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mofem/atom_tests/prism_elements_from_surface.cpp

Adding prims on the surface and checking conformity between quads, triangles and prism.

Adding prims on the surface and checking conformity between quads, triangles and prism

/** \file prism_elements_from_surface.cpp
\example mofem/atom_tests/prism_elements_from_surface.cpp
\brief Adding prims on the surface and checking conformity between quads,
triangles and prism
*/
#include <MoFEM.hpp>
using namespace MoFEM;
static char help[] = "...\n\n";
static constexpr int precision_exponent = 5;
static constexpr int number_of_prisms_layers = 18;
static constexpr double delta =
1. / static_cast<double>(number_of_prisms_layers);
static constexpr std::array<double, 3> d3 = {0, 0, 0};
static constexpr std::array<double, 3> d4 = {0, 0, delta};
inline static double getArg(double x) {
return std::round(x * pow(10., precision_exponent - 1));
};
int x, y, z;
CoordsAndHandle(const double *coords, EntityHandle v)
: x(getArg(coords[0])), y(getArg(coords[1])), z(getArg(coords[2])),
node(v) {}
};
typedef multi_index_container<
indexed_by<
hashed_unique<composite_key<
CoordsAndHandle, member<CoordsAndHandle, int, &CoordsAndHandle::x>,
member<CoordsAndHandle, int, &CoordsAndHandle::y>,
member<CoordsAndHandle, int, &CoordsAndHandle::z>>>
>>
PrismOp(moab::Interface &post_proc, MapCoords &map_coords);
MoFEMErrorCode doWork(int side, EntityType type,
public:
moab::Interface &postProc;
std::vector<EntityHandle> nodeHandles;
};
PrismFE(MoFEM::Interface &m_field, MatrixDouble &tri_coords);
MoFEMErrorCode setGaussPtsTrianglesOnly(int order_triangles_only);
private:
};
template <typename OP> struct Op : public OP {
Op(moab::Interface &post_proc, MapCoords &map_coords, EntityHandle prism);
MoFEMErrorCode doWork(int side, EntityType type,
public:
moab::Interface &postProc;
std::vector<EntityHandle> nodeHandles;
};
TriFE(MoFEM::Interface &m_field, MatrixDouble &tri_coords,
EntityHandle prims);
int getRule(int order_row, int order_col, int order_data);
MoFEMErrorCode setGaussPts(int order_row, int order_col, int order_data);
private:
};
QuadFE(MoFEM::Interface &m_field, std::array<Range, 3> &edges_blocks,
EntityHandle prims);
int getRule(int order_row, int order_col, int order_data);
MoFEMErrorCode setGaussPts(int order_row, int order_col, int order_data);
private:
std::array<Range, 3> &edgeBlocks;
};
struct EdgeFE : public EdgeEle {
EdgeFE(MoFEM::Interface &m_field, std::array<Range, 3> &edges_blocks,
EntityHandle prims);
int getRule(int order_row, int order_col, int order_data);
MoFEMErrorCode setGaussPts(int order_row, int order_col, int order_data);
private:
std::array<Range, 3> &edgeBlocks;
};
int main(int argc, char *argv[]) {
MoFEM::Core::Initialize(&argc, &argv, (char *)0, help);
try {
moab::Core mb_instance;
moab::Interface &moab = mb_instance;
int rank;
MPI_Comm_rank(PETSC_COMM_WORLD, &rank);
// Read parameters from line command
PetscBool flg = PETSC_TRUE;
char mesh_file_name[255];
CHKERR PetscOptionsGetString(PETSC_NULLPTR, "", "-my_file", mesh_file_name,
255, &flg);
if (flg != PETSC_TRUE)
SETERRQ(PETSC_COMM_SELF, MOFEM_INVALID_DATA,
"error -my_file (MESH FILE NEEDED)");
// Read mesh to MOAB
const char *option;
option = ""; //"PARALLEL=BCAST;";//;DEBUG_IO";
CHKERR moab.load_file(mesh_file_name, 0, option);
Range tris;
CHKERR moab.get_entities_by_type(0, MBTRI, tris, false);
Range tris_verts;
CHKERR moab.get_connectivity(tris, tris_verts);
MatrixDouble tri_coords(tris_verts.size(), 3);
CHKERR moab.get_coords(tris_verts, &tri_coords(0, 0));
MoFEM::Core core(moab);
