.googlecode.com.
//
// MFEM is free software; you can redistribute it and/or modify it under the
// terms of the GNU Lesser General Public License (as published by the Free
// Software Foundation) version 2.1 dated February 1999.
// Implementation of class Pentatope
#include "mesh_headers.hpp"
namespace mfem
{
Pentatope::Pentatope(const int *ind, int attr, unsigned char f)
: Element(Geometry::PENTATOPE)
{
attribute = attr;
for (int i = 0; i < 5; i++)
{
indices[i] = ind[i];
}
transform = 0;
flag = f;
}
Pentatope::Pentatope(int ind1, int ind2, int ind3, int ind4, int ind5, int attr, unsigned char f)
: Element(Geometry::PENTATOPE)
{
attribute = attr;
indices[0] = ind1;
indices[1] = ind2;
indices[2] = ind3;
indices[3] = ind4;
indices[4] = ind5;
transform = 0;
flag = f;
}
// Cancelled and added new version at the end of the file (2025 November)
// void Pentatope::GetVertices(Array<int> &v) const
// {
// v.SetSize(5);
// for (int i = 0; i < 5; i++)
// {
// v[i] = indices[i];
// }
// }
//
// void Pentatope::SetVertices(const int *ind)
// {
// for (int i = 0; i < 5; i++)
// {
// indices[i] = ind[i];
// }
// }
//static method
void Pentatope::GetPointMatrix(unsigned transform, DenseMatrix &pm) // FIXME for bisection
{
double* a = &pm(0,0), *b = &pm(0,1), *c = &pm(0,2), *d = &pm(0,3), *e = &pm(0,
4);
// initialize to identity
a[0] = 0.0, a[1] = 0.0, a[2] = 0.0, a[3] = 0.0;
b[0] = 1.0, b[1] = 0.0, b[2] = 0.0, b[3] = 0.0;
c[0] = 0.0, c[1] = 1.0, c[2] = 0.0, c[3] = 0.0;
d[0] = 0.0, d[1] = 0.0, d[2] = 1.0, d[3] = 0.0;
e[0] = 0.0, e[1] = 0.0, e[2] = 0.0, e[3] = 1.0;
int chain[12], n = 0;
bool swapped[12];
while (transform)
{
chain[n++] = (transform & 15) - 1;
swapped[n-1] = ( (transform & 31) / 16 == 1);
transform >>= 5;
}
#define ASGN(a, b) (a[0] = b[0], a[1] = b[1], a[2] = b[2], a[3] = b[3])
#define SWAP(a, b) for (int i = 0; i < 4; i++) { std::swap(a[i], b[i]); }
#define AVG(a, b, c) for (int i = 0; i < 4; i++) { a[i] = (b[i]+c[i])*0.5; }
double f[4];
while (n)
{
switch (chain[--n])
{
case 0:
if (swapped[n]) SWAP(a,e);
AVG(f,a,e); ASGN(e,d); ASGN(d,c); ASGN(c,b); ASGN(b,f);
if (!swapped[n]) SWAP(a,e);
break; // chilTesseractd 1, tag 0 parent
case 1:
if (swapped[n]) SWAP(a,e);
AVG(f,a,e); ASGN(e,d); ASGN(d,c); ASGN(c,b); ASGN(b,f);
if (!swapped[n]) SWAP(a,e);
break; // child 1, tag 1 parent
case 2:
if (swapped[n]) SWAP(a,e);
AVG(f,a,e); ASGN(e,d); ASGN(d,c); ASGN(c,b); ASGN(b,f);
if (!swapped[n]) SWAP(a,e);
break; // child 1, tag 2 parent
case 3:
if (swapped[n]) SWAP(a,e);
AVG(f,a,e); ASGN(e,d); ASGN(d,c); ASGN(c,b); ASGN(b,f);
if (!swapped[n]) SWAP(a,e);
break; // child 1, tag 3 parent
case 10:
if (swapped[n]) SWAP(a,e);
