ntn_base_contact.cc
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ntn_base_contact.cc
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	/**
	* @file ntn_base_contact.cc
	*
	* @author David Simon Kammer <david.kammer@epfl.ch>
	*
	* @date creation: Tue Dec 02 2014
	* @date last modification: Fri Feb 23 2018
	*
	* @brief implementation of ntn base contact
	*
	* @section LICENSE
	*
	* Copyright (©) 2015-2018 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 "ntn_base_contact.hh"
	#include "dof_manager_default.hh"
	#include "dumpable_inline_impl.hh"
	#include "dumper_nodal_field.hh"
	#include "dumper_text.hh"
	#include "element_synchronizer.hh"
	#include "mesh_utils.hh"
	#include "non_linear_solver_lumped.hh"
	/* -------------------------------------------------------------------------- */

	namespace akantu {

	/* -------------------------------------------------------------------------- */
	// NTNContactSynchElementFilter::NTNContactSynchElementFilter(
	// NTNBaseContact & contact)
	// : contact(contact),
	// connectivity(contact.getModel().getMesh().getConnectivities()) {
	// AKANTU_DEBUG_IN();

	// AKANTU_DEBUG_OUT();
	// }

	/* -------------------------------------------------------------------------- */
	// bool NTNContactSynchElementFilter::operator()(const Element & e) {
	// AKANTU_DEBUG_IN();

	// ElementType type = e.type;
	// UInt element = e.element;
	// GhostType ghost_type = e.ghost_type;

	// // loop over all nodes of this element
	// bool need_element = false;
	// UInt nb_nodes = Mesh::getNbNodesPerElement(type);
	// for (UInt n = 0; n < nb_nodes; ++n) {
	// UInt nn = this->connectivity(type, ghost_type)(element, n);

	// // if one nodes is in this contact, we need this element
	// if (this->contact.getNodeIndex(nn) >= 0) {
	// need_element = true;
	// break;
	// }
	// }

	// AKANTU_DEBUG_OUT();
	// return need_element;
	// }

	/* -------------------------------------------------------------------------- */
	NTNBaseContact::NTNBaseContact(SolidMechanicsModel & model, const ID & id,
	const MemoryID & memory_id)
	: Memory(id, memory_id), Dumpable(), model(model),
	slaves(0, 1, 0, id + ":slaves", std::numeric_limits<UInt>::quiet_NaN(),
	"slaves"),
	normals(0, model.getSpatialDimension(), 0, id + ":normals",
	std::numeric_limits<Real>::quiet_NaN(), "normals"),
	contact_pressure(
	0, model.getSpatialDimension(), 0, id + ":contact_pressure",
	std::numeric_limits<Real>::quiet_NaN(), "contact_pressure"),
	is_in_contact(0, 1, false, id + ":is_in_contact", false, "is_in_contact"),
	lumped_boundary_slaves(0, 1, 0, id + ":lumped_boundary_slaves",
	std::numeric_limits<Real>::quiet_NaN(),
	"lumped_boundary_slaves"),
	impedance(0, 1, 0, id + ":impedance",
	std::numeric_limits<Real>::quiet_NaN(), "impedance"),
	contact_surfaces(), slave_elements("slave_elements", id, memory_id),
	node_to_elements() {
	AKANTU_DEBUG_IN();

	FEEngine & boundary_fem = this->model.getFEEngineBoundary();
	for (ghost_type_t::iterator gt = ghost_type_t::begin();
	gt != ghost_type_t::end(); ++gt) {
	boundary_fem.initShapeFunctions(*gt);
	}

	Mesh & mesh = this->model.getMesh();
	UInt spatial_dimension = this->model.getSpatialDimension();

	this->slave_elements.initialize(mesh,
	_spatial_dimension = spatial_dimension - 1);

	MeshUtils::buildNode2Elements(mesh, this->node_to_elements,
	spatial_dimension - 1);

	this->registerDumper<DumperText>("text_all", id, true);
	this->addDumpFilteredMesh(mesh, slave_elements, slaves.getArray(),
	spatial_dimension - 1, _not_ghost, _ek_regular);

	// parallelisation
	this->synch_registry = std::make_unique<SynchronizerRegistry>();
	this->synch_registry->registerDataAccessor(*this);

	AKANTU_DEBUG_OUT();
	}

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

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::initParallel() {
	AKANTU_DEBUG_IN();

	this->synchronizer = std::make_unique<ElementSynchronizer>(
	this->model.getMesh().getElementSynchronizer());

	this->synchronizer->filterScheme([&](auto && element) {
	// loop over all nodes of this element
	Vector<UInt> conn = const_cast<const Mesh &>(this->model.getMesh())
	.getConnectivity(element);
	for (auto & node : conn) {
	// if one nodes is in this contact, we need this element
	if (this->getNodeIndex(node) >= 0) {
	return true;
	}
	}
	return false;
	});

	this->synch_registry->registerSynchronizer(*(this->synchronizer),
	SynchronizationTag::_cf_nodal);
	this->synch_registry->registerSynchronizer(*(this->synchronizer),
	SynchronizationTag::_cf_incr);

