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structural_mechanics_model.cc
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			/**
			* @file structural_mechanics_model.cc
			*
			* @author Fabian Barras <fabian.barras@epfl.ch>
			* @author Lucas Frerot <lucas.frerot@epfl.ch>
			* @author Sébastien Hartmann <sebastien.hartmann@epfl.ch>
			* @author Nicolas Richart <nicolas.richart@epfl.ch>
			* @author Damien Spielmann <damien.spielmann@epfl.ch>
			*
			* @date creation: Fri Jul 15 2011
			* @date last modification: Wed Feb 21 2018
			*
			* @brief Model implementation for StucturalMechanics elements
			*
			* @section LICENSE
			*
			* Copyright (©) 2010-2018 EPFL (Ecole Polytechnique Fédérale de Lausanne)
			* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
			*
			* Akantu 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, either version 3 of the License, or (at your option) any
			* later version.
			*
			* Akantu is distributed in the hope that it will be useful, but WITHOUT ANY
			* WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
			* A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more
			* details.
			*
			* You should have received a copy of the GNU Lesser General Public License
			* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
			*
			*/

			/* -------------------------------------------------------------------------- */
			#include "structural_mechanics_model.hh"
			#include "dof_manager.hh"
			#include "integrator_gauss.hh"
			#include "mesh.hh"
			#include "shape_structural.hh"
			#include "sparse_matrix.hh"
			#include "time_step_solver.hh"
			/* -------------------------------------------------------------------------- */
			#ifdef AKANTU_USE_IOHELPER
			#include "dumpable_inline_impl.hh"
			#include "dumper_elemental_field.hh"
			#include "dumper_iohelper_paraview.hh"
			#include "group_manager_inline_impl.cc"
			#endif
			/* -------------------------------------------------------------------------- */
			#include "structural_mechanics_model_inline_impl.cc"
			/* -------------------------------------------------------------------------- */

			namespace akantu {

			/* -------------------------------------------------------------------------- */
			StructuralMechanicsModel::StructuralMechanicsModel(Mesh & mesh, UInt dim,
			const ID & id,
			const MemoryID & memory_id)
			: Model(mesh, ModelType::_structural_mechanics_model, dim, id, memory_id),
			time_step(NAN), f_m2a(1.0), stress("stress", id, memory_id),
			element_material("element_material", id, memory_id),
			set_ID("beam sets", id, memory_id),
			rotation_matrix("rotation_matices", id, memory_id) {
			AKANTU_DEBUG_IN();

			registerFEEngineObject<MyFEEngineType>("StructuralMechanicsFEEngine", mesh,
			spatial_dimension);

			if (spatial_dimension == 2)
			nb_degree_of_freedom = 3;
			else if (spatial_dimension == 3)
			nb_degree_of_freedom = 6;
			else {
			AKANTU_TO_IMPLEMENT();
			}

			#ifdef AKANTU_USE_IOHELPER
			this->mesh.registerDumper<DumperParaview>("paraview_all", id, true);
			#endif
			this->mesh.addDumpMesh(mesh, spatial_dimension, _not_ghost, _ek_structural);

			this->initDOFManager();

			AKANTU_DEBUG_OUT();
			}

			/* -------------------------------------------------------------------------- */
			StructuralMechanicsModel::~StructuralMechanicsModel() = default;

			/* -------------------------------------------------------------------------- */
			void StructuralMechanicsModel::initFullImpl(const ModelOptions & options) {
			// <<<< This is the SolidMechanicsModel implementation for future ref >>>>
			// material_index.initialize(mesh, _element_kind = _ek_not_defined,
			// _default_value = UInt(-1), _with_nb_element =
			// true);
			// material_local_numbering.initialize(mesh, _element_kind = _ek_not_defined,
			// _with_nb_element = true);

			// Model::initFullImpl(options);

			// // initialize pbc
			// if (this->pbc_pair.size() != 0)
			// this->initPBC();

			// // initialize the materials
			// if (this->parser.getLastParsedFile() != "") {
			// this->instantiateMaterials();
			// }

			// this->initMaterials();
			// this->initBC(this, displacement, *displacement_increment,
			// *external_force);

			// <<<< END >>>>

			Model::initFullImpl(options);

			// Initializing stresses
			ElementTypeMap<UInt> stress_components;

			/// TODO this is ugly af, maybe add a function to FEEngine
			for (auto & type : mesh.elementTypes(_spatial_dimension = _all_dimensions,
			_element_kind = _ek_structural)) {
			UInt nb_components = 0;