AVG(f,a,e); ASGN(a,e); ASGN(e,b); SWAP(c,d); ASGN(b,f);
if (!swapped[n]) SWAP(a,e);
break; // child 2, tag 0 parent
case 11:
if (swapped[n]) SWAP(a,e);
AVG(f,a,e); ASGN(a,e); ASGN(e,c); ASGN(c,b); ASGN(b,f);
if (!swapped[n]) SWAP(a,e);
break; // child 2, tag 1 parent
case 12:
if (swapped[n]) SWAP(a,e);
AVG(f,a,e); ASGN(a,e); ASGN(e,d); ASGN(d,c); ASGN(c,b); ASGN(b,f);
if (swapped[n]) SWAP(a,e);
break; // child 2, tag 2 parent
case 13:
if (swapped[n]) SWAP(a,e);
AVG(f,a,e); ASGN(a,e); ASGN(e,d); ASGN(d,c); ASGN(c,b); ASGN(b,f);
if (swapped[n]) SWAP(a,e);
break; // child 2, tag 3 parent
#if 0 // Freudenthal
case 0 : AVG(b,a,b); AVG(c,a,c); AVG(d,a,d); AVG(e,a,e); break; // 1,6,7,8,9
case 1 : AVG(a,a,b); AVG(c,b,c); AVG(d,b,d); AVG(e,b,e); break; // 6,2,10,11,12
case 2 : AVG(a,a,c); AVG(b,b,c); AVG(d,c,d); AVG(e,c,e); break; // 7,10,3,13,14
case 3 : AVG(a,a,d); AVG(b,b,d); AVG(c,c,d); AVG(e,d,e); break; // 8,11,13,4,15
case 4 : AVG(a,a,e); AVG(b,b,e); AVG(c,c,e); AVG(d,d,e); break; // 9,12,14,15,5
case 5 : ASGN(f,e); AVG(e,d,e); AVG(d,c,d); ASGN(g,b); AVG(c,b,c); AVG(b,a,f);
AVG(a,a,g); break; // 6,9,10,13,15
case 6 : ASGN(f,a); AVG(a,a,b); AVG(b,f,d); ASGN(g,c); AVG(c,f,e); AVG(e,d,e);
AVG(d,g,d); break; // 6,8,9,13,15
case 7 : ASGN(f,e); AVG(e,d,e); AVG(d,b,d); ASGN(g,c); AVG(c,b,c); AVG(b,a,f);
AVG(a,a,g); break; // 7,9,10,11,13
case 8 : ASGN(f,a); AVG(a,a,b); AVG(b,f,c); ASGN(g,e); AVG(e,c,d); AVG(c,f,d);
AVG(d,f,g); break; // 6,7,8,9,13
case 9 : ASGN(f,e); AVG(a,a,e); AVG(e,f,d); ASGN(g,c); AVG(b,b,c); AVG(c,c,d);
AVG(d,f,g); break; // 9,10,13,14,15
case 10: ASGN(f,a); AVG(a,a,b); AVG(c,b,c); ASGN(g,e); AVG(e,d,e); AVG(d,b,g);
AVG(b,f,g); break; // 6,9,10,12,15
case 11: ASGN(f,d); AVG(d,c,d); AVG(e,d,e); ASGN(g,a); AVG(a,a,b); AVG(c,b,f);
AVG(b,g,f); break; // 6,8,11,13,15
case 12: ASGN(f,b); AVG(a,a,b); AVG(b,b,c); ASGN(g,e); AVG(e,d,e); AVG(c,f,d);
AVG(d,f,g); break; // 6,10,11,12,15
case 13: ASGN(f,c); AVG(c,a,e); AVG(e,c,d); ASGN(g,a); AVG(a,a,b); AVG(d,b,f);
AVG(b,f,g); break; // 6,7,9,10,13
case 14: ASGN(f,b); AVG(b,b,c); AVG(a,a,e); ASGN(g,e); AVG(e,d,e); AVG(d,c,g);
AVG(c,f,g); break; // 9,10,12,14,15
case 15: ASGN(f,d); AVG(d,c,d); AVG(a,a,b); ASGN(g,b); AVG(b,b,c); AVG(e,f,e);
AVG(c,g,f); break; // 6,10,11,13,15
#endif
default:
MFEM_ABORT("Invalid transform.");
}
}
}
Element *Pentatope::Duplicate(Mesh *m) const
{
Pentatope *pent = new Pentatope;
pent->SetVertices(indices);
pent->SetAttribute(attribute);
pent->SetFlag(flag);
return pent;
}
int Pentatope::NeedRefinement(HashTable<Hashed2> &v_to_v) const
{
if (v_to_v.FindId(indices[0], indices[1]) != -1) { return 1; }
if (v_to_v.FindId(indices[1], indices[2]) != -1) { return 1; }