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::findBoundaryElements(
	const Array<UInt> & interface_nodes, ElementTypeMapArray<UInt> & elements) {
	AKANTU_DEBUG_IN();

	// add connected boundary elements that have all nodes on this contact
	for (const auto & node : interface_nodes) {
	for (const auto & element : this->node_to_elements.getRow(node)) {
	Vector<UInt> conn = const_cast<const Mesh &>(this->model.getMesh())
	.getConnectivity(element);
	auto nb_nodes = conn.size();
	decltype(nb_nodes) nb_found_nodes = 0;

	for (auto & nn : conn) {
	if (interface_nodes.find(nn) != UInt(-1)) {
	nb_found_nodes++;
	} else {
	break;
	}
	}

	// this is an element between all contact nodes
	// and is not already in the elements
	if ((nb_found_nodes == nb_nodes) &&
	(elements(element.type, element.ghost_type).find(element.element) ==
	UInt(-1))) {
	elements(element.type, element.ghost_type).push_back(element.element);
	}
	}
	}

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::addSplitNode(UInt node) {
	AKANTU_DEBUG_IN();

	UInt dim = this->model.getSpatialDimension();

	// add to node arrays
	this->slaves.push_back(node);

	// set contact as false
	this->is_in_contact.push_back(false);

	// before initializing
	// set contact pressure, normal, lumped_boundary to Nan
	this->contact_pressure.push_back(std::numeric_limits<Real>::quiet_NaN());
	this->impedance.push_back(std::numeric_limits<Real>::quiet_NaN());
	this->lumped_boundary_slaves.push_back(
	std::numeric_limits<Real>::quiet_NaN());

	Vector<Real> nan_normal(dim, std::numeric_limits<Real>::quiet_NaN());
	this->normals.push_back(nan_normal);

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::registerSynchronizedArray(SynchronizedArrayBase & array) {
	AKANTU_DEBUG_IN();

	this->slaves.registerDependingArray(array);

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::dumpRestart(const std::string & file_name) const {
	AKANTU_DEBUG_IN();

	this->slaves.dumpRestartFile(file_name);
	this->normals.dumpRestartFile(file_name);
	this->is_in_contact.dumpRestartFile(file_name);
	this->contact_pressure.dumpRestartFile(file_name);
	this->lumped_boundary_slaves.dumpRestartFile(file_name);
	this->impedance.dumpRestartFile(file_name);

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::readRestart(const std::string & file_name) {
	AKANTU_DEBUG_IN();

	this->slaves.readRestartFile(file_name);
	this->normals.readRestartFile(file_name);
	this->is_in_contact.readRestartFile(file_name);
	this->contact_pressure.readRestartFile(file_name);
	this->lumped_boundary_slaves.readRestartFile(file_name);
	this->impedance.readRestartFile(file_name);

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	UInt NTNBaseContact::getNbNodesInContact() const {
	AKANTU_DEBUG_IN();

	UInt nb_contact = 0;

	UInt nb_nodes = this->getNbContactNodes();
	const Mesh & mesh = this->model.getMesh();

	for (UInt n = 0; n < nb_nodes; ++n) {
	bool is_local_node = mesh.isLocalOrMasterNode(this->slaves(n));
	bool is_pbc_slave_node = mesh.isPeriodicSlave(this->slaves(n));
	if (is_local_node && !is_pbc_slave_node && this->is_in_contact(n)) {
	nb_contact++;
	}
	}

	mesh.getCommunicator().allReduce(nb_contact, SynchronizerOperation::_sum);

	AKANTU_DEBUG_OUT();
	return nb_contact;
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::updateInternalData() {
	AKANTU_DEBUG_IN();

	updateNormals();
	updateLumpedBoundary();
	updateImpedance();

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::updateLumpedBoundary() {
	AKANTU_DEBUG_IN();

	this->internalUpdateLumpedBoundary(this->slaves.getArray(),
	this->slave_elements,
	this->lumped_boundary_slaves);

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::internalUpdateLumpedBoundary(
	const Array<UInt> & nodes, const ElementTypeMapArray<UInt> & elements,
	SynchronizedArray<Real> & boundary) {
	AKANTU_DEBUG_IN();

	// set all values in lumped_boundary to zero
	boundary.clear();

