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dof_manager.cc
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/**
* @file dof_manager.cc
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Tue Aug 18 2015
* @date last modification: Wed Feb 21 2018
*
* @brief Implementation of the common parts of the DOFManagers
*
* @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 "dof_manager.hh"
#include "communicator.hh"
#include "mesh.hh"
#include "mesh_utils.hh"
#include "node_group.hh"
#include "node_synchronizer.hh"
#include "non_linear_solver.hh"
#include "periodic_node_synchronizer.hh"
#include "time_step_solver.hh"
/* -------------------------------------------------------------------------- */
#include <memory>
/* -------------------------------------------------------------------------- */
namespace akantu {
/* -------------------------------------------------------------------------- */
DOFManager::DOFManager(const ID & id, const MemoryID & memory_id)
: Memory(id, memory_id), dofs_flag(0, 1, std::string(id + ":dofs_type")),
global_equation_number(0, 1, "global_equation_number"),
communicator(Communicator::getStaticCommunicator()) {}
/* -------------------------------------------------------------------------- */
DOFManager::DOFManager(Mesh & mesh, const ID & id, const MemoryID & memory_id)
: Memory(id, memory_id), mesh(&mesh),
dofs_flag(0, 1, std::string(id + ":dofs_type")),
global_equation_number(0, 1, "global_equation_number"),
communicator(mesh.getCommunicator()) {
this->mesh->registerEventHandler(*this, _ehp_dof_manager);
}
/* -------------------------------------------------------------------------- */
DOFManager::~DOFManager() {
if (mesh) {
this->mesh->unregisterEventHandler(*this);
}
}
/* -------------------------------------------------------------------------- */
// void DOFManager::getEquationsNumbers(const ID &, Array<UInt> &) {
// AKANTU_TO_IMPLEMENT();
// }
/* -------------------------------------------------------------------------- */
std::vector<ID> DOFManager::getDOFIDs() const {
std::vector<ID> keys;
for (const auto & dof_data : this->dofs)
keys.push_back(dof_data.first);
return keys;
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleElementalArrayLocalArray(
const Array<Real> & elementary_vect, Array<Real> & array_assembeled,
const ElementType & type, const GhostType & ghost_type, Real scale_factor,
const Array<UInt> & filter_elements) {
AKANTU_DEBUG_IN();
UInt nb_element;
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_degree_of_freedom =
elementary_vect.getNbComponent() / nb_nodes_per_element;
UInt * filter_it = nullptr;
if (filter_elements != empty_filter) {
nb_element = filter_elements.size();
filter_it = filter_elements.storage();
} else {
nb_element = this->mesh->getNbElement(type, ghost_type);
}
AKANTU_DEBUG_ASSERT(elementary_vect.size() == nb_element,
"The vector elementary_vect("
<< elementary_vect.getID()
<< ") has not the good size.");
const Array<UInt> & connectivity =
this->mesh->getConnectivity(type, ghost_type);
Array<Real>::const_matrix_iterator elem_it =
elementary_vect.begin(nb_degree_of_freedom, nb_nodes_per_element);
for (UInt el = 0; el < nb_element; ++el, ++elem_it) {
UInt element = el;
if (filter_it != nullptr) {
// conn_it = conn_begin + *filter_it;
element = *filter_it;
}
// const Vector<UInt> & conn = *conn_it;
const Matrix<Real> & elemental_val = *elem_it;
for (UInt n = 0; n < nb_nodes_per_element; ++n) {
UInt offset_node = connectivity(element, n) * nb_degree_of_freedom;
Vector<Real> assemble(array_assembeled.storage() + offset_node,
nb_degree_of_freedom);
Vector<Real> elem_val = elemental_val(n);
assemble.aXplusY(elem_val, scale_factor);
}
if (filter_it != nullptr)
++filter_it;
// else
// ++conn_it;
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleElementalArrayToResidual(
const ID & dof_id, const Array<Real> & elementary_vect,