if (v_to_v.FindId(indices[2], indices[0]) != -1) { return 1; }
if (v_to_v.FindId(indices[0], indices[3]) != -1) { return 1; }
if (v_to_v.FindId(indices[1], indices[3]) != -1) { return 1; }
if (v_to_v.FindId(indices[2], indices[3]) != -1) { return 1; }
if (v_to_v.FindId(indices[0], indices[4]) != -1) { return 1; }
if (v_to_v.FindId(indices[1], indices[4]) != -1) { return 1; }
if (v_to_v.FindId(indices[2], indices[4]) != -1) { return 1; }
if (v_to_v.FindId(indices[4], indices[3]) != -1) { return 1; }
return 0;
}
void Pentatope::CreateFlag(char t, bool swap)
{
flag = t;
flag <<= 1;
flag |= swap;
}
void Pentatope::ParseFlag(char& t, bool& swap)
{
unsigned char f = flag;
swap = (f & 1);
f >>= 1;
t = (f & 3);
}
void Pentatope::GetFace(int fi, int *fv)
{
// const int faces[5][4] = { {0, 1, 2, 3}, {0, 1, 2, 4},
// {0, 1, 3, 4}, {0, 2, 3, 4},
// {1, 2, 3, 4}};
const int *v = geom_p::FaceVert[fi];
for (int k = 0; k < 4; ++k)
{
fv[k] = indices[v[k]];
}
// if (fi % 2 == 1)
// std::swap(fv[1], fv[2]);
}
void Pentatope::GetVertices(Array<int> &v) const
{
v.SetSize(5);
std::copy(indices, indices + 5, v.begin());
}
void Pentatope::SetVertices(const Array<int> &v)
{
MFEM_ASSERT(v.Size() == 5, "!");
std::copy(v.begin(), v.end(), indices);
}
void Pentatope::SetVertices(const int *ind)
{
std::copy(ind, ind + 5, indices);
}
}
-144
View File
@@ -1,144 +0,0 @@
// Copyright (c) 2010, Lawrence Livermore National Security, LLC. Produced at
// the Lawrence Livermore National Laboratory. LLNL-CODE-443211. All Rights
// reserved. See file COPYRIGHT for details.
//
// This file is part of the MFEM library. For more information and source code
// availability see http://mfem.googlecode.com.
//
// MFEM is free software; you can redistribute it and/or modify it under the
// terms of the GNU Lesser General Public License (as published by the Free
// Software Foundation) version 2.1 dated February 1999.
#ifndef MFEM_PENTATOPE
#define MFEM_PENTATOPE
#include "../config/config.hpp"
#include "../fem/fe.hpp"
#include "element.hpp"
namespace mfem
{
/// Data type pentatope element
class Pentatope : public Element
{
protected:
int indices[5];
unsigned transform;
/* Flag holds currently
* One bit indicating if the element has been swapped.
* Two bits indicating the tag of the simplex (0, 1, 2, 3)
*/
unsigned char flag;
public:
typedef Geometry::Constants<Geometry::PENTATOPE> geom_p;
Pentatope() : Element(Geometry::PENTATOPE) { transform = 0; flag = 0;};
/// Constructs pentatope by specifying the indices and the attribute.
Pentatope(const int *ind, int attr = 1, unsigned char type = 0);
/// Constructs pentatope by specifying the indices and the attribute.