	UInt dim = this->model.getSpatialDimension();
	// UInt nb_contact_nodes = getNbContactNodes();

	const FEEngine & boundary_fem = this->model.getFEEngineBoundary();

	const Mesh & mesh = this->model.getMesh();

	for(auto ghost_type : ghost_types) {
	for (auto & type : mesh.elementTypes(dim - 1, ghost_type)) {
	UInt nb_elements = mesh.getNbElement(type, ghost_type);
	UInt nb_nodes_per_element = mesh.getNbNodesPerElement(type);
	const Array<UInt> & connectivity = mesh.getConnectivity(type, ghost_type);

	// get shapes and compute integral
	const Array<Real> & shapes = boundary_fem.getShapes(type, ghost_type);
	Array<Real> area(nb_elements, nb_nodes_per_element);
	boundary_fem.integrate(shapes, area, nb_nodes_per_element, type, ghost_type);

	if (this->contact_surfaces.size() == 0) {
	AKANTU_DEBUG_WARNING(
	"No surfaces in ntn base contact."
	<< " You have to define the lumped boundary by yourself.");
	}

	Array<UInt>::const_iterator<UInt> elem_it = (elements)(type, ghost_type).begin();
	Array<UInt>::const_iterator<UInt> elem_it_end =
	(elements)(type, ghost_type).end();
	// loop over contact nodes
	for (; elem_it != elem_it_end; ++elem_it) {
	for (UInt q = 0; q < nb_nodes_per_element; ++q) {
	UInt node = connectivity(*elem_it, q);
	UInt node_index = nodes.find(node);
	AKANTU_DEBUG_ASSERT(node_index != UInt(-1), "Could not find node "
	<< node
	<< " in the array!");
	Real area_to_add = area(*elem_it, q);
	boundary(node_index) += area_to_add;
	}
	}
	}
	}

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::computeContactPressure() {
	AKANTU_DEBUG_IN();

	UInt dim = this->model.getSpatialDimension();
	Real delta_t = this->model.getTimeStep();
	UInt nb_contact_nodes = getNbContactNodes();

	AKANTU_DEBUG_ASSERT(delta_t > 0.,
	"Cannot compute contact pressure if no time step is set");

	// synchronize data
	this->synch_registry->synchronize(SynchronizationTag::_cf_nodal);

	auto && dof_manager =
	dynamic_cast<DOFManagerDefault &>(model.getDOFManager());
	const auto & b = dof_manager.getResidual();
	Array<Real> acceleration(b.size(), dim);
	const auto & blocked_dofs = dof_manager.getGlobalBlockedDOFs();
	const auto & A = dof_manager.getLumpedMatrix("M");

	// pre-compute the acceleration
	// (not increment acceleration, because residual is still Kf)
	NonLinearSolverLumped::solveLumped(A, acceleration, b, blocked_dofs,
	this->model.getF_M2A());

	// compute relative normal fields of displacement, velocity and acceleration
	Array<Real> r_disp(0, 1);
	Array<Real> r_velo(0, 1);
	Array<Real> r_acce(0, 1);
	Array<Real> r_old_acce(0, 1);
	computeNormalGap(r_disp);
	// computeRelativeNormalField(this->model.getCurrentPosition(), r_disp);
	computeRelativeNormalField(this->model.getVelocity(), r_velo);
	computeRelativeNormalField(acceleration, r_acce);
	computeRelativeNormalField(this->model.getAcceleration(), r_old_acce);

	AKANTU_DEBUG_ASSERT(r_disp.size() == nb_contact_nodes,
	"computeRelativeNormalField does not give back arrays "
	<< "size == nb_contact_nodes. nb_contact_nodes = "
	<< nb_contact_nodes
	<< " \| array size = " << r_disp.size());

	// compute gap array for all nodes
	Array<Real> gap(nb_contact_nodes, 1);
	Real * gap_p = gap.storage();
	Real * r_disp_p = r_disp.storage();
	Real * r_velo_p = r_velo.storage();
	Real * r_acce_p = r_acce.storage();
	Real * r_old_acce_p = r_old_acce.storage();
	for (UInt i = 0; i < nb_contact_nodes; ++i) {
	gap_p = r_disp_p + delta_t * r_velo_p + delta_t delta_t * *r_acce_p -
	0.5 * delta_t * delta_t * *r_old_acce_p;
	// increment pointers
	gap_p++;
	r_disp_p++;
	r_velo_p++;
	r_acce_p++;
	r_old_acce_p++;
	}

	// check if gap is negative -> is in contact
	for (UInt n = 0; n < nb_contact_nodes; ++n) {
	if (gap(n) <= 0.) {
	for (UInt d = 0; d < dim; ++d) {
	this->contact_pressure(n, d) =
	this->impedance(n) * gap(n) / (2 * delta_t) * this->normals(n, d);
	}
	this->is_in_contact(n) = true;
	} else {
	for (UInt d = 0; d < dim; ++d)
	this->contact_pressure(n, d) = 0.;
	this->is_in_contact(n) = false;
	}
	}