MoFEM::Interface &m_field = core;
std::array<Range, 3> edge_block;
for (auto b : {1, 2, 3})
b, BLOCKSET, 1, edge_block[b - 1]);
PrismsFromSurfaceInterface *prisms_from_surface_interface;
CHKERR m_field.getInterface(prisms_from_surface_interface);
Range prisms;
CHKERR prisms_from_surface_interface->createPrisms(
tris, PrismsFromSurfaceInterface::NO_SWAP, prisms);
prisms_from_surface_interface->setThickness(prisms, d3.data(), d4.data());
Range add_prims_layer;
Range extrude_prisms = prisms;
for (int ll = 1; ll != number_of_prisms_layers; ++ll) {
prisms_from_surface_interface->createdVertices.clear();
CHKERR prisms_from_surface_interface->createPrismsFromPrisms(
extrude_prisms, false, add_prims_layer);
prisms_from_surface_interface->setThickness(add_prims_layer, d3.data(),
d4.data());
extrude_prisms = add_prims_layer;
prisms.merge(add_prims_layer);
add_prims_layer.clear();
}
EntityHandle meshset;
CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, meshset);
CHKERR moab.add_entities(meshset, prisms);
MapCoords map_coords;
Range verts;
CHKERR moab.get_connectivity(prisms, verts);
MatrixDouble coords(verts.size(), 3);
CHKERR moab.get_coords(verts, &coords(0, 0));
for (size_t v = 0; v != verts.size(); ++v)
map_coords.insert(CoordsAndHandle(&coords(v, 0), verts[v]));
EntityHandle one_prism_meshset;
CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER,
one_prism_meshset);
std::array<double, 18> one_prism_coords = {0, 0, 0, 1, 0, 0, 0, 1, 0,
0, 0, 1, 1, 0, 1, 0, 1, 1};
std::array<EntityHandle, 6> one_prism_nodes;
for (int n = 0; n != 6; ++n)
CHKERR moab.create_vertex(&one_prism_coords[3 * n], one_prism_nodes[n]);
EntityHandle one_prism;
CHKERR m_field.get_moab().create_element(MBPRISM, one_prism_nodes.data(), 6,
one_prism);
Range one_prism_range;
one_prism_range.insert(one_prism);
CHKERR moab.add_entities(one_prism_meshset, one_prism_range);
Range one_prism_verts;
CHKERR moab.get_connectivity(one_prism_range, one_prism_verts);
CHKERR moab.add_entities(one_prism_meshset, one_prism_verts);
Range one_prism_adj_ents;
for (int d = 1; d != 3; ++d)
CHKERR moab.get_adjacencies(one_prism_range, d, true, one_prism_adj_ents,
moab::Interface::UNION);
CHKERR moab.add_entities(one_prism_meshset, one_prism_adj_ents);
BitRefLevel bit_level0;
bit_level0.set(0);
CHKERR m_field.getInterface<BitRefManager>()->setEntitiesBitRefLevel(
one_prism_range, bit_level0);
CHKERR prisms_from_surface_interface->seedPrismsEntities(one_prism_range,
bit_level0);
// Fields
CHKERR m_field.add_field("FIELD1", H1, AINSWORTH_LEGENDRE_BASE, 1);
CHKERR m_field.add_ents_to_field_by_type(one_prism_meshset, MBPRISM,
"FIELD1", VERY_NOISY);
CHKERR m_field.set_field_order(one_prism_meshset, MBVERTEX, "FIELD1", 1);
CHKERR m_field.set_field_order(one_prism_meshset, MBEDGE, "FIELD1", 5,
CHKERR m_field.set_field_order(one_prism_meshset, MBTRI, "FIELD1", 5);
CHKERR m_field.set_field_order(one_prism_meshset, MBQUAD, "FIELD1", 5,
CHKERR m_field.set_field_order(one_prism_meshset, MBPRISM, "FIELD1", 7,
// FE
CHKERR m_field.add_finite_element("PRISM");
CHKERR m_field.add_finite_element("EDGE");
CHKERR m_field.add_finite_element("TRI");
CHKERR m_field.add_finite_element("QUAD");
// Define rows/cols and element data
CHKERR m_field.modify_finite_element_add_field_row("PRISM", "FIELD1");
CHKERR m_field.modify_finite_element_add_field_col("PRISM", "FIELD1");
CHKERR m_field.modify_finite_element_add_field_data("PRISM", "FIELD1");
// Define rows/cols and element data
CHKERR m_field.modify_finite_element_add_field_row("EDGE", "FIELD1");
CHKERR m_field.modify_finite_element_add_field_col("EDGE", "FIELD1");