Pentatope(int ind1, int ind2, int ind3, int ind4, int ind5, int attr = 1, unsigned char type = 0);
virtual int GetRefinementFlag()
{ MFEM_ABORT("PENTATOPE:: GetRefinementFlag not implemented"); return 0; }
/// Return 1 if the element needs refinement in order to get conforming mesh.
virtual int NeedRefinement(HashTable<Hashed2> &v_to_v) const;
/// Mark the longest edge by assuming/changing the order of the vertices.
virtual void MarkEdge(DenseMatrix &pmat)
{ MFEM_ABORT("PENTATOPE:: MarkEdge not implemented"); }
/** Reorder the vertices so that the longest edge is from vertex 0
to vertex 1. If called it should be once from the mesh constructor,
because the order may be used later for setting the edges. **/
virtual void MarkEdge(const DSTable &v_to_v, const int *length)
{ MFEM_ABORT("PENTATOPE:: MarkEdge not implemented"); }
virtual void GetFace(int fi, int *fv);
/// Return element's type.
virtual Type GetType() const { return Element::PENTATOPE; }
virtual void CreateFlag(char t, bool swap);
virtual void ParseFlag(char &t, bool &swap);
virtual void SetFlag(const unsigned char t) { flag = t; }
/// Return flag of element.
virtual unsigned char GetFlag() const { return flag; }
// Cancelled and added new version at the end of the file (2025 November)
// /// Set the vertices according to the given input.
// virtual void SetVertices(const int *ind);
//
// /// Returns the indices of the element's vertices.
// virtual void GetVertices(Array<int> &v) const;
//
// virtual int *GetVertices() { return indices; }
virtual int GetNVertices() const { return 5; }
virtual int GetNEdges() const { return 10; }
virtual int GetNPlanars() const { return 10; }
virtual const int *GetEdgeVertices(int ei) const { return (geom_p::Edges[ei]); }
virtual const int *GetPlanarsVertices(int pi) const { return (geom_p::PlanarVert[pi]); }
MFEM_DEPRECATED virtual int GetNFaces(int &nFaceVertices) const
{ nFaceVertices = 4; return 5; }
virtual int GetNFaces() const { return 5; };
virtual int GetNFaceVertices(int fi) const { return 4; };
virtual const int *GetFaceVertices(int fi) const
{ return geom_p::FaceVert[fi]; }
/// Calculate point matrix corresponding to a chain of transformations.
static void GetPointMatrix(unsigned transform, DenseMatrix &pm);
virtual void ResetTransform(int tr) { transform = tr; }
virtual unsigned GetTransform() const { return transform; }
virtual void PushTransform(int tr)
{ transform = (transform << 5) | (tr + 1); }
virtual Element *Duplicate(Mesh *m) const;
/// Get the indices defining the vertices.
void GetVertices(Array<int> &v) const override;
/// Set the indices defining the vertices.
void SetVertices(const Array<int> &v) override;
/// @note The returned array should NOT be deleted by the caller.
int * GetVertices () override { return indices; }
/// Set the indices defining the vertices.
void SetVertices(const int *ind) override;
virtual ~Pentatope() { }
};
extern MFEM_EXPORT Linear4DFiniteElement PentatopeFE;
}
#endif
+43 -1729
View File
File diff suppressed because it is too large Load Diff
+1 -64
View File
@@ -63,48 +63,26 @@ protected:
void Set(int v0, int v1, int v2, int v3)
{ v[0] = v0; v[1] = v1; v[2] = v2; v[3] = v3; }
void Set(const int *w)
{ v[0] = w[0]; v[1] = w[1]; v[2] = w[2]; v[3] = w[3];}
{ v[0] = w[0]; v[1] = w[1]; v[2] = w[2]; v[3] = w[3]; }
};
struct Vert4_tag
{
int v[4];
char tag;
Vert4_tag() = default;
Vert4_tag(int v0, int v1, int v2, int v3, char _tag = 0)
{
v[0] = v0; v[1] = v1; v[2] = v2; v[3] = v3; tag = _tag;
}
void Set(int v0, int v1, int v2, int v3, char _tag = 0)
{ v[0] = v0; v[1] = v1; v[2] = v2; v[3] = v3; tag = _tag; }
void Set(const int *w, char _tag = 0)
{ v[0] = w[0]; v[1] = w[1]; v[2] = w[2]; v[3] = w[3]; tag = _tag; }
};
Array<Element *> shared_edges;
// shared face id 'i' is:
// * triangle id 'i', if i < shared_trias.Size()
// * quad id 'i-shared_trias.Size()', otherwise
Array<Vert3> shared_trias;
Array<Vert4> shared_quads;
Array<Vert4_tag> shared_tetra;
// Array<Element *> shared_planars;
/// Shared objects in each group.
