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rAKA/src/model/phase_field/phase_field_model.cc
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phase_field_model.cc
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/**
* @file phase_field_model.cc
*
* @author Mohit Pundir <mohit.pundir@epfl.ch>
*
* @date creation: Wed Aug 01 2018
* @date last modification: Wed Aug 01 2018
*
* @brief Implementation of PhaseFieldModel class
*
* @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 "phase_field_model.hh"
#include "dumpable_inline_impl.hh"
#include "element_synchronizer.hh"
#include "fe_engine_template.hh"
#include "generalized_trapezoidal.hh"
#include "group_manager_inline_impl.hh"
#include "integrator_gauss.hh"
#include "mesh.hh"
#include "parser.hh"
#include "shape_lagrange.hh"
#ifdef AKANTU_USE_IOHELPER
#include "dumper_element_partition.hh"
#include "dumper_elemental_field.hh"
#include "dumper_internal_material_field.hh"
#include "dumper_iohelper_paraview.hh"
#endif
/* -------------------------------------------------------------------------- */
namespace akantu {
/* -------------------------------------------------------------------------- */
PhaseFieldModel::PhaseFieldModel(Mesh & mesh, UInt dim, const ID & id,
const ModelType model_type)
: Model(mesh, model_type, dim, id),
phasefield_index("phasefield index", id),
phasefield_local_numbering("phasefield local numbering", id) {
AKANTU_DEBUG_IN();
this->registerFEEngineObject<FEEngineType>("PhaseFieldFEEngine", mesh,
Model::spatial_dimension);
#ifdef AKANTU_USE_IOHELPER
this->mesh.registerDumper<DumperParaview>("phase_field", id, true);
this->mesh.addDumpMesh(mesh, Model::spatial_dimension, _not_ghost, _ek_regular);
#endif // AKANTU_USE_IOHELPER
phasefield_selector = std::make_shared<DefaultPhaseFieldSelector>(phasefield_index);
this->initDOFManager();
this->registerDataAccessor(*this);
if (this->mesh.isDistributed()) {
auto & synchronizer = this->mesh.getElementSynchronizer();
this->registerSynchronizer(synchronizer, SynchronizationTag::_pfm_damage);
this->registerSynchronizer(synchronizer, SynchronizationTag::_pfm_driving);
this->registerSynchronizer(synchronizer, SynchronizationTag::_pfm_history);
this->registerSynchronizer(synchronizer, SynchronizationTag::_pfm_energy);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
PhaseFieldModel::~PhaseFieldModel() = default;
/* -------------------------------------------------------------------------- */
MatrixType PhaseFieldModel::getMatrixType(const ID & matrix_id) {
if (matrix_id == "K" ) {
return _symmetric;
}
return _mt_not_defined;
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::initModel() {
auto & fem = this->getFEEngine();
fem.initShapeFunctions(_not_ghost);
fem.initShapeFunctions(_ghost);
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::initFullImpl(const ModelOptions & options) {
phasefield_index.initialize(mesh, _element_kind = _ek_not_defined,
_default_value = UInt(-1), _with_nb_element = true);
phasefield_local_numbering.initialize(mesh, _element_kind = _ek_not_defined,
_with_nb_element = true);
Model::initFullImpl(options);
// initialize the phasefields
if (this->parser.getLastParsedFile() != "") {
this->instantiatePhaseFields();
this->initPhaseFields();
}
this->initBC(*this, *damage, *external_force);
}
/* -------------------------------------------------------------------------- */
PhaseField &
PhaseFieldModel::registerNewPhaseField(const ParserSection & section) {
std::string phase_name;
std::string phase_type = section.getName();
std::string opt_param = section.getOption();
try {
std::string tmp = section.getParameter("name");
phase_name = tmp; /** this can seam weird, but there is an ambiguous operator
* overload that i couldn't solve. @todo remove the
* weirdness of this code
*/
} catch (debug::Exception &) {
AKANTU_ERROR("A phasefield of type \'"
<< phase_type
<< "\' in the input file has been defined without a name!");
}
PhaseField & phase = this->registerNewPhaseField(phase_name, phase_type, opt_param);
phase.parseSection(section);
return phase;
}
/* -------------------------------------------------------------------------- */
PhaseField & PhaseFieldModel::registerNewPhaseField(const ID & phase_name,
const ID & phase_type,
const ID & opt_param) {
AKANTU_DEBUG_ASSERT(phasefields_names_to_id.find(phase_name) ==
phasefields_names_to_id.end(),
"A phasefield with this name '"
<< phase_name << "' has already been registered. "
<< "Please use unique names for phasefields");
UInt phase_count = phasefields.size();
phasefields_names_to_id[phase_name] = phase_count;
std::stringstream sstr_phase;
sstr_phase << this->id << ":" << phase_count << ":" << phase_type;
ID mat_id = sstr_phase.str();