CHKERR m_field.modify_finite_element_add_field_data("EDGE", "FIELD1");
// Define rows/cols and element data
CHKERR m_field.modify_finite_element_add_field_row("TRI", "FIELD1");
CHKERR m_field.modify_finite_element_add_field_col("TRI", "FIELD1");
CHKERR m_field.modify_finite_element_add_field_data("TRI", "FIELD1");
// Define rows/cols and element data
CHKERR m_field.modify_finite_element_add_field_row("QUAD", "FIELD1");
CHKERR m_field.modify_finite_element_add_field_col("QUAD", "FIELD1");
CHKERR m_field.modify_finite_element_add_field_data("QUAD", "FIELD1");
CHKERR m_field.add_ents_to_finite_element_by_type(one_prism_meshset, MBEDGE,
"EDGE");
CHKERR m_field.add_ents_to_finite_element_by_type(one_prism_meshset, MBTRI,
"TRI");
CHKERR m_field.add_ents_to_finite_element_by_type(one_prism_meshset, MBQUAD,
"QUAD");
CHKERR m_field.add_ents_to_finite_element_by_type(one_prism_meshset,
MBPRISM, "PRISM");
// build finite elemnts
// //build adjacencies
CHKERR m_field.build_adjacencies(bit_level0);
// Problem
CHKERR m_field.add_problem("TEST_PROBLEM");
// set finite elements for problem
CHKERR m_field.modify_problem_add_finite_element("TEST_PROBLEM", "PRISM");
CHKERR m_field.modify_problem_add_finite_element("TEST_PROBLEM", "EDGE");
CHKERR m_field.modify_problem_add_finite_element("TEST_PROBLEM", "TRI");
CHKERR m_field.modify_problem_add_finite_element("TEST_PROBLEM", "QUAD");
// set refinement level for problem
CHKERR m_field.modify_problem_ref_level_add_bit("TEST_PROBLEM", bit_level0);
// build problem
ProblemsManager *prb_mng_ptr;
CHKERR m_field.getInterface(prb_mng_ptr);
CHKERR prb_mng_ptr->buildProblem("TEST_PROBLEM", true);
// partition
CHKERR prb_mng_ptr->partitionSimpleProblem("TEST_PROBLEM");
CHKERR prb_mng_ptr->partitionFiniteElements("TEST_PROBLEM");
// what are ghost nodes, see Petsc Manual
CHKERR prb_mng_ptr->partitionGhostDofs("TEST_PROBLEM");
PrismFE fe_prism(m_field, tri_coords);
fe_prism.getOpPtrVector().push_back(new PrismOp(moab, map_coords));
CHKERR m_field.loop_finite_elements("TEST_PROBLEM", "PRISM", fe_prism);
EdgeFE fe_edge(m_field, edge_block, one_prism);
fe_edge.getOpPtrVector().push_back(
moab, map_coords, one_prism));
CHKERR m_field.loop_finite_elements("TEST_PROBLEM", "EDGE", fe_edge);
TriFE fe_tri(m_field, tri_coords, one_prism);
fe_tri.getOpPtrVector().push_back(
moab, map_coords, one_prism));
CHKERR m_field.loop_finite_elements("TEST_PROBLEM", "TRI", fe_tri);
QuadFE fe_quad(m_field, edge_block, one_prism);
fe_quad.getOpPtrVector().push_back(
moab, map_coords, one_prism));
CHKERR m_field.loop_finite_elements("TEST_PROBLEM", "QUAD", fe_quad);
CHKERR moab.write_file("prism_mesh.vtk", "VTK", "", &meshset, 1);
CHKERR moab.write_file("one_prism_mesh.vtk", "VTK", "", &one_prism_meshset,
1);
}
return 0;
}
PrismOp::PrismOp(moab::Interface &post_proc, MapCoords &map_coords)
"FIELD1", "FIELD1", ForcesAndSourcesCore::UserDataOperator::OPROW),
postProc(post_proc), mapCoords(map_coords) {}
MoFEMErrorCode PrismOp::doWork(int side, EntityType type,
constexpr double def_val[] = {0, 0, 0};
switch (type) {
case MBVERTEX:
case MBEDGE:
case MBTRI:
case MBQUAD:
case MBPRISM:
break;
default:
}
if (type == MBTRI && (side != 3 && side != 4))
if (type == MBQUAD && (side == 3 || side == 4))
const int nb_dofs = data.getIndices().size();
for (int dd = 0; dd != nb_dofs; ++dd)
data.getFieldDofs()[dd]->getFieldData() = data.getIndices()[dd];
if (type == MBVERTEX) {
const size_t nb_gauss_pts = getGaussPts().size2();
auto &coords_at_pts = getGaussPts();
nodeHandles.reserve(nb_gauss_pts);
nodeHandles.clear();