const ElementType & type, const GhostType & ghost_type, Real scale_factor,
const Array<UInt> & filter_elements) {
AKANTU_DEBUG_IN();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_degree_of_freedom =
elementary_vect.getNbComponent() / nb_nodes_per_element;
Array<Real> array_localy_assembeled(this->mesh->getNbNodes(),
nb_degree_of_freedom);
array_localy_assembeled.clear();
this->assembleElementalArrayLocalArray(
elementary_vect, array_localy_assembeled, type, ghost_type, scale_factor,
filter_elements);
this->assembleToResidual(dof_id, array_localy_assembeled, 1);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleElementalArrayToLumpedMatrix(
const ID & dof_id, const Array<Real> & elementary_vect,
const ID & lumped_mtx, const ElementType & type,
const GhostType & ghost_type, Real scale_factor,
const Array<UInt> & filter_elements) {
AKANTU_DEBUG_IN();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_degree_of_freedom =
elementary_vect.getNbComponent() / nb_nodes_per_element;
Array<Real> array_localy_assembeled(this->mesh->getNbNodes(),
nb_degree_of_freedom);
array_localy_assembeled.clear();
this->assembleElementalArrayLocalArray(
elementary_vect, array_localy_assembeled, type, ghost_type, scale_factor,
filter_elements);
this->assembleToLumpedMatrix(dof_id, array_localy_assembeled, lumped_mtx, 1);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleMatMulDOFsToResidual(const ID & A_id,
Real scale_factor) {
for (auto & pair : this->dofs) {
const auto & dof_id = pair.first;
auto & dof_data = *pair.second;
this->assembleMatMulVectToResidual(dof_id, A_id, *dof_data.dof,
scale_factor);
}
}
/* -------------------------------------------------------------------------- */
void DOFManager::splitSolutionPerDOFs() {
for (auto && data : this->dofs) {
auto & dof_data = *data.second;
dof_data.solution.resize(dof_data.dof->size() *
dof_data.dof->getNbComponent());
this->getSolutionPerDOFs(data.first, dof_data.solution);
}
}
/* -------------------------------------------------------------------------- */
void DOFManager::getSolutionPerDOFs(const ID & dof_id,
Array<Real> & solution_array) {
AKANTU_DEBUG_IN();
this->getArrayPerDOFs(dof_id, this->getSolution(), solution_array);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManager::getLumpedMatrixPerDOFs(const ID & dof_id,
const ID & lumped_mtx,
Array<Real> & lumped) {
AKANTU_DEBUG_IN();
this->getArrayPerDOFs(dof_id, this->getLumpedMatrix(lumped_mtx), lumped);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleToResidual(const ID & dof_id,
Array<Real> & array_to_assemble,
Real scale_factor) {
AKANTU_DEBUG_IN();
// this->makeConsistentForPeriodicity(dof_id, array_to_assemble);
this->assembleToGlobalArray(dof_id, array_to_assemble, this->getResidual(),
scale_factor);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleToLumpedMatrix(const ID & dof_id,
Array<Real> & array_to_assemble,
const ID & lumped_mtx,
Real scale_factor) {
AKANTU_DEBUG_IN();
// this->makeConsistentForPeriodicity(dof_id, array_to_assemble);
auto & lumped = this->getLumpedMatrix(lumped_mtx);
this->assembleToGlobalArray(dof_id, array_to_assemble, lumped, scale_factor);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
DOFManager::DOFData::DOFData(const ID & dof_id)
: support_type(_dst_generic), group_support("__mesh__"), dof(nullptr),
blocked_dofs(nullptr), increment(nullptr), previous(nullptr),
solution(0, 1, dof_id + ":solution"),
local_equation_number(0, 1, dof_id + ":local_equation_number"),
associated_nodes(0, 1, dof_id + "associated_nodes") {}
/* -------------------------------------------------------------------------- */
DOFManager::DOFData::~DOFData() = default;
/* -------------------------------------------------------------------------- */
template <typename Func>
auto DOFManager::countDOFsForNodes(const DOFData & dof_data, UInt nb_nodes,
Func && getNode) {
auto nb_local_dofs = nb_nodes;