			// Getting number of components for each element type
			#define GET_(type) nb_components = ElementClass<type>::getNbStressComponents()
			AKANTU_BOOST_STRUCTURAL_ELEMENT_SWITCH(GET_);
			#undef GET_

			stress_components(nb_components, type);
			}

			stress.initialize(getFEEngine(), _spatial_dimension = _all_dimensions,
			_element_kind = _ek_structural, _all_ghost_types = true,
			_nb_component = [&stress_components](
			const ElementType & type, const GhostType &) -> UInt {
			return stress_components(type);
			});
			}

			/* -------------------------------------------------------------------------- */

			void StructuralMechanicsModel::initFEEngineBoundary() {
			/// TODO: this function should not be reimplemented
			/// we're just avoiding a call to Model::initFEEngineBoundary()
			}

			/* -------------------------------------------------------------------------- */
			// void StructuralMechanicsModel::setTimeStep(Real time_step) {
			// this->time_step = time_step;

			// #if defined(AKANTU_USE_IOHELPER)
			// this->mesh.getDumper().setTimeStep(time_step);
			// #endif
			// }

			/* -------------------------------------------------------------------------- */
			/* Initialisation */
			/* -------------------------------------------------------------------------- */
			void StructuralMechanicsModel::initSolver(
			TimeStepSolverType time_step_solver_type, NonLinearSolverType) {
			AKANTU_DEBUG_IN();

			this->allocNodalField(displacement_rotation, nb_degree_of_freedom,
			"displacement");
			this->allocNodalField(external_force, nb_degree_of_freedom, "external_force");
			this->allocNodalField(internal_force, nb_degree_of_freedom, "internal_force");
			this->allocNodalField(blocked_dofs, nb_degree_of_freedom, "blocked_dofs");

			auto & dof_manager = this->getDOFManager();

			if (!dof_manager.hasDOFs("displacement")) {
			dof_manager.registerDOFs("displacement", *displacement_rotation,
			_dst_nodal);
			dof_manager.registerBlockedDOFs("displacement", *this->blocked_dofs);
			}

			if (time_step_solver_type == _tsst_dynamic \|\|
			time_step_solver_type == _tsst_dynamic_lumped) {
			this->allocNodalField(velocity, spatial_dimension, "velocity");
			this->allocNodalField(acceleration, spatial_dimension, "acceleration");

			if (!dof_manager.hasDOFsDerivatives("displacement", 1)) {
			dof_manager.registerDOFsDerivative("displacement", 1, *this->velocity);
			dof_manager.registerDOFsDerivative("displacement", 2,
			*this->acceleration);
			}
			}

			AKANTU_DEBUG_OUT();
			}

			/* -------------------------------------------------------------------------- */
			void StructuralMechanicsModel::initModel() {
			for (auto && type : mesh.elementTypes(_element_kind = _ek_structural)) {
			// computeRotationMatrix(type);
			element_material.alloc(mesh.getNbElement(type), 1, type);
			}

			getFEEngine().initShapeFunctions(_not_ghost);
			getFEEngine().initShapeFunctions(_ghost);
			}

			/* -------------------------------------------------------------------------- */
			void StructuralMechanicsModel::assembleStiffnessMatrix() {
			AKANTU_DEBUG_IN();

			getDOFManager().getMatrix("K").clear();

			for (auto & type :
			mesh.elementTypes(spatial_dimension, _not_ghost, _ek_structural)) {
			#define ASSEMBLE_STIFFNESS_MATRIX(type) assembleStiffnessMatrix<type>();

			AKANTU_BOOST_STRUCTURAL_ELEMENT_SWITCH(ASSEMBLE_STIFFNESS_MATRIX);
			#undef ASSEMBLE_STIFFNESS_MATRIX
			}

			AKANTU_DEBUG_OUT();
			}

			/* -------------------------------------------------------------------------- */
			void StructuralMechanicsModel::computeStresses() {
			AKANTU_DEBUG_IN();

			for (auto & type :
			mesh.elementTypes(spatial_dimension, _not_ghost, _ek_structural)) {
			#define COMPUTE_STRESS_ON_QUAD(type) computeStressOnQuad<type>();

			AKANTU_BOOST_STRUCTURAL_ELEMENT_SWITCH(COMPUTE_STRESS_ON_QUAD);
			#undef COMPUTE_STRESS_ON_QUAD
			}

			AKANTU_DEBUG_OUT();
			}

			/* -------------------------------------------------------------------------- */
			void StructuralMechanicsModel::computeRotationMatrix(const ElementType & type) {
			Mesh & mesh = getFEEngine().getMesh();

			UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
			UInt nb_element = mesh.getNbElement(type);

			if (!rotation_matrix.exists(type)) {
			rotation_matrix.alloc(nb_element,
			nb_degree_of_freedom * nb_nodes_per_element *
			nb_degree_of_freedom * nb_nodes_per_element,
			type);
			} else {
			rotation_matrix(type).resize(nb_element);
			}
			rotation_matrix(type).clear();

			Array<Real> rotations(nb_element,
			nb_degree_of_freedom * nb_degree_of_freedom);
			rotations.clear();

			#define COMPUTE_ROTATION_MATRIX(type) computeRotationMatrix<type>(rotations);

			AKANTU_BOOST_STRUCTURAL_ELEMENT_SWITCH(COMPUTE_ROTATION_MATRIX);
			#undef COMPUTE_ROTATION_MATRIX

			auto R_it = rotations.begin(nb_degree_of_freedom, nb_degree_of_freedom);
			auto T_it =
			rotation_matrix(type).begin(nb_degree_of_freedom * nb_nodes_per_element,
			nb_degree_of_freedom * nb_nodes_per_element);

			for (UInt el = 0; el < nb_element; ++el, ++R_it, ++T_it) {
			auto & T = *T_it;
			auto & R = *R_it;
			for (UInt k = 0; k < nb_nodes_per_element; ++k) {
			for (UInt i = 0; i < nb_degree_of_freedom; ++i)
			for (UInt j = 0; j < nb_degree_of_freedom; ++j)
			T(k * nb_degree_of_freedom + i, k * nb_degree_of_freedom + j) =
			R(i, j);
			}
			}
			}

			/* -------------------------------------------------------------------------- */
			dumper::Field * StructuralMechanicsModel::createNodalFieldBool(
			const std::string & field_name, const std::string & group_name,
			__attribute__((unused)) bool padding_flag) {

			std::map<std::string, Array<bool> *> uint_nodal_fields;
			uint_nodal_fields["blocked_dofs"] = blocked_dofs;

			dumper::Field * field = NULL;
			field = mesh.createNodalField(uint_nodal_fields[field_name], group_name);
			return field;
			}

			/* -------------------------------------------------------------------------- */
			dumper::Field *
			StructuralMechanicsModel::createNodalFieldReal(const std::string & field_name,
			const std::string & group_name,
			bool padding_flag) {

			UInt n;
			if (spatial_dimension == 2) {
			n = 2;
			} else {
			n = 3;
			}

			if (field_name == "displacement") {
			return mesh.createStridedNodalField(displacement_rotation, group_name, n, 0,
			padding_flag);
			}

			if (field_name == "rotation") {
			return mesh.createStridedNodalField(displacement_rotation, group_name,
			nb_degree_of_freedom - n, n,
			padding_flag);
			}

			if (field_name == "force") {
			return mesh.createStridedNodalField(external_force, group_name, n, 0,
			padding_flag);
			}

			if (field_name == "momentum") {
			return mesh.createStridedNodalField(
			external_force, group_name, nb_degree_of_freedom - n, n, padding_flag);
			}

			if (field_name == "internal_force") {
			return mesh.createStridedNodalField(internal_force, group_name, n, 0,
			padding_flag);
			}

			if (field_name == "internal_momentum") {
			return mesh.createStridedNodalField(
			internal_force, group_name, nb_degree_of_freedom - n, n, padding_flag);
			}

			return nullptr;
			}

			/* -------------------------------------------------------------------------- */
			dumper::Field * StructuralMechanicsModel::createElementalField(
			const std::string & field_name, const std::string & group_name, bool,
			const ElementKind & kind, const std::string &) {

			dumper::Field * field = NULL;

			if (field_name == "element_index_by_material")
			field = mesh.createElementalField<UInt, Vector, dumper::ElementalField>(
			field_name, group_name, this->spatial_dimension, kind);

			return field;
			}

			/* -------------------------------------------------------------------------- */
			/* Virtual methods from SolverCallback */
			/* -------------------------------------------------------------------------- */
			/// get the type of matrix needed
			MatrixType StructuralMechanicsModel::getMatrixType(const ID & /id/) {
			return _symmetric;
			}

			/// callback to assemble a Matrix
			void StructuralMechanicsModel::assembleMatrix(const ID & id) {
			if (id == "K")
			assembleStiffnessMatrix();
			}

			/// callback to assemble a lumped Matrix
			void StructuralMechanicsModel::assembleLumpedMatrix(const ID & /id/) {}

			/// callback to assemble the residual StructuralMechanicsModel::(rhs)
			void StructuralMechanicsModel::assembleResidual() {
			AKANTU_DEBUG_IN();

			auto & dof_manager = getDOFManager();

			internal_force->clear();
			computeStresses();
			assembleInternalForce();
			dof_manager.assembleToResidual("displacement", *internal_force, -1);
			dof_manager.assembleToResidual("displacement", *external_force, 1);