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::applyContactPressure() {
	AKANTU_DEBUG_IN();

	UInt nb_contact_nodes = getNbContactNodes();
	UInt dim = this->model.getSpatialDimension();

	Array<Real> & residual = this->model.getInternalForce();

	for (UInt n = 0; n < nb_contact_nodes; ++n) {
	UInt slave = this->slaves(n);

	for (UInt d = 0; d < dim; ++d) {
	// residual(master,d) += this->lumped_boundary(n,0) *
	// this->contact_pressure(n,d);
	residual(slave, d) -=
	this->lumped_boundary_slaves(n) * this->contact_pressure(n, d);
	}
	}

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	Int NTNBaseContact::getNodeIndex(UInt node) const {
	return this->slaves.find(node);
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::printself(std::ostream & stream, int indent) const {
	AKANTU_DEBUG_IN();
	std::string space;
	for (Int i = 0; i < indent; i++, space += AKANTU_INDENT)
	;

	stream << space << "NTNBaseContact [" << std::endl;
	stream << space << " + id : " << id << std::endl;
	stream << space << " + slaves : " << std::endl;
	this->slaves.printself(stream, indent + 2);
	stream << space << " + normals : " << std::endl;
	this->normals.printself(stream, indent + 2);
	stream << space << " + contact_pressure : " << std::endl;
	this->contact_pressure.printself(stream, indent + 2);

	stream << space << "]" << std::endl;

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::syncArrays(SyncChoice sync_choice) {
	AKANTU_DEBUG_IN();

	this->slaves.syncElements(sync_choice);
	this->normals.syncElements(sync_choice);
	this->is_in_contact.syncElements(sync_choice);
	this->contact_pressure.syncElements(sync_choice);
	this->lumped_boundary_slaves.syncElements(sync_choice);
	this->impedance.syncElements(sync_choice);

	AKANTU_DEBUG_OUT();
	}

	/* -------------------------------------------------------------------------- */
	void NTNBaseContact::addDumpFieldToDumper(const std::string & dumper_name,
	const std::string & field_id) {
	AKANTU_DEBUG_IN();

	#ifdef AKANTU_USE_IOHELPER
	const Array<UInt> & nodal_filter = this->slaves.getArray();

	#define ADD_FIELD(field_id, field, type) \
	internalAddDumpFieldToDumper( \
	dumper_name, field_id, \
	new dumper::NodalField<type, true, Array<type>, Array<UInt>>( \
	field, 0, 0, &nodal_filter))

	if (field_id == "displacement") {
	ADD_FIELD(field_id, this->model.getDisplacement(), Real);
	} else if (field_id == "mass") {
	ADD_FIELD(field_id, this->model.getMass(), Real);
	} else if (field_id == "velocity") {
	ADD_FIELD(field_id, this->model.getVelocity(), Real);
	} else if (field_id == "acceleration") {
	ADD_FIELD(field_id, this->model.getAcceleration(), Real);
	} else if (field_id == "external_force") {
	ADD_FIELD(field_id, this->model.getForce(), Real);
	} else if (field_id == "internal_force") {
	ADD_FIELD(field_id, this->model.getInternalForce(), Real);
	} else if (field_id == "blocked_dofs") {
	ADD_FIELD(field_id, this->model.getBlockedDOFs(), bool);
	} else if (field_id == "increment") {
	ADD_FIELD(field_id, this->model.getIncrement(), Real);
	} else if (field_id == "normal") {
	internalAddDumpFieldToDumper(
	dumper_name, field_id,
	new dumper::NodalField<Real>(this->normals.getArray()));
	} else if (field_id == "contact_pressure") {
	internalAddDumpFieldToDumper(
	dumper_name, field_id,
	new dumper::NodalField<Real>(this->contact_pressure.getArray()));
	} else if (field_id == "is_in_contact") {
	internalAddDumpFieldToDumper(
	dumper_name, field_id,
	new dumper::NodalField<bool>(this->is_in_contact.getArray()));
	} else if (field_id == "lumped_boundary_slave") {
	internalAddDumpFieldToDumper(
	dumper_name, field_id,
	new dumper::NodalField<Real>(this->lumped_boundary_slaves.getArray()));
	} else if (field_id == "impedance") {
	internalAddDumpFieldToDumper(
	dumper_name, field_id,
	new dumper::NodalField<Real>(this->impedance.getArray()));
	} else {
	std::cerr << "Could not add field '" << field_id
	<< "' to the dumper. Just ignored it." << std::endl;
	}

	#undef ADD_FIELD
	#endif

	AKANTU_DEBUG_OUT();
	}

	} // namespace akantu

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