std::unique_ptr<PhaseField> phase = PhaseFieldFactory::getInstance().allocate(
phase_type, spatial_dimension, opt_param, *this, mat_id);
phasefields.push_back(std::move(phase));
return *(phasefields.back());
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::instantiatePhaseFields() {
ParserSection model_section;
bool is_empty;
std::tie(model_section, is_empty) = this->getParserSection();
if (not is_empty) {
auto model_phasefields = model_section.getSubSections(ParserType::_phasefield);
for (const auto & section : model_phasefields) {
this->registerNewPhaseField(section);
}
}
auto sub_sections = this->parser.getSubSections(ParserType::_phasefield);
for (const auto & section : sub_sections) {
this->registerNewPhaseField(section);
}
if (phasefields.empty())
AKANTU_EXCEPTION("No phasefields where instantiated for the model"
<< getID());
are_phasefields_instantiated = true;
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::initPhaseFields() {
AKANTU_DEBUG_ASSERT(phasefields.size() != 0, "No phasefield to initialize !");
if (!are_phasefields_instantiated)
instantiatePhaseFields();
this->assignPhaseFieldToElements();
for (auto & phasefield : phasefields) {
/// init internals properties
phasefield->initPhaseField();
}
this->synchronize(SynchronizationTag::_smm_init_mat);
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::assignPhaseFieldToElements(
const ElementTypeMapArray<UInt> * filter) {
for_each_element(
mesh,
[&](auto && element) {
UInt phase_index = (*phasefield_selector)(element);
AKANTU_DEBUG_ASSERT(
phase_index < phasefields.size(),
"The phasefield selector returned an index that does not exists");
phasefield_index(element) = phase_index;
},
_element_filter = filter, _ghost_type = _not_ghost);
for_each_element(mesh,
[&](auto && element) {
auto phase_index = phasefield_index(element);
auto index = phasefields[phase_index]->addElement(element);
phasefield_local_numbering(element) = index;
},
_element_filter = filter, _ghost_type = _not_ghost);
// synchronize the element phasefield arrays
this->synchronize(SynchronizationTag::_material_id);
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::assembleMatrix(const ID & matrix_id) {
if (matrix_id == "K") {
this->assembleStiffnessMatrix();
} else {
AKANTU_ERROR("Unknown Matrix ID for PhaseFieldModel : " << matrix_id);
}
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::predictor() {
// AKANTU_TO_IMPLEMENT();
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::corrector() {
// AKANTU_TO_IMPLEMENT();
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::initSolver(TimeStepSolverType time_step_solver_type,
NonLinearSolverType) {
DOFManager & dof_manager = this->getDOFManager();
this->allocNodalField(this->damage, 1, "damage");
this->allocNodalField(this->external_force, 1, "external_force");
this->allocNodalField(this->internal_force, 1, "internal_force");
this->allocNodalField(this->blocked_dofs, 1, "blocked_dofs");
this->allocNodalField(this->previous_damage, 1, "previous_damage");
if (!dof_manager.hasDOFs("damage")) {
dof_manager.registerDOFs("damage", *this->damage, _dst_nodal);
dof_manager.registerBlockedDOFs("damage", *this->blocked_dofs);
dof_manager.registerDOFsPrevious("damage", *this->previous_damage);
}
if (time_step_solver_type == TimeStepSolverType::_dynamic) {
AKANTU_TO_IMPLEMENT();
}
}
/* -------------------------------------------------------------------------- */
FEEngine & PhaseFieldModel::getFEEngineBoundary(const ID & name) {
return dynamic_cast<FEEngine &>(getFEEngineClassBoundary<FEEngineType>(name));
}
/* -------------------------------------------------------------------------- */
std::tuple<ID, TimeStepSolverType>
PhaseFieldModel::getDefaultSolverID(const AnalysisMethod & method) {
switch (method) {
case _explicit_lumped_mass: {
return std::make_tuple("explicit_lumped",
TimeStepSolverType::_dynamic_lumped);
}
case _explicit_consistent_mass: {
return std::make_tuple("explicit", TimeStepSolverType::_dynamic);
}
case _static: {
return std::make_tuple("static", TimeStepSolverType::_static);
}
case _implicit_dynamic: {
return std::make_tuple("implicit", TimeStepSolverType::_dynamic);
}
default:
return std::make_tuple("unknown", TimeStepSolverType::_not_defined);
}
}
/* -------------------------------------------------------------------------- */
ModelSolverOptions PhaseFieldModel::getDefaultSolverOptions(
const TimeStepSolverType & type) const {
ModelSolverOptions options;
switch (type) {
case TimeStepSolverType::_dynamic_lumped: {
options.non_linear_solver_type = NonLinearSolverType::_lumped;
options.integration_scheme_type["damage"] =
IntegrationSchemeType::_central_difference;
options.solution_type["damage"] = IntegrationScheme::_acceleration;
break;
}
case TimeStepSolverType::_static: {