decltype(nb_local_dofs) nb_pure_local = 0;
for (auto n : arange(nb_nodes)) {
UInt node = getNode(n);
// http://www.open-std.org/jtc1/sc22/open/n2356/conv.html
// bool are by convention casted to 0 and 1 when promoted to int
nb_pure_local += this->mesh->isLocalOrMasterNode(node);
nb_local_dofs -= this->mesh->isPeriodicSlave(node);
}
const auto & dofs_array = *dof_data.dof;
nb_pure_local *= dofs_array.getNbComponent();
nb_local_dofs *= dofs_array.getNbComponent();
return std::make_pair(nb_local_dofs, nb_pure_local);
}
/* -------------------------------------------------------------------------- */
auto DOFManager::getNewDOFDataInternal(const ID & dof_id) -> DOFData & {
auto it = this->dofs.find(dof_id);
if (it != this->dofs.end()) {
AKANTU_EXCEPTION("This dof array has already been registered");
}
std::unique_ptr<DOFData> dof_data_ptr = this->getNewDOFData(dof_id);
DOFData & dof_data = *dof_data_ptr;
this->dofs[dof_id] = std::move(dof_data_ptr);
return dof_data;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFs(const ID & dof_id, Array<Real> & dofs_array,
const DOFSupportType & support_type) {
auto & dofs_storage = this->getNewDOFDataInternal(dof_id);
dofs_storage.support_type = support_type;
this->registerDOFsInternal(dof_id, dofs_array);
resizeGlobalArrays();
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFs(const ID & dof_id, Array<Real> & dofs_array,
const ID & support_group) {
auto & dofs_storage = this->getNewDOFDataInternal(dof_id);
dofs_storage.support_type = _dst_nodal;
dofs_storage.group_support = support_group;
this->registerDOFsInternal(dof_id, dofs_array);
resizeGlobalArrays();
}
/* -------------------------------------------------------------------------- */
std::tuple<UInt, UInt, UInt>
DOFManager::registerDOFsInternal(const ID & dof_id, Array<Real> & dofs_array) {
DOFData & dof_data = this->getDOFData(dof_id);
dof_data.dof = &dofs_array;
UInt nb_local_dofs = 0;
UInt nb_pure_local = 0;
const auto & support_type = dof_data.support_type;
switch (support_type) {
case _dst_nodal: {
const auto & group = dof_data.group_support;
std::function<UInt(UInt)> getNode;
if (group == "__mesh__") {
AKANTU_DEBUG_ASSERT(
dofs_array.size() == this->mesh->getNbNodes(),
"The array of dof is too short to be associated to nodes.");
std::tie(nb_local_dofs, nb_pure_local) = countDOFsForNodes(
dof_data, this->mesh->getNbNodes(), [](auto && n) { return n; });
} else {
const auto & node_group =
this->mesh->getElementGroup(group).getNodeGroup().getNodes();
AKANTU_DEBUG_ASSERT(
dofs_array.size() == node_group.size(),
"The array of dof is too shot to be associated to nodes.");
std::tie(nb_local_dofs, nb_pure_local) =
countDOFsForNodes(dof_data, node_group.size(),
[&node_group](auto && n) { return node_group(n); });
}
break;
}
case _dst_generic: {
nb_local_dofs = nb_pure_local =
dofs_array.size() * dofs_array.getNbComponent();
break;
}
default: { AKANTU_EXCEPTION("This type of dofs is not handled yet."); }
}
dof_data.local_nb_dofs = nb_local_dofs;
dof_data.pure_local_nb_dofs = nb_pure_local;
dof_data.ghosts_nb_dofs = nb_local_dofs - nb_pure_local;
this->pure_local_system_size += nb_pure_local;
this->local_system_size += nb_local_dofs;
auto nb_total_pure_local = nb_pure_local;
communicator.allReduce(nb_total_pure_local, SynchronizerOperation::_sum);
this->system_size += nb_total_pure_local;
this->dofs_flag.resize(this->local_system_size, NodeFlag::_normal);
this->global_equation_number.resize(this->local_system_size, -1);
// updating the dofs data after counting is finished
switch (support_type) {
case _dst_nodal: {
const auto & group = dof_data.group_support;
if (group != "__mesh__") {
auto & support_nodes =
this->mesh->getElementGroup(group).getNodeGroup().getNodes();
this->updateDOFsData(
dof_data, nb_local_dofs, nb_pure_local, support_nodes.size(),
[&support_nodes](UInt node) -> UInt { return support_nodes[node]; });