for (size_t gg = 0; gg != nb_gauss_pts; ++gg) {
auto t = boost::make_tuple(CoordsAndHandle::getArg(coords_at_pts(0, gg)),
CoordsAndHandle::getArg(coords_at_pts(1, gg)),
CoordsAndHandle::getArg(coords_at_pts(2, gg)));
auto it = mapCoords.find(t);
if (it != mapCoords.end())
nodeHandles.emplace_back(it->node);
else
SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY, "Vertex not found");
}
MatrixDouble node_coords(nb_gauss_pts, 3);
CHKERR postProc.get_coords(&nodeHandles[0], nodeHandles.size(),
&node_coords(0, 0));
for (size_t gg = 0; gg != nb_gauss_pts; ++gg) {
constexpr double eps = 1e-12;
for (auto d : {0, 1, 2})
if (std::abs(node_coords(gg, d) - getGaussPts()(d, gg)) > eps) {
SETERRQ(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID,
"Inconsistency between node coords and integration "
"points");
}
for (auto d : {0, 1, 2})
if (std::abs(node_coords(gg, d) - getCoordsAtGaussPts()(gg, d)) > eps)
SETERRQ(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID,
"Inconsistency between node coords and integration "
"points");
}
CHKERR postProc.tag_get_handle("Coords", 3, MB_TYPE_DOUBLE, th,
MB_TAG_CREAT | MB_TAG_DENSE, def_val);
CHKERR postProc.tag_set_data(th, &nodeHandles[0], nodeHandles.size(),
}
auto to_str = [](auto i) { return boost::lexical_cast<std::string>(i); };
std::string tag_name_base =
"PrismType" + to_str(type) + "Side" + to_str(side);
std::cout << tag_name_base << endl;
MatrixDouble trans_base = trans(data.getN());
if (trans_base.size2() != nodeHandles.size())
SETERRQ(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID, "wrong size %ld != %ld",
trans_base.size2(), nodeHandles.size());
for (size_t rr = 0; rr != trans_base.size1(); ++rr) {
auto tag_name = tag_name_base + "Base" + to_str(rr);
CHKERR postProc.tag_get_handle(tag_name.c_str(), 1, MB_TYPE_DOUBLE, th,
MB_TAG_CREAT | MB_TAG_DENSE, def_val);
CHKERR postProc.tag_set_data(th, &nodeHandles[0], nodeHandles.size(),
&trans_base(rr, 0));
}
}
: FatPrismElementForcesAndSourcesCore(m_field), triCoords(tri_coords) {}
int PrismFE::getRuleTrianglesOnly(int order) { return -1; };
int PrismFE::getRuleThroughThickness(int order) { return -1; };
gaussPtsTrianglesOnly.resize(3, triCoords.size1(), false);
for (int gg = 0; gg != triCoords.size1(); ++gg)
for (int dd = 0; dd != 2; ++dd)
gaussPtsTrianglesOnly(dd, gg) = triCoords(gg, dd);
}
for (int gg = 0; gg != number_of_prisms_layers + 1; ++gg)
}
EntityHandle prism)
: FaceElementForcesAndSourcesCore(m_field), triCoords(tri_coords),
prism(prism) {}
int TriFE::getRule(int order_row, int order_col, int order_data) { return -1; }
MoFEMErrorCode TriFE::setGaussPts(int order_row, int order_col,
int order_data) {
int side, sense, offset;
CHKERR mField.get_moab().side_number(prism, ent, side, sense, offset);
std::array<int, 2> swap = {0, 1};
if (side == 3)
swap = std::array<int, 2>{1, 0};
gaussPts.resize(3, triCoords.size1(), false);
gaussPts.clear();
for (int gg = 0; gg != triCoords.size1(); ++gg)
for (int dd = 0; dd != 2; ++dd)
gaussPts(dd, gg) = triCoords(gg, swap[dd]);
}
QuadFE::QuadFE(MoFEM::Interface &m_field, std::array<Range, 3> &edge_blocks,
EntityHandle prism)
: FaceElementForcesAndSourcesCore(m_field), edgeBlocks(edge_blocks),
prism(prism) {}
int QuadFE::getRule(int order_row, int order_col, int order_data) { return -1; }
MoFEMErrorCode QuadFE::setGaussPts(int order_row, int order_col,
int order_data) {
int side, sense, offset;
CHKERR mField.get_moab().side_number(prism, ent, side, sense, offset);
Range edge_verts;
CHKERR mField.get_moab().get_connectivity(edgeBlocks[side], edge_verts);
MatrixDouble edge_coords(edge_verts.size(), 3);