options.non_linear_solver_type = NonLinearSolverType::_linear;
options.integration_scheme_type["damage"] =
IntegrationSchemeType::_pseudo_time;
options.solution_type["damage"] = IntegrationScheme::_not_defined;
break;
}
case TimeStepSolverType::_dynamic: {
options.non_linear_solver_type = NonLinearSolverType::_newton_raphson;
options.integration_scheme_type["damage"] =
IntegrationSchemeType::_backward_euler;
options.solution_type["damage"] = IntegrationScheme::_damage;
break;
}
default:
AKANTU_EXCEPTION(type << " is not a valid time step solver type");
}
return options;
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::beforeSolveStep() {
for (auto & phasefield : phasefields) {
phasefield->beforeSolveStep();
}
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::afterSolveStep(bool converged) {
if (not converged)
return ;
for (auto && values : zip(*damage, *previous_damage)) {
auto & dam = std::get<0>(values);
auto & prev_dam = std::get<1>(values);
dam -= prev_dam;
prev_dam = dam;
}
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::assembleStiffnessMatrix() {
AKANTU_DEBUG_IN();
AKANTU_DEBUG_INFO("Assemble the new stiffness matrix");
if (!this->getDOFManager().hasMatrix("K")) {
this->getDOFManager().getNewMatrix("K", getMatrixType("K"));
}
this->getDOFManager().zeroMatrix("K");
for (auto & phasefield : phasefields) {
phasefield->assembleStiffnessMatrix(_not_ghost);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::assembleResidual() {
AKANTU_DEBUG_IN();
this->assembleInternalForces();
this->getDOFManager().assembleToResidual("damage", *this->external_force, 1);
this->getDOFManager().assembleToResidual("damage", *this->internal_force, 1);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::assembleInternalForces() {
AKANTU_DEBUG_IN();
AKANTU_DEBUG_INFO("Assemble the internal forces");
this->internal_force->zero();
// communicate the driving forces
AKANTU_DEBUG_INFO("Send data for residual assembly");
this->asynchronousSynchronize(SynchronizationTag::_pfm_driving);
// assemble the forces due to local driving forces
AKANTU_DEBUG_INFO("Assemble residual for local elements");
for (auto & phasefield : phasefields) {
phasefield->assembleInternalForces(_not_ghost);
}
// finalize communications
AKANTU_DEBUG_INFO("Wait distant driving forces");
this->waitEndSynchronize(SynchronizationTag::_pfm_driving);
// assemble the residual due to ghost elements
AKANTU_DEBUG_INFO("Assemble residual for ghost elements");
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::assembleLumpedMatrix(const ID & /*matrix_id*/) {}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::setTimeStep(Real time_step, const ID & solver_id) {
Model::setTimeStep(time_step, solver_id);
#if defined(AKANTU_USE_IOHELPER)
this->mesh.getDumper("phase_field").setTimeStep(time_step);
#endif
}
/* -------------------------------------------------------------------------- */
UInt PhaseFieldModel::getNbData(const Array<Element> & elements,
const SynchronizationTag & tag) const {
AKANTU_DEBUG_IN();
UInt size = 0;
UInt nb_nodes_per_element = 0;
for (const Element & el : elements) {
nb_nodes_per_element += Mesh::getNbNodesPerElement(el.type);
}
switch (tag) {
case SynchronizationTag::_pfm_damage: {
size += nb_nodes_per_element * sizeof(Real); // damage
break;
}
case SynchronizationTag::_pfm_driving: {
size += getNbIntegrationPoints(elements) * sizeof(Real);
break;
}
case SynchronizationTag::_pfm_history: {
size += getNbIntegrationPoints(elements) * sizeof(Real);
break;
}
case SynchronizationTag::_pfm_energy: {
size += getNbIntegrationPoints(elements) * sizeof(Real);
break;
}
default: { AKANTU_ERROR("Unknown ghost synchronization tag : " << tag); }
}
AKANTU_DEBUG_OUT();
return size;
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::packData(__attribute__((unused)) CommunicationBuffer & buffer,
__attribute__((unused)) const Array<Element> & elements,
__attribute__((unused)) const SynchronizationTag & tag) const {
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::unpackData(__attribute__((unused)) CommunicationBuffer & buffer,
__attribute__((unused)) const Array<Element> & elements,
__attribute__((unused)) const SynchronizationTag & tag) {
}
/* -------------------------------------------------------------------------- */
UInt PhaseFieldModel::getNbData(const Array<UInt> & indexes,
const SynchronizationTag & tag) const {
AKANTU_DEBUG_IN();
UInt size = 0;
UInt nb_nodes = indexes.size();
switch (tag) {
case SynchronizationTag::_pfm_damage: {
size += nb_nodes * sizeof(Real);
break;
}
default: { AKANTU_ERROR("Unknown ghost synchronization tag : " << tag); }
}
AKANTU_DEBUG_OUT();
return size;
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::packData(CommunicationBuffer & buffer,