} else {
this->updateDOFsData(dof_data, nb_local_dofs, nb_pure_local,
mesh->getNbNodes(),
[](UInt node) -> UInt { return node; });
}
break;
}
case _dst_generic: {
this->updateDOFsData(dof_data, nb_local_dofs, nb_pure_local);
break;
}
}
return {nb_local_dofs, nb_pure_local, nb_total_pure_local};
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFsPrevious(const ID & dof_id, Array<Real> & array) {
DOFData & dof = this->getDOFData(dof_id);
if (dof.previous != nullptr) {
AKANTU_EXCEPTION("The previous dofs array for "
<< dof_id << " has already been registered");
}
dof.previous = &array;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFsIncrement(const ID & dof_id, Array<Real> & array) {
DOFData & dof = this->getDOFData(dof_id);
if (dof.increment != nullptr) {
AKANTU_EXCEPTION("The dofs increment array for "
<< dof_id << " has already been registered");
}
dof.increment = &array;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFsDerivative(const ID & dof_id, UInt order,
Array<Real> & dofs_derivative) {
DOFData & dof = this->getDOFData(dof_id);
std::vector<Array<Real> *> & derivatives = dof.dof_derivatives;
if (derivatives.size() < order) {
derivatives.resize(order, nullptr);
} else {
if (derivatives[order - 1] != nullptr) {
AKANTU_EXCEPTION("The dof derivatives of order "
<< order << " already been registered for this dof ("
<< dof_id << ")");
}
}
derivatives[order - 1] = &dofs_derivative;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerBlockedDOFs(const ID & dof_id,
Array<bool> & blocked_dofs) {
DOFData & dof = this->getDOFData(dof_id);
if (dof.blocked_dofs != nullptr) {
AKANTU_EXCEPTION("The blocked dofs array for "
<< dof_id << " has already been registered");
}
dof.blocked_dofs = &blocked_dofs;
}
/* -------------------------------------------------------------------------- */
SparseMatrix &
DOFManager::registerSparseMatrix(const ID & matrix_id,
std::unique_ptr<SparseMatrix> & matrix) {
auto it = this->matrices.find(matrix_id);
if (it != this->matrices.end()) {
AKANTU_EXCEPTION("The matrix " << matrix_id << " already exists in "
<< this->id);
}
auto & ret = *matrix;
this->matrices[matrix_id] = std::move(matrix);
return ret;
}
/* -------------------------------------------------------------------------- */
/// Get an instance of a new SparseMatrix
SolverVector &
DOFManager::registerLumpedMatrix(const ID & matrix_id,
std::unique_ptr<SolverVector> & matrix) {
auto it = this->lumped_matrices.find(matrix_id);
if (it != this->lumped_matrices.end()) {
AKANTU_EXCEPTION("The lumped matrix " << matrix_id << " already exists in "
<< this->id);
}
auto & ret = *matrix;
this->lumped_matrices[matrix_id] = std::move(matrix);
ret.resize();
return ret;
}
/* -------------------------------------------------------------------------- */
NonLinearSolver & DOFManager::registerNonLinearSolver(
const ID & non_linear_solver_id,
std::unique_ptr<NonLinearSolver> & non_linear_solver) {
NonLinearSolversMap::const_iterator it =
this->non_linear_solvers.find(non_linear_solver_id);
if (it != this->non_linear_solvers.end()) {
AKANTU_EXCEPTION("The non linear solver " << non_linear_solver_id
<< " already exists in "
<< this->id);
}
NonLinearSolver & ret = *non_linear_solver;
this->non_linear_solvers[non_linear_solver_id] = std::move(non_linear_solver);
return ret;
}
/* -------------------------------------------------------------------------- */
TimeStepSolver & DOFManager::registerTimeStepSolver(
const ID & time_step_solver_id,
std::unique_ptr<TimeStepSolver> & time_step_solver) {
TimeStepSolversMap::const_iterator it =
this->time_step_solvers.find(time_step_solver_id);
if (it != this->time_step_solvers.end()) {
AKANTU_EXCEPTION("The non linear solver " << time_step_solver_id
<< " already exists in "
<< this->id);
}
TimeStepSolver & ret = *time_step_solver;
this->time_step_solvers[time_step_solver_id] = std::move(time_step_solver);