CHKERR mField.get_moab().get_coords(edge_verts, &edge_coords(0, 0));
constexpr double normal[3][2] = {{-1, 0}, {-0.5, 0.5}, {0, 1}};
constexpr double origin[3][2] = {{1, 0}, {1, 0}, {0, 0}};
constexpr int swap[3][2] = {{0, 1}, {0, 1}, {1, 0}};
gaussPts.resize(3, edge_verts.size() * (number_of_prisms_layers + 1), false);
int gg = 0;
for (size_t rr = 0; rr != edge_verts.size(); ++rr) {
const double x = edge_coords(rr, 0) - origin[side][0];
const double y = edge_coords(rr, 1) - origin[side][1];
const double edge_dist = x * normal[side][0] + y * normal[side][1];
for (size_t cc = 0; cc != number_of_prisms_layers + 1; ++cc, ++gg) {
gaussPts(swap[side][0], gg) = edge_dist;
gaussPts(swap[side][1], gg) = delta * cc;
}
}
}
EdgeFE::EdgeFE(MoFEM::Interface &m_field, std::array<Range, 3> &edge_blocks,
EntityHandle prism)
: EdgeEle(m_field), edgeBlocks(edge_blocks),
prism(prism) {}
int EdgeFE::getRule(int order_row, int order_col, int order_data) { return -1; }
MoFEMErrorCode EdgeFE::setGaussPts(int order_row, int order_col,
int order_data) {
int side, sense, offset;
CHKERR mField.get_moab().side_number(prism, ent, side, sense, offset);
if (side >= 3 && side <= 5) {
gaussPts.resize(2, number_of_prisms_layers + 1, false);
for (size_t gg = 0; gg != number_of_prisms_layers + 1; ++gg)
gaussPts(0, gg) = delta * gg;
// cerr << gaussPts << endl;
} else {
constexpr double normal[3][2] = {{1, 0}, {-0.5, 0.5}, {0, 1}};
constexpr double origin[3][2] = {{0, 1}, {1, 0}, {0, 0}};
constexpr int side_map[9] = {0, 1, 2, -1, -1, -1, 0, 1, 2};
int num_nodes;
const EntityHandle *conn;
CHKERR mField.get_moab().get_connectivity(ent, conn, num_nodes, true);
MatrixDouble coords(num_nodes, 3);
CHKERR mField.get_moab().get_coords(conn, num_nodes,
&*coords.data().begin());
side = side_map[side];
Range edge_verts;
CHKERR mField.get_moab().get_connectivity(edgeBlocks[side], edge_verts);
MatrixDouble edge_coords(edge_verts.size(), 3);
CHKERR mField.get_moab().get_coords(edge_verts, &edge_coords(0, 0));
gaussPts.resize(2, edge_verts.size(), false);
for (size_t gg = 0; gg != edge_verts.size(); ++gg) {
const double x = edge_coords(gg, 0) - origin[side][0];
const double y = edge_coords(gg, 1) - origin[side][1];
const double edge_dist = x * normal[side][0] + y * normal[side][1];
gaussPts(0, gg) = edge_dist;
}
}
}
template <typename OP>
Op<OP>::Op(moab::Interface &post_proc, MapCoords &map_coords,
EntityHandle prism)
: OP("FIELD1", "FIELD1", ForcesAndSourcesCore::UserDataOperator::OPROW),
postProc(post_proc), mapCoords(map_coords), prism(prism) {}
template <typename OP>
MoFEMErrorCode Op<OP>::doWork(int side, EntityType type,
constexpr double def_val[] = {0, 0, 0};
switch (type) {
case MBVERTEX:
case MBEDGE:
case MBTRI:
case MBQUAD:
break;
default:
}
const int nb_dofs = data.getIndices().size();
for (int dd = 0; dd != nb_dofs; ++dd)
if (data.getFieldData()[dd] != data.getIndices()[dd]) {
std::cerr << "Indices: " << data.getIndices() << std::endl;
std::cerr << "Local indices: " << data.getLocalIndices() << std::endl;
std::cerr << "Data: " << data.getFieldData() << std::endl;
SETERRQ(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID,
"Indicices/data inconsistency %3.1f != %d",
data.getFieldData()[dd], data.getIndices()[dd]);
}
const EntityHandle fe_ent = OP::getFEEntityHandle();
const EntityHandle ent = OP::getSideEntity(side, type);
int side_prism, sense, offset;
if (type == MBVERTEX) {
CHKERR postProc.side_number(prism, fe_ent, side_prism, sense, offset);
} else
CHKERR postProc.side_number(prism, ent, side_prism, sense, offset);
if (type == MBVERTEX) {
auto &coords_at_pts = OP::getCoordsAtGaussPts();