Table group_svert;
Table group_sedge;
Table group_stria; // contains shared triangle indices
Table group_squad; // contains shared quadrilateral indices
Table group_stetr;
// Table group_splan;
/// Shared to local index mapping.
Array<int> svert_lvert;
Array<int> sedge_ledge;
Array<int> splan_lplan;
// sface ids: all triangles first, then all quads
// in 4D, just all tetrahedra
Array<int> sface_lface;
/// Table that maps from face neighbor element number, to the face numbers of
@@ -144,18 +122,6 @@ protected:
bool DecodeFaceSplittings(HashTable<Hashed2> &v_to_v, const int *v,
const Array<unsigned> &codes, int &pos);
void GetFaceSplittings4D(const Vert4_tag &f, const HashTable<Hashed2> &v_to_v,
const DSTable &edges, Array<unsigned> &codes);
bool DecodeFaceSplittings4D(HashTable<Hashed2> &v_to_v, const Vert4_tag &v,
const Array<unsigned> &codes, int &pos);
void GetFaceSplittings4D_old(const Vert4_tag &f, const HashTable<Hashed2> &v_to_v,
Array<unsigned> &codes);
bool DecodeFaceSplittings4D_old(HashTable<Hashed2> &v_to_v, const Vert4_tag &v,
const Array<unsigned> &codes, int &pos);
// Given a completed FacesTable and SharedFacesTable, construct a table that
// maps from face neighbor element number, to the set of faces of that
// element. Store the resulting data in the member variable
@@ -200,9 +166,6 @@ protected:
/// Update the groups after tetrahedron refinement
void RefineGroups(int old_nv, const HashTable<Hashed2> &v_to_v);
void RefineGroups4D(int old_nv, const HashTable<Hashed2> &v_to_v);
void UniformRefineGroups4D_Freudenthal(int old_nv, const HashTable<Hashed2> &v_to_v);
void UniformRefineGroups2D(int old_nv);
// f2qf can be NULL if all faces are quads or there are no quad faces
@@ -263,9 +226,6 @@ protected:
Array<int>& face_group,
ListOfIntegerSets& groups);
int FindSharedPlanars(const Mesh &mesh, const int* partition,
Table* &plan_element, ListOfIntegerSets &groups);
int FindSharedEdges(const Mesh &mesh, const int* partition,
Table* &edge_element, ListOfIntegerSets& groups);
@@ -276,13 +236,6 @@ protected:
const Array<int>& face_group,
int &nstria, int &nsquad);
void BuildFaceGroup4D(int ngroups, const Mesh &mesh,
const Array<int>& face_group,
int &nstetr, int &nshexa);
void BuildPlanarGroup(int ngroups, const Mesh &mesh,const Table& plan_element,
int &nstria, int &nsquad);
void BuildEdgeGroup(int ngroups, const Table& edge_element);
void BuildVertexGroup(int ngroups, const Table& vert_element);
@@ -293,17 +246,6 @@ protected:
const Array<int> &face_group,
const Array<int> &vert_global_local);
void BuildSharedFaceElems4D(int ntet_faces, int nhex_faces,