return ret;
}
/* -------------------------------------------------------------------------- */
SparseMatrix & DOFManager::getMatrix(const ID & id) {
ID matrix_id = this->id + ":mtx:" + id;
SparseMatricesMap::const_iterator it = this->matrices.find(matrix_id);
if (it == this->matrices.end()) {
AKANTU_SILENT_EXCEPTION("The matrix " << matrix_id << " does not exists in "
<< this->id);
}
return *(it->second);
}
/* -------------------------------------------------------------------------- */
bool DOFManager::hasMatrix(const ID & id) const {
ID mtx_id = this->id + ":mtx:" + id;
auto it = this->matrices.find(mtx_id);
return it != this->matrices.end();
}
/* -------------------------------------------------------------------------- */
SolverVector & DOFManager::getLumpedMatrix(const ID & id) {
ID matrix_id = this->id + ":lumped_mtx:" + id;
LumpedMatricesMap::const_iterator it = this->lumped_matrices.find(matrix_id);
if (it == this->lumped_matrices.end()) {
AKANTU_SILENT_EXCEPTION("The lumped matrix "
<< matrix_id << " does not exists in " << this->id);
}
return *(it->second);
}
/* -------------------------------------------------------------------------- */
const SolverVector & DOFManager::getLumpedMatrix(const ID & id) const {
ID matrix_id = this->id + ":lumped_mtx:" + id;
auto it = this->lumped_matrices.find(matrix_id);
if (it == this->lumped_matrices.end()) {
AKANTU_SILENT_EXCEPTION("The lumped matrix "
<< matrix_id << " does not exists in " << this->id);
}
return *(it->second);
}
/* -------------------------------------------------------------------------- */
bool DOFManager::hasLumpedMatrix(const ID & id) const {
ID mtx_id = this->id + ":lumped_mtx:" + id;
auto it = this->lumped_matrices.find(mtx_id);
return it != this->lumped_matrices.end();
}
/* -------------------------------------------------------------------------- */
NonLinearSolver & DOFManager::getNonLinearSolver(const ID & id) {
ID non_linear_solver_id = this->id + ":nls:" + id;
NonLinearSolversMap::const_iterator it =
this->non_linear_solvers.find(non_linear_solver_id);
if (it == this->non_linear_solvers.end()) {
AKANTU_EXCEPTION("The non linear solver " << non_linear_solver_id
<< " does not exists in "
<< this->id);
}
return *(it->second);
}
/* -------------------------------------------------------------------------- */
bool DOFManager::hasNonLinearSolver(const ID & id) const {
ID solver_id = this->id + ":nls:" + id;
auto it = this->non_linear_solvers.find(solver_id);
return it != this->non_linear_solvers.end();
}
/* -------------------------------------------------------------------------- */
TimeStepSolver & DOFManager::getTimeStepSolver(const ID & id) {
ID time_step_solver_id = this->id + ":tss:" + id;
TimeStepSolversMap::const_iterator it =
this->time_step_solvers.find(time_step_solver_id);
if (it == this->time_step_solvers.end()) {
AKANTU_EXCEPTION("The non linear solver " << time_step_solver_id
<< " does not exists in "
<< this->id);
}
return *(it->second);
}
/* -------------------------------------------------------------------------- */
bool DOFManager::hasTimeStepSolver(const ID & solver_id) const {
ID time_step_solver_id = this->id + ":tss:" + solver_id;
auto it = this->time_step_solvers.find(time_step_solver_id);
return it != this->time_step_solvers.end();
}
/* -------------------------------------------------------------------------- */
void DOFManager::savePreviousDOFs(const ID & dofs_id) {
this->getPreviousDOFs(dofs_id).copy(this->getDOFs(dofs_id));
}
/* -------------------------------------------------------------------------- */
void DOFManager::clearResidual() { this->residual->clear(); }
/* -------------------------------------------------------------------------- */
void DOFManager::clearMatrix(const ID & mtx) { this->getMatrix(mtx).clear(); }
/* -------------------------------------------------------------------------- */