const size_t nb_gauss_pts = coords_at_pts.size1();
nodeHandles.reserve(nb_gauss_pts);
nodeHandles.clear();
for (size_t gg = 0; gg != nb_gauss_pts; ++gg) {
auto t = boost::make_tuple(CoordsAndHandle::getArg(coords_at_pts(gg, 0)),
CoordsAndHandle::getArg(coords_at_pts(gg, 1)),
CoordsAndHandle::getArg(coords_at_pts(gg, 2)));
auto it = mapCoords.find(t);
if (it != mapCoords.end())
nodeHandles.emplace_back(it->node);
else
SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY, "Vertex not found");
}
}
auto to_str = [](auto i) { return boost::lexical_cast<std::string>(i); };
std::string tag_name_base =
"FEType" + to_str(OP::getNumeredEntFiniteElementPtr()->getEntType()) +
"Type" + to_str(type) + "Side" + to_str(side_prism);
std::string tag_prism_name_base =
"PrismType" + to_str(type) + "Side" + to_str(side_prism);
MatrixDouble trans_base = trans(data.getN());
MatrixDouble prism_base(trans_base.size1(), trans_base.size2());
if (trans_base.size2() != nodeHandles.size())
SETERRQ(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID, "wrong size %ld != %ld",
trans_base.size2(), nodeHandles.size());
for (size_t rr = 0; rr != trans_base.size1(); ++rr) {
std::string tag_name = tag_name_base + "Base";
if (type == MBVERTEX) {
EntityHandle node = data.getFieldDofs()[rr]->getEnt();
int prism_mode_side;
CHKERR postProc.side_number(prism, node, prism_mode_side, sense, offset);
tag_name += to_str(prism_mode_side);
} else {
tag_name += to_str(rr);
}
std::cout << tag_name << endl;
CHKERR postProc.tag_get_handle(tag_name.c_str(), 1, MB_TYPE_DOUBLE, th,
MB_TAG_CREAT | MB_TAG_DENSE, def_val);
CHKERR postProc.tag_set_data(th, &nodeHandles[0], nodeHandles.size(),
&trans_base(rr, 0));
if (type != MBVERTEX) {
auto tag_prism_name = tag_prism_name_base + "Base" + to_str(rr);
Tag th_prism;
CHKERR postProc.tag_get_handle(tag_prism_name.c_str(), th_prism);
CHKERR postProc.tag_get_data(th_prism, &nodeHandles[0],
nodeHandles.size(), &prism_base(rr, 0));
}
}
auto sum_matrix = [](MatrixDouble &m) {
double s = 0;
for (unsigned int ii = 0; ii < m.size1(); ii++) {
for (unsigned int jj = 0; jj < m.size2(); jj++) {
s += std::abs(m(ii, jj));
}
}
return s;
};
if (type != MBVERTEX) {
prism_base -= trans_base;
double sum = sum_matrix(prism_base);
constexpr double eps = 1e-6;
if (std::abs(sum) > eps)
cout << "Inconsistent base " << tag_prism_name_base << " "
<< tag_name_base << " sum " << sum << endl;
if (std::abs(sum) > eps)
SETERRQ(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID,
"Inconsistent base %s sum %6.4e", tag_prism_name_base.c_str(),
sum);
}
}
ForcesAndSourcesCore::UserDataOperator UserDataOperator
static char help[]
int main()
static const double eps
@ VERY_NOISY
#define CATCH_ERRORS
Catch errors.
@ AINSWORTH_LEGENDRE_BASE
Ainsworth Cole (Legendre) approx. base .
Definition definitions.h:60
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
@ H1
continuous field
Definition definitions.h:85
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
@ BLOCKSET
@ MOFEM_ATOM_TEST_INVALID
Definition definitions.h:40
@ MOFEM_DATA_INCONSISTENCY
Definition definitions.h:31
@ MOFEM_INVALID_DATA
Definition definitions.h:36
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
#define CHKERR
Inline error check.
constexpr int order
static double sum_matrix(MatrixDouble &m)
static const double edge_coords[6][6]
virtual MoFEMErrorCode add_finite_element(const std::string &fe_name, enum MoFEMTypes bh=MF_EXCL, int verb=DEFAULT_VERBOSITY)=0
add finite element
virtual MoFEMErrorCode build_finite_elements(int verb=DEFAULT_VERBOSITY)=0
Build finite elements.