const Mesh &mesh, int *partitioning,
const STable4D *faces_tbl_4d,
const Array<int> &face_group,
const Array<int> &vert_global_local,
const std::map<int,char> &vert_to_type);
void BuildSharedPlanarElems(int ntri_planars, int nquad_planars,
const Mesh &mesh, const Array<int>& vert_global_local,
const STable3D *planar_tbl, const Table* plan_element);
void BuildSharedEdgeElems(int nedges, Mesh &mesh,
const Array<int> &vert_global_local,
const Table *edge_element);
@@ -505,17 +447,12 @@ public:
int GroupNEdges(int group) const { return group_sedge.RowSize(group-1); }
int GroupNTriangles(int group) const { return group_stria.RowSize(group-1); }
int GroupNQuadrilaterals(int group) const { return group_squad.RowSize(group-1); }
// int GroupNPlanars(int group) const { return group_splan.RowSize(group-1); }
int GroupNTetrahedra(int group) const { return group_stetr.RowSize(group-1); }
int GroupVertex(int group, int i) const
{ return svert_lvert[group_svert.GetRow(group-1)[i]]; }
void GroupEdge(int group, int i, int &edge, int &o) const;
void GroupTriangle(int group, int i, int &face, int &o) const;
void GroupQuadrilateral(int group, int i, int &face, int &o) const;
void GroupTetrahedron(int group, int i, int &face, int &o) const;
///@}
/**
+3 -3
View File
@@ -819,7 +819,7 @@ ParPumiMesh::ParPumiMesh(MPI_Comm comm, apf::Mesh2* apf_mesh,
apf::Downward verts;
apf_mesh->getDownward(ent,0,verts);
int *v = nullptr, nv = 0;
int *v, nv = 0;
apf::Mesh::Type ftype = apf_mesh->getType(ent);
if (ftype == apf::Mesh::TRIANGLE)
{
@@ -890,9 +890,9 @@ GridFunctionPumi::GridFunctionPumi(Mesh* m, apf::Mesh2* PumiM,
{
int spDim = m->SpaceDimension();
// Note: default BasisType for 'fec' is GaussLobatto.
fec_owned = new H1_FECollection(mesh_order, m->Dimension());
fec = new H1_FECollection(mesh_order, m->Dimension());
int ordering = Ordering::byVDIM; // x1y1z1/x2y2z2/...
fes = new FiniteElementSpace(m, fec_owned, spDim, ordering);
fes = new FiniteElementSpace(m, fec, spDim, ordering);
int data_size = fes->GetVSize();
// Read PUMI mesh data
-116
View File
@@ -1,116 +0,0 @@
// Copyright (c) 2010, Lawrence Livermore National Security, LLC. Produced at
// the Lawrence Livermore National Laboratory. LLNL-CODE-443211. All Rights
// reserved. See file COPYRIGHT for details.
//
// This file is part of the MFEM library. For more information and source code
// availability see http://mfem.googlecode.com.
//
// MFEM is free software; you can redistribute it and/or modify it under the
// terms of the GNU Lesser General Public License (as published by the Free
// Software Foundation) version 2.1 dated February 1999.