void DOFManager::clearLumpedMatrix(const ID & mtx) {
this->getLumpedMatrix(mtx).clear();
}
/* -------------------------------------------------------------------------- */
/* Mesh Events */
/* -------------------------------------------------------------------------- */
std::pair<UInt, UInt>
DOFManager::updateNodalDOFs(const ID & dof_id, const Array<UInt> & nodes_list) {
auto & dof_data = this->getDOFData(dof_id);
UInt nb_new_local_dofs, nb_new_pure_local;
std::tie(nb_new_local_dofs, nb_new_pure_local) =
countDOFsForNodes(dof_data, nodes_list.size(),
[&nodes_list](auto && n) { return nodes_list(n); });
this->pure_local_system_size += nb_new_pure_local;
this->local_system_size += nb_new_local_dofs;
UInt nb_new_global = nb_new_pure_local;
communicator.allReduce(nb_new_global, SynchronizerOperation::_sum);
this->system_size += nb_new_global;
dof_data.solution.resize(local_system_size);
updateDOFsData(dof_data, nb_new_local_dofs, nb_new_pure_local,
nodes_list.size(),
[&nodes_list](UInt pos) -> UInt { return nodes_list[pos]; });
return std::make_pair(nb_new_local_dofs, nb_new_pure_local);
}
/* -------------------------------------------------------------------------- */
void DOFManager::resizeGlobalArrays() {
// resize all relevant arrays
this->residual->resize();
this->solution->resize();
this->data_cache->resize();
for (auto & lumped_matrix : lumped_matrices)
lumped_matrix.second->resize();
for (auto & matrix : matrices) {
matrix.second->clearProfile();
}
}
/* -------------------------------------------------------------------------- */
void DOFManager::onNodesAdded(const Array<UInt> & nodes_list,
const NewNodesEvent &) {
for (auto & pair : this->dofs) {
const auto & dof_id = pair.first;
auto & dof_data = this->getDOFData(dof_id);
if (dof_data.support_type != _dst_nodal)
continue;
const auto & group = dof_data.group_support;
if (group == "__mesh__") {
this->updateNodalDOFs(dof_id, nodes_list);
} else {
const auto & node_group =
this->mesh->getElementGroup(group).getNodeGroup();
Array<UInt> new_nodes_list;
for (const auto & node : nodes_list) {
if (node_group.find(node) != UInt(-1))
new_nodes_list.push_back(node);
}
this->updateNodalDOFs(dof_id, new_nodes_list);
}
}
}
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
class GlobalDOFInfoDataAccessor : public DataAccessor<UInt> {
public:
using size_type =
typename std::unordered_map<UInt, std::vector<UInt>>::size_type;
GlobalDOFInfoDataAccessor(DOFManager::DOFData & dof_data,
DOFManager & dof_manager)
: dof_data(dof_data), dof_manager(dof_manager) {
for (auto && pair :
zip(dof_data.local_equation_number, dof_data.associated_nodes)) {
UInt node;
Int dof;
std::tie(dof, node) = pair;
dofs_per_node[node].push_back(dof);
}
}
UInt getNbData(const Array<UInt> & nodes,
const SynchronizationTag & tag) const override {
if (tag == SynchronizationTag::_ask_nodes or
tag == SynchronizationTag::_giu_global_conn) {
return nodes.size() * dof_data.dof->getNbComponent() * sizeof(Int);
}
return 0;
}
void packData(CommunicationBuffer & buffer, const Array<UInt> & nodes,
const SynchronizationTag & tag) const override {
if (tag == SynchronizationTag::_ask_nodes or
tag == SynchronizationTag::_giu_global_conn) {
for (auto & node : nodes) {
auto & dofs = dofs_per_node.at(node);
for (auto & dof : dofs) {
buffer << dof_manager.global_equation_number(dof);
}
}
}
}
void unpackData(CommunicationBuffer & buffer, const Array<UInt> & nodes,
const SynchronizationTag & tag) override {
if (tag == SynchronizationTag::_ask_nodes or
tag == SynchronizationTag::_giu_global_conn) {
for (auto & node : nodes) {
auto & dofs = dofs_per_node[node];
for (auto dof : dofs) {
Int global_dof;
buffer >> global_dof;
AKANTU_DEBUG_ASSERT(
(dof_manager.global_equation_number(dof) == -1 or
dof_manager.global_equation_number(dof) == global_dof),
"This dof already had a global_dof_id which is different from "
"the received one. "