virtual MoFEMErrorCode modify_finite_element_add_field_col(const std::string &fe_name, const std::string name_row)=0
set field col which finite element use
virtual MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle entities, const EntityType type, const std::string name, const bool recursive=true)=0
add entities to finite element
virtual MoFEMErrorCode modify_finite_element_add_field_row(const std::string &fe_name, const std::string name_row)=0
set field row which finite element use
virtual MoFEMErrorCode modify_finite_element_add_field_data(const std::string &fe_name, const std::string name_field)=0
set finite element field data
virtual MoFEMErrorCode build_fields(int verb=DEFAULT_VERBOSITY)=0
virtual MoFEMErrorCode set_field_order(const EntityHandle meshset, const EntityType type, const std::string &name, const ApproximationOrder order, int verb=DEFAULT_VERBOSITY)=0
Set order approximation of the entities in the field.
virtual MoFEMErrorCode add_ents_to_field_by_type(const Range &ents, const EntityType type, const std::string &name, int verb=DEFAULT_VERBOSITY)=0
Add entities to field meshset.
virtual MoFEMErrorCode loop_finite_elements(const std::string problem_name, const std::string &fe_name, FEMethod &method, boost::shared_ptr< NumeredEntFiniteElement_multiIndex > fe_ptr=nullptr, MoFEMTypes bh=MF_EXIST, CacheTupleWeakPtr cache_ptr=CacheTupleSharedPtr(), int verb=DEFAULT_VERBOSITY)=0
Make a loop over finite elements.
MoFEMErrorCode getEntitiesByDimension(const int ms_id, const unsigned int cubit_bc_type, const int dimension, Range &entities, const bool recursive=true) const
get entities from CUBIT/meshset of a particular entity dimension
MoFEMErrorCode partitionGhostDofs(const std::string name, int verb=VERBOSE)
determine ghost nodes
MoFEMErrorCode partitionSimpleProblem(const std::string name, int verb=VERBOSE)
partition problem dofs
MoFEMErrorCode buildProblem(const std::string name, const bool square_matrix, int verb=VERBOSE)
build problem data structures
MoFEMErrorCode partitionFiniteElements(const std::string name, bool part_from_moab=false, int low_proc=-1, int hi_proc=-1, int verb=VERBOSE)
partition finite elements
virtual MoFEMErrorCode add_problem(const std::string &name, enum MoFEMTypes bh=MF_EXCL, int verb=DEFAULT_VERBOSITY)=0
Add problem.
virtual MoFEMErrorCode modify_problem_ref_level_add_bit(const std::string &name_problem, const BitRefLevel &bit)=0
add ref level to problem
virtual MoFEMErrorCode modify_problem_add_finite_element(const std::string name_problem, const std::string &fe_name)=0
add finite element to problem, this add entities assigned to finite element to a particular problem
FTensor::Index< 'i', SPACE_DIM > i
const double v
phase velocity of light in medium (cm/ns)
const double n
refractive index of diffusive medium
char mesh_file_name[255]
const Tensor2_symmetric_Expr< const ddTensor0< T, Dim, i, j >, typename promote< T, double >::V, Dim, i, j > dd(const Tensor0< T * > &a, const Index< i, Dim > index1, const Index< j, Dim > index2, const Tensor1< int, Dim > &d_ijk, const Tensor1< double, Dim > &d_xyz)
Definition ddTensor0.hpp:33
PetscErrorCode MoFEMErrorCode
MoFEM/PETSc error code.
UBlasMatrix< double > MatrixDouble
Definition Types.hpp:77
std::bitset< BITREFLEVEL_SIZE > BitRefLevel
Bit structure attached to each entity identifying to what mesh entity is attached.
Definition Types.hpp:40
implementation of Data Operators for Forces and Sources
Definition Common.hpp:10
PetscErrorCode PetscOptionsGetString(PetscOptions *, const char pre[], const char name[], char str[], size_t size, PetscBool *set)
constexpr double t
plate stiffness
Definition plate.cpp:58
static constexpr int number_of_prisms_layers
static constexpr int precision_exponent
static constexpr std::array< double, 3 > d4
static constexpr double delta
multi_index_container< CoordsAndHandle, indexed_by< hashed_unique< composite_key< CoordsAndHandle, member< CoordsAndHandle, int, &CoordsAndHandle::x >, member< CoordsAndHandle, int, &CoordsAndHandle::y >, member< CoordsAndHandle, int, &CoordsAndHandle::z > > > > > MapCoords
static constexpr std::array< double, 3 > d3
FTensor::Index< 'm', 3 > m
static double getArg(double x)
std::array< Range, 3 > & edgeBlocks
EdgeFE(MoFEM::Interface &m_field, std::array< Range, 3 > &edges_blocks, EntityHandle prims)
int getRule(int order_row, int order_col, int order_data)
another variant of getRule
MoFEMErrorCode setGaussPts(int order_row, int order_col, int order_data)
set user specific integration rule
Managing BitRefLevels.