#include "mesh_headers.hpp"
namespace mfem
{
const int Tesseract::edges[32][2] =
{
{0, 1}, {1, 2}, {3, 2}, {0, 3},
{4, 5}, {5, 6}, {7, 6}, {4, 7},
{0, 4}, {1, 5}, {2, 6}, {3, 7},
{8, 9}, {9, 10}, {11, 10}, {8, 11},
{12, 13}, {13, 14}, {15, 14}, {12, 15},
{8, 12}, {9, 13}, {10, 14}, {11, 15},
{0, 8}, {1, 9}, {2, 10}, {3, 11},
{4, 12}, {5, 13}, {6, 14}, {7, 15}
};
// same as Mesh::hex_faces
const int Tesseract::faces[8][8] =
{
// {8,11,12,15,0,3,4,7}, //x bottom
// {1,2,6,5,9,10,14,13}, //x top
// {0,1,5,4,8,9,13,12}, //y bottom
// {2,3,7,6,10,11,15,14}, //y top
// {8,9,10,11,0,1,2,3}, // z bottom
// {4,5,6,7,12,13,14,15}, //z top
// {0,1,2,3,4,5,6,7}, //t botom
// {12,13,14,15,8,9,10,11} //t top
{8,11,15,12,0,3,7,4}, //x bottom
{1,2,6,5,9,10,14,13}, //x top
{0,1,5,4,8,9,13,12}, //y bottom
{2,3,7,6,10,11,15,14}, //y top
{8,9,10,11,0,1,2,3}, // z bottom
{4,5,6,7,12,13,14,15}, //z top
{0,1,2,3,4,5,6,7}, //t botom
{12,13,14,15,8,9,10,11} //t top
};
Tesseract::Tesseract(const int *ind, int attr)
: Element(Geometry::TESSERACT)
{
attribute = attr;
for (int i = 0; i < 16; i++)
{
indices[i] = ind[i];
}
}
Tesseract::Tesseract(int ind1, int ind2, int ind3, int ind4,
int ind5, int ind6, int ind7, int ind8,
int ind9, int ind10, int ind11, int ind12,
int ind13, int ind14, int ind15, int ind16,
int attr) : Element(Geometry::TESSERACT)
{
attribute = attr;
indices[0] = ind1;
indices[1] = ind2;
indices[2] = ind3;
indices[3] = ind4;
indices[4] = ind5;
indices[5] = ind6;
indices[6] = ind7;
indices[7] = ind8;
indices[8] = ind9;
indices[9] = ind10;
indices[10] = ind11;
indices[11] = ind12;
indices[12] = ind13;
indices[13] = ind14;
indices[14] = ind15;
indices[15] = ind16;
}
// Cancelled and added new version at the end of the file (2025 November)
/*void Tesseract::GetVertices(Array<int> &v) const
{
v.SetSize(16);
for (int i = 0; i < 16; i++)
{
v[i] = indices[i];
}
}*/
void Tesseract::GetVertices(Array<int> &v) const
{
v.SetSize(16);
std::copy(indices, indices + 16, v.begin());
}
void Tesseract::SetVertices(const Array<int> &v)
{
MFEM_ASSERT(v.Size() == 16, "!");
std::copy(v.begin(), v.end(), indices);
}
void Tesseract::SetVertices(const int *ind)
{
std::copy(ind, ind + 16, indices);
}
QuadLinear4DFiniteElement TesseractFE;
}
-90
View File
@@ -1,90 +0,0 @@
// Copyright (c) 2010, Lawrence Livermore National Security, LLC. Produced at
// the Lawrence Livermore National Laboratory. LLNL-CODE-443211. All Rights
// reserved. See file COPYRIGHT for details.
//
// This file is part of the MFEM library. For more information and source code
// availability see http://mfem.googlecode.com.
//
// MFEM is free software; you can redistribute it and/or modify it under the
// terms of the GNU Lesser General Public License (as published by the Free
// Software Foundation) version 2.1 dated February 1999.
#ifndef MFEM_TESSERACT
#define MFEM_TESSERACT
#include "../config/config.hpp"
#include "element.hpp"
namespace mfem
{
/// Data type tesseract element
class Tesseract : public Element
{
protected:
int indices[16];
public:
static const int edges[32][2];
static const int faces[8][8]; // same as Mesh::tes_faces
Tesseract() : Element(Geometry::TESSERACT) { }
/// Constructs hexahedron by specifying the indices and the attribute.
Tesseract(const int *ind, int attr = 1);
/// Constructs hexahedron by specifying the indices and the attribute.
Tesseract(int ind1, int ind2, int ind3, int ind4,
int ind5, int ind6, int ind7, int ind8,
int ind9, int ind10, int ind11, int ind12,
int ind13, int ind14, int ind15, int ind16, int attr = 1);
/// Return element's type
Type GetType() const { return Element::TESSERACT; }
// Cancelled and added new version at the end of the file (2025 November)
// /// Returns the indices of the element's vertices.