const Array<UInt> & indexes,
const SynchronizationTag & tag) const {
AKANTU_DEBUG_IN();
for (auto index : indexes) {
switch (tag) {
case SynchronizationTag::_pfm_damage: {
buffer << (*damage)(index);
break;
}
default: { AKANTU_ERROR("Unknown ghost synchronization tag : " << tag); }
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::unpackData(CommunicationBuffer & buffer,
const Array<UInt> & indexes,
const SynchronizationTag & tag) {
AKANTU_DEBUG_IN();
for (auto index : indexes) {
switch (tag) {
case SynchronizationTag::_pfm_damage: {
buffer >> (*damage)(index);
break;
}
default: { AKANTU_ERROR("Unknown ghost synchronization tag : " << tag); }
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
#ifdef AKANTU_USE_IOHELPER
std::shared_ptr<dumpers::Field>
PhaseFieldModel::createNodalFieldBool(const std::string & field_name,
const std::string & group_name,
bool) {
std::map<std::string, Array<bool> *> uint_nodal_fields;
uint_nodal_fields["blocked_dofs"] = blocked_dofs.get();
return mesh.createNodalField(uint_nodal_fields[field_name], group_name);
std::shared_ptr<dumpers::Field> field;
return field;
}
/* -------------------------------------------------------------------------- */
std::shared_ptr<dumpers::Field>
PhaseFieldModel::createNodalFieldReal(const std::string & field_name,
const std::string & group_name,
bool) {
std::map<std::string, Array<Real> *> real_nodal_fields;
real_nodal_fields["damage"] = damage.get();
real_nodal_fields["external_force"] = external_force.get();
real_nodal_fields["internal_force"] = internal_force.get();
return mesh.createNodalField(real_nodal_fields[field_name], group_name);
std::shared_ptr<dumpers::Field> field;
return field;
}
/* -------------------------------------------------------------------------- */
std::shared_ptr<dumpers::Field>
PhaseFieldModel::createElementalField(const std::string & field_name,
const std::string & group_name,
bool, UInt,
ElementKind element_kind) {
if (field_name == "partitions") {
return mesh.createElementalField<UInt, dumpers::ElementPartitionField>(
mesh.getConnectivities(), group_name, this->spatial_dimension,
element_kind);
}
std::shared_ptr<dumpers::Field> field;
return field;
}
/* -------------------------------------------------------------------------- */
#else
/* -------------------------------------------------------------------------- */
std::shared_ptr<dumpers::Field>
PhaseFieldModel::createElementalField(const std::string &,
const std::string &, bool,
const UInt &, ElementKind) {
return nullptr;
}
/* -------------------------------------------------------------------------- */
std::shared_ptr<dumpers::Field>
PhaseFieldModel::createNodalFieldReal(const std::string &,
const std::string &, bool) {
return nullptr;
}
/* -------------------------------------------------------------------------- */
std::shared_ptr<dumpers::Field>
PhaseFieldModel::createNodalFieldBool(const std::string &,
const std::string &, bool) {
return nullptr;
}
#endif
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::dump(const std::string & dumper_name) {
mesh.dump(dumper_name);
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::dump(const std::string & dumper_name, UInt step) {
mesh.dump(dumper_name, step);
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::dump(const std::string & dumper_name, Real time,
UInt step) {
mesh.dump(dumper_name, time, step);
}
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::dump() { mesh.dump(); }
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::dump(UInt step) { mesh.dump(step); }
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::dump(Real time, UInt step) { mesh.dump(time, step); }
/* -------------------------------------------------------------------------- */
void PhaseFieldModel::printself(std::ostream & stream, int indent) const {
std::string space;
for (Int i = 0; i < indent; i++, space += AKANTU_INDENT)
;
stream << space << "Phase Field Model [" << std::endl;
stream << space << " + id : " << id << std::endl;
stream << space << " + spatial dimension : " << Model::spatial_dimension
<< std::endl;
stream << space << " + fem [" << std::endl;
getFEEngine().printself(stream, indent + 2);
stream << space << AKANTU_INDENT << "]" << std::endl;
stream << space << " + nodals information [" << std::endl;
damage->printself(stream, indent + 2);
external_force->printself(stream, indent + 2);
internal_force->printself(stream, indent + 2);
blocked_dofs->printself(stream, indent + 2);
stream << space << AKANTU_INDENT << "]" << std::endl;
stream << space << " + phasefield information [" << std::endl;
stream << space << AKANTU_INDENT << "]" << std::endl;
stream << space << "]" << std::endl;
}
} // namespace akantu
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