virtual moab::Interface & get_moab()=0
virtual MoFEMErrorCode build_adjacencies(const Range &ents, int verb=DEFAULT_VERBOSITY)=0
build adjacencies
virtual MoFEMErrorCode add_field(const std::string name, const FieldSpace space, const FieldApproximationBase base, const FieldCoefficientsNumber nb_of_coefficients, const TagType tag_type=MB_TAG_SPARSE, const enum MoFEMTypes bh=MF_EXCL, int verb=DEFAULT_VERBOSITY)=0
Add field.
Core (interface) class.
Definition Core.hpp:82
static MoFEMErrorCode Initialize(int *argc, char ***args, const char file[], const char help[])
Initializes the MoFEM database PETSc, MOAB and MPI.
Definition Core.cpp:72
static MoFEMErrorCode Finalize()
Checks for options to be called at the conclusion of the program.
Definition Core.cpp:118
Deprecated interface functions.
Data on single entity (This is passed as argument to DataOperator::doWork)
MatrixDouble & getN(const FieldApproximationBase base)
get base functions this return matrix (nb. of rows is equal to nb. of Gauss pts, nb....
const VectorDouble & getFieldData() const
Get DOF values on entity.
const VectorInt & getLocalIndices() const
Get local indices of degrees of freedom on entity.
const VectorDofs & getFieldDofs() const
Get DOF data structures (const version)
const VectorInt & getIndices() const
Get global indices of degrees of freedom on entity.
boost::shared_ptr< const NumeredEntFiniteElement > numeredEntFiniteElementPtr
Shared pointer to finite element database structure.
structure to get information from mofem into EntitiesFieldData
MatrixDouble gaussPts
Matrix of integration points.
Interface for managing meshsets containing materials and boundary conditions.
Vec x
PETSc solution vector.
std::map< EntityHandle, EntityHandle > createdVertices
MoFEMErrorCode createPrisms(const Range &ents, const SwapType swap_type, Range &prisms, int verb=-1)
Make prisms from triangles.
MoFEMErrorCode setThickness(const Range &prisms, const double director3[], const double director4[])
MoFEMErrorCode seedPrismsEntities(Range &prisms, const BitRefLevel &bit, int verb=-1)
Seed prism entities by bit level.
MoFEMErrorCode createPrismsFromPrisms(const Range &prisms, bool from_down, Range &out_prisms, int verb=-1)
Make prisms by extruding top or bottom prisms.
Problem manager is used to build and partition problems.
MoFEMErrorCode getInterface(IFACE *&iface) const
Get interface reference to pointer of interface.
Op(moab::Interface &post_proc, MapCoords &map_coords, EntityHandle prism)
MapCoords & mapCoords
MoFEMErrorCode doWork(int side, EntityType type, EntitiesFieldData::EntData &data)
moab::Interface & postProc
EntityHandle prism
std::vector< EntityHandle > nodeHandles
int getRuleThroughThickness(int order)
PrismFE(MoFEM::Interface &m_field, MatrixDouble &tri_coords)
MoFEMErrorCode setGaussPtsTrianglesOnly(int order_triangles_only)
MoFEMErrorCode setGaussPtsThroughThickness(int order_thickness)
MatrixDouble & triCoords
int getRuleTrianglesOnly(int order)
std::vector< EntityHandle > nodeHandles
PrismOp(moab::Interface &post_proc, MapCoords &map_coords)
MoFEMErrorCode doWork(int side, EntityType type, EntitiesFieldData::EntData &data)
Operator for linear form, usually to calculate values on right hand side.
moab::Interface & postProc
std::array< Range, 3 > & edgeBlocks
int getRule(int order_row, int order_col, int order_data)
another variant of getRule
QuadFE(MoFEM::Interface &m_field, std::array< Range, 3 > &edges_blocks, EntityHandle prims)
MoFEMErrorCode setGaussPts(int order_row, int order_col, int order_data)
set user specific integration rule
MoFEMErrorCode setGaussPts(int order_row, int order_col, int order_data)
set user specific integration rule
MatrixDouble & triCoords
TriFE(MoFEM::Interface &m_field, MatrixDouble &tri_coords, EntityHandle prims)
int getRule(int order_row, int order_col, int order_data)
another variant of getRule