<< dof_manager.global_equation_number(dof)
<< " != " << global_dof);
dof_manager.global_equation_number(dof) = global_dof;
dof_manager.global_to_local_mapping[global_dof] = dof;
}
}
}
}
protected:
std::unordered_map<UInt, std::vector<Int>> dofs_per_node;
DOFManager::DOFData & dof_data;
DOFManager & dof_manager;
};
/* -------------------------------------------------------------------------- */
auto DOFManager::computeFirstDOFIDs(UInt nb_new_local_dofs,
UInt nb_new_pure_local) {
// determine the first local/global dof id to use
UInt offset = 0;
this->communicator.exclusiveScan(nb_new_pure_local, offset);
auto first_global_dof_id = this->first_global_dof_id + offset;
auto first_local_dof_id = this->local_system_size - nb_new_local_dofs;
offset = nb_new_pure_local;
this->communicator.allReduce(offset);
this->first_global_dof_id += offset;
return std::make_pair(first_local_dof_id, first_global_dof_id);
}
/* -------------------------------------------------------------------------- */
void DOFManager::updateDOFsData(DOFData & dof_data, UInt nb_new_local_dofs,
UInt nb_new_pure_local, UInt nb_node,
const std::function<UInt(UInt)> & getNode) {
auto nb_local_dofs_added = nb_node * dof_data.dof->getNbComponent();
auto first_dof_pos = dof_data.local_equation_number.size();
dof_data.local_equation_number.reserve(dof_data.local_equation_number.size() +
nb_local_dofs_added);
dof_data.associated_nodes.reserve(dof_data.associated_nodes.size() +
nb_local_dofs_added);
std::unordered_map<std::pair<UInt, UInt>, UInt> masters_dofs;
// update per dof info
UInt local_eq_num, first_global_dof_id;
std::tie(local_eq_num, first_global_dof_id) =
computeFirstDOFIDs(nb_new_local_dofs, nb_new_pure_local);
for (auto d : arange(nb_local_dofs_added)) {
auto node = getNode(d / dof_data.dof->getNbComponent());
auto dof_flag = this->mesh->getNodeFlag(node);
dof_data.associated_nodes.push_back(node);
auto is_local_dof = this->mesh->isLocalOrMasterNode(node);
auto is_periodic_slave = this->mesh->isPeriodicSlave(node);
auto is_periodic_master = this->mesh->isPeriodicMaster(node);
if (is_periodic_slave) {
dof_data.local_equation_number.push_back(-1);
continue;
}
// update equation numbers
this->dofs_flag(local_eq_num) = dof_flag;
dof_data.local_equation_number.push_back(local_eq_num);
if (is_local_dof) {
this->global_equation_number(local_eq_num) = first_global_dof_id;
this->global_to_local_mapping[first_global_dof_id] = local_eq_num;
++first_global_dof_id;
} else {
this->global_equation_number(local_eq_num) = -1;
}
if (is_periodic_master) {
auto node = getNode(d / dof_data.dof->getNbComponent());
auto dof = d % dof_data.dof->getNbComponent();
masters_dofs.insert(
std::make_pair(std::make_pair(node, dof), local_eq_num));
}
++local_eq_num;
}
// correct periodic slave equation numbers
if (this->mesh->isPeriodic()) {
auto assoc_begin = dof_data.associated_nodes.begin();
for (auto d : arange(nb_local_dofs_added)) {
auto node = dof_data.associated_nodes(first_dof_pos + d);
if (not this->mesh->isPeriodicSlave(node))
continue;
auto master_node = this->mesh->getPeriodicMaster(node);
auto dof = d % dof_data.dof->getNbComponent();
dof_data.local_equation_number(first_dof_pos + d) =
masters_dofs[std::make_pair(master_node, dof)];
}
}
// synchronize the global numbering for slaves nodes
if (this->mesh->isDistributed()) {
GlobalDOFInfoDataAccessor data_accessor(dof_data, *this);
if (this->mesh->isPeriodic()) {
mesh->getPeriodicNodeSynchronizer().synchronizeOnce(
data_accessor, SynchronizationTag::_giu_global_conn);
}
auto & node_synchronizer = this->mesh->getNodeSynchronizer();
node_synchronizer.synchronizeOnce(data_accessor,
SynchronizationTag::_ask_nodes);
}
}
/* -------------------------------------------------------------------------- */
void DOFManager::updateDOFsData(DOFData & dof_data, UInt nb_new_local_dofs,
UInt nb_new_pure_local) {