			AKANTU_DEBUG_OUT();
			}

			/* -------------------------------------------------------------------------- */
			/* Virtual methods from MeshEventHandler */
			/* -------------------------------------------------------------------------- */

			/// function to implement to react on akantu::NewNodesEvent
			void StructuralMechanicsModel::onNodesAdded(const Array<UInt> & /nodes_list/,
			const NewNodesEvent & /event/) {}
			/// function to implement to react on akantu::RemovedNodesEvent
			void StructuralMechanicsModel::onNodesRemoved(
			const Array<UInt> & /nodes_list/, const Array<UInt> & /new_numbering/,
			const RemovedNodesEvent & /event/) {}
			/// function to implement to react on akantu::NewElementsEvent
			void StructuralMechanicsModel::onElementsAdded(
			const Array<Element> & /elements_list/,
			const NewElementsEvent & /event/) {}
			/// function to implement to react on akantu::RemovedElementsEvent
			void StructuralMechanicsModel::onElementsRemoved(
			const Array<Element> & /elements_list/,
			const ElementTypeMapArray<UInt> & /new_numbering/,
			const RemovedElementsEvent & /event/) {}
			/// function to implement to react on akantu::ChangedElementsEvent
			void StructuralMechanicsModel::onElementsChanged(
			const Array<Element> & /old_elements_list/,
			const Array<Element> & /new_elements_list/,
			const ElementTypeMapArray<UInt> & /new_numbering/,
			const ChangedElementsEvent & /event/) {}

			/* -------------------------------------------------------------------------- */
			/* Virtual methods from Model */
			/* -------------------------------------------------------------------------- */
			/// get some default values for derived classes
			std::tuple<ID, TimeStepSolverType>
			StructuralMechanicsModel::getDefaultSolverID(const AnalysisMethod & method) {
			switch (method) {
			case _static: {
			return std::make_tuple("static", _tsst_static);
			}
			case _implicit_dynamic: {
			return std::make_tuple("implicit", _tsst_dynamic);
			}
			default:
			return std::make_tuple("unknown", _tsst_not_defined);
			}
			}

			/* ------------------------------------------------------------------------ */
			ModelSolverOptions StructuralMechanicsModel::getDefaultSolverOptions(
			const TimeStepSolverType & type) const {
			ModelSolverOptions options;

			switch (type) {
			case _tsst_static: {
			options.non_linear_solver_type = _nls_linear;
			options.integration_scheme_type["displacement"] = _ist_pseudo_time;
			options.solution_type["displacement"] = IntegrationScheme::_not_defined;
			break;
			}
			default:
			AKANTU_EXCEPTION(type << " is not a valid time step solver type");
			}

			return options;
			}

			/* -------------------------------------------------------------------------- */
			void StructuralMechanicsModel::assembleInternalForce() {
			for (auto type : mesh.elementTypes(_spatial_dimension = _all_dimensions,
			_element_kind = _ek_structural)) {
			assembleInternalForce(type, _not_ghost);
			// assembleInternalForce(type, _ghost);
			}
			}

			/* -------------------------------------------------------------------------- */
			void StructuralMechanicsModel::assembleInternalForce(const ElementType & type,
			GhostType gt) {
			auto & fem = getFEEngine();
			auto & sigma = stress(type, gt);
			auto ndof = getNbDegreeOfFreedom(type);
			auto nb_nodes = mesh.getNbNodesPerElement(type);
			auto ndof_per_elem = ndof * nb_nodes;

			Array<Real> BtSigma(fem.getNbIntegrationPoints(type) *
			mesh.getNbElement(type),
			ndof_per_elem, "BtSigma");
			fem.computeBtD(sigma, BtSigma, type, gt);

			Array<Real> intBtSigma(0, ndof_per_elem, "intBtSigma");
			fem.integrate(BtSigma, intBtSigma, ndof_per_elem, type, gt);
			BtSigma.resize(0);

			getDOFManager().assembleElementalArrayLocalArray(intBtSigma, *internal_force,
			type, gt, 1);
			}
			/* -------------------------------------------------------------------------- */

			} // namespace akantu

rAKA/src/model/structural_mechanics/structural_mechanics_model.cc2d7e93b72235bugfixes/41-group-not…

structural_mechanics_model.ccView Options

rAKA/src/model/structural_mechanics/structural_mechanics_model.cc
2d7e93b72235bugfixes/41-group-not…

structural_mechanics_model.cc
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