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ThermalPhysics.templates.hh
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ThermalPhysics.templates.hh
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/* Copyright (c) 2016 - 2024, the adamantine authors.
*
* This file is subject to the Modified BSD License and may not be distributed
* without copyright and license information. Please refer to the file LICENSE
* for the text and further information on this license.
*/
#ifndef THERMAL_PHYSICS_TEMPLATES_HH
#define THERMAL_PHYSICS_TEMPLATES_HH
#include <CubeHeatSource.hh>
#include <ElectronBeamHeatSource.hh>
#include <GoldakHeatSource.hh>
#include <ThermalOperator.hh>
#include <ThermalOperatorDevice.hh>
#include <ThermalPhysics.hh>
#include <Timer.hh>
#include <deal.II/base/geometry_info.h>
#include <deal.II/base/index_set.h>
#include <deal.II/base/quadrature_lib.h>
#include <deal.II/distributed/cell_data_transfer.templates.h>
#include <deal.II/distributed/solution_transfer.h>
#include <deal.II/dofs/dof_tools.h>
#include <deal.II/fe/fe_nothing.h>
#include <deal.II/fe/fe_q.h>
#include <deal.II/grid/filtered_iterator.h>
#include <deal.II/hp/fe_values.h>
#include <deal.II/hp/q_collection.h>
#include <deal.II/lac/precondition.h>
#include <deal.II/lac/read_write_vector.h>
#include <deal.II/lac/solver_gmres.h>
#include <deal.II/lac/vector_operation.h>
#ifdef ADAMANTINE_WITH_CALIPER
#include <caliper/cali.h>
#endif
#include <algorithm>
#include <memory>
namespace adamantine
{
namespace
{
template <int dim, int fe_degree, typename MemorySpaceType,
std::enable_if_t<
std::is_same<MemorySpaceType, dealii::MemorySpace::Host>::value,
int> = 0>
dealii::LA::distributed::Vector<double, MemorySpaceType>
evaluate_thermal_physics_impl(
std::shared_ptr<ThermalOperatorBase<dim, MemorySpaceType>> thermal_operator,
double const t, double const current_source_height,
dealii::LA::distributed::Vector<double, MemorySpaceType> const &y,
std::vector<Timer> &timers)
{
timers[evol_time_eval_th_ph].start();
thermal_operator->set_time_and_source_height(t, current_source_height);
dealii::LA::distributed::Vector<double, dealii::MemorySpace::Host> value(
y.get_partitioner());
value = 0.;
// Apply the Thermal Operator.
thermal_operator->vmult_add(value, y);
// Multiply by the inverse of the mass matrix.
value.scale(*thermal_operator->get_inverse_mass_matrix());
timers[evol_time_eval_th_ph].stop();
return value;
}
template <int dim, int fe_degree, typename MemorySpaceType,
std::enable_if_t<
std::is_same<MemorySpaceType, dealii::MemorySpace::Host>::value,
int> = 0>
void init_dof_vector(
double const value,
dealii::LinearAlgebra::distributed::Vector<double, MemorySpaceType> &vector)
{
unsigned int const local_size = vector.locally_owned_size();
for (unsigned int i = 0; i < local_size; ++i)
vector.local_element(i) = value;
}
template <int dim, int fe_degree, typename MemorySpaceType,
std::enable_if_t<std::is_same<MemorySpaceType,
dealii::MemorySpace::Default>::value,
int> = 0>
dealii::LA::distributed::Vector<double, MemorySpaceType>
evaluate_thermal_physics_impl(
std::shared_ptr<ThermalOperatorBase<dim, MemorySpaceType>> const
&thermal_operator,
dealii::hp::FECollection<dim> const &fe_collection, double const t,
dealii::DoFHandler<dim> const &dof_handler,
std::vector<std::shared_ptr<HeatSource<dim>>> const &heat_sources,
double current_source_height, BoundaryType boundary_type,
MaterialProperty<dim, MemorySpaceType> &material_properties,
dealii::AffineConstraints<double> const &affine_constraints,
dealii::LA::distributed::Vector<double, MemorySpaceType> const &y,
std::vector<Timer> &timers)
{
auto thermal_operator_dev = std::dynamic_pointer_cast<
ThermalOperatorDevice<dim, fe_degree, MemorySpaceType>>(thermal_operator);
timers[evol_time_update_bound_mat_prop].start();
thermal_operator_dev->update_boundary_material_properties(y);
timers[evol_time_update_bound_mat_prop].stop();
timers[evol_time_eval_th_ph].start();
dealii::LA::distributed::Vector<double, MemorySpaceType> value_dev(
y.get_partitioner());
// Apply the Thermal Operator.
thermal_operator_dev->vmult(value_dev, y);
// Compute the source term.
// TODO do this on the GPU
for (auto &beam : heat_sources)
beam->update_time(t);
dealii::LA::distributed::Vector<double, dealii::MemorySpace::Host> source(
y.get_partitioner());
source = 0.;
// Compute inv_rho_cp at the cell level on the host. We would not need to do
// this if everything was done on the GPU.
thermal_operator_dev->update_inv_rho_cp_cell();
dealii::hp::QCollection<dim> source_q_collection;
source_q_collection.push_back(dealii::QGauss<dim