dof_data.local_equation_number.reserve(dof_data.local_equation_number.size() +
nb_new_local_dofs);
UInt first_local_dof_id, first_global_dof_id;
std::tie(first_local_dof_id, first_global_dof_id) =
computeFirstDOFIDs(nb_new_local_dofs, nb_new_pure_local);
// update per dof info
for (auto _ [[gnu::unused]] : arange(nb_new_local_dofs)) {
// update equation numbers
this->dofs_flag(first_local_dof_id) = NodeFlag::_normal;
dof_data.local_equation_number.push_back(first_local_dof_id);
this->global_equation_number(first_local_dof_id) = first_global_dof_id;
this->global_to_local_mapping[first_global_dof_id] = first_local_dof_id;
++first_global_dof_id;
++first_local_dof_id;
}
}
/* -------------------------------------------------------------------------- */
void DOFManager::onNodesRemoved(const Array<UInt> &, const Array<UInt> &,
const RemovedNodesEvent &) {}
/* -------------------------------------------------------------------------- */
void DOFManager::onElementsAdded(const Array<Element> &,
const NewElementsEvent &) {}
/* -------------------------------------------------------------------------- */
void DOFManager::onElementsRemoved(const Array<Element> &,
const ElementTypeMapArray<UInt> &,
const RemovedElementsEvent &) {}
/* -------------------------------------------------------------------------- */
void DOFManager::onElementsChanged(const Array<Element> &,
const Array<Element> &,
const ElementTypeMapArray<UInt> &,
const ChangedElementsEvent &) {}
/* -------------------------------------------------------------------------- */
void DOFManager::updateGlobalBlockedDofs() {
this->previous_global_blocked_dofs.copy(this->global_blocked_dofs);
this->global_blocked_dofs.reserve(this->local_system_size, 0);
this->previous_global_blocked_dofs_release =
this->global_blocked_dofs_release;
for (auto & pair : dofs) {
if (!this->hasBlockedDOFs(pair.first))
continue;
DOFData & dof_data = *pair.second;
for (auto && data : zip(dof_data.getLocalEquationsNumbers(),
make_view(*dof_data.blocked_dofs))) {
const auto & dof = std::get<0>(data);
const auto & is_blocked = std::get<1>(data);
if (is_blocked) {
this->global_blocked_dofs.push_back(dof);
}
}
}
std::sort(this->global_blocked_dofs.begin(), this->global_blocked_dofs.end());
auto last = std::unique(this->global_blocked_dofs.begin(),
this->global_blocked_dofs.end());
this->global_blocked_dofs.resize(last - this->global_blocked_dofs.begin());
auto are_equal =
global_blocked_dofs.size() == previous_global_blocked_dofs.size() and
std::equal(global_blocked_dofs.begin(), global_blocked_dofs.end(),
previous_global_blocked_dofs.begin());
if (not are_equal)
++this->global_blocked_dofs_release;
}
/* -------------------------------------------------------------------------- */
void DOFManager::applyBoundary(const ID & matrix_id) {
auto & J = this->getMatrix(matrix_id);
if (this->jacobian_release == J.getRelease()) {
auto are_equal = this->global_blocked_dofs_release ==
this->previous_global_blocked_dofs_release;
// std::equal(global_blocked_dofs.begin(), global_blocked_dofs.end(),
// previous_global_blocked_dofs.begin());
if (not are_equal)
J.applyBoundary();
previous_global_blocked_dofs.copy(global_blocked_dofs);
} else {
J.applyBoundary();
}
this->jacobian_release = J.getRelease();
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleMatMulVectToGlobalArray(const ID & dof_id,
const ID & A_id,
const Array<Real> & x,
SolverVector & array,
Real scale_factor) {
auto & A = this->getMatrix(A_id);
data_cache->clear();
this->assembleToGlobalArray(dof_id, x, *data_cache, 1.);
A.matVecMul(*data_cache, array, scale_factor, 1.);
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleMatMulVectToResidual(const ID & dof_id,
const ID & A_id,
const Array<Real> & x,
Real scale_factor) {
assembleMatMulVectToGlobalArray(dof_id, A_id, x, *residual, scale_factor);
}
} // namespace akantu
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