// virtual void GetVertices(Array<int> &v) const;
//
// virtual int *GetVertices() { return indices; }
virtual int GetNVertices() const { return 16; }
virtual int GetNEdges() const { return 32; }
virtual int GetNFaces() const { return 8; }
virtual int GetNFaceVertices(int fi) const { return 8; }
virtual const int *GetEdgeVertices(int ei) const
{ return edges[ei]; }
virtual int GetNFaces(int &nFaceVertices) const
{ nFaceVertices = 8; return 8; }
virtual const int *GetFaceVertices(int fi) const
{ return faces[fi]; }
virtual Element *Duplicate(Mesh *m) const
{ return new Tesseract(indices, attribute); }
/// Get the indices defining the vertices.
void GetVertices(Array<int> &v) const override;
/// Set the indices defining the vertices.
void SetVertices(const Array<int> &v) override;
/// @note The returned array should NOT be deleted by the caller.
int * GetVertices () override { return indices; }
/// Set the indices defining the vertices.
void SetVertices(const int *ind) override;
virtual ~Tesseract() { }
};
extern QuadLinear4DFiniteElement TesseractFE;
}
#endif
+6 -7
View File
@@ -22,18 +22,17 @@ namespace mfem
class Vertex
{
protected:
real_t coord[4];
real_t coord[3];
public:
Vertex() = default;
// Trivial copy constructor and trivial copy assignment operator
Vertex(real_t *xx, int dim);
Vertex(real_t x, real_t y) { coord[0] = x; coord[1] = y; coord[2] = 0.; coord[3] = 0.;}
Vertex(real_t x, real_t y) { coord[0] = x; coord[1] = y; coord[2] = 0.; }
Vertex(real_t x, real_t y, real_t z)
{ coord[0] = x; coord[1] = y; coord[2] = z; coord[3] = 0.;}
Vertex(real_t x, real_t y, real_t z, real_t t)
{ coord[0] = x; coord[1] = y; coord[2] = z; coord[3] = t;}
{ coord[0] = x; coord[1] = y; coord[2] = z; }
/// Returns pointer to the coordinates of the vertex.
inline real_t * operator() () const { return (real_t*)coord; }
@@ -46,8 +45,8 @@ public:
/// (DEPRECATED) Set the coordinates of the Vertex.
/** @deprecated This old version of SetCoords is not always memory safe. */
MFEM_DEPRECATED void SetCoords(const double *p)
{ coord[0] = p[0]; coord[1] = p[1]; coord[2] = p[2]; coord[3] = p[3]; }
MFEM_DEPRECATED void SetCoords(const real_t *p)
{ coord[0] = p[0]; coord[1] = p[1]; coord[2] = p[2]; }
/// Sets vertex location based on given point p
void SetCoords(int dim, const real_t *p)
+1 -1
View File
@@ -206,7 +206,7 @@ int main (int argc, char *argv[])
solver.SetMaxIter(200);
solver.SetRelTol(1e-10);
solver.SetAbsTol(0.0);
solver.SetAdaptiveSurfaceFittingScalingFactor(10);
solver.EnableAdaptiveSurfaceFitting();
solver.SetTerminationWithMaxSurfaceFittingError(1e-3);
// Solve.
-16
View File
@@ -34,22 +34,6 @@ real_t circle_level_set(const Vector &x)
}
}
real_t squircle_level_set(const Vector &x)
{
const int dim = x.Size();
if (dim == 2)
{
const real_t xc = x(0) - 0.5, yc = x(1) - 0.5;
return std::pow(xc, 4.0) + std::pow(yc, 4.0) - std::pow(0.24, 4.0);
}
else
{
const real_t xc = x(0) - 0.5, yc = x(1) - 0.5, zc = x(2) - 0.5;
return std::pow(xc, 4.0) + std::pow(yc, 4.0) +
std::pow(zc, 4.0) - std::pow(0.24, 4.0);
}
}
real_t in_circle(const Vector &x, const Vector &x_center, real_t radius)
{
Vector x_current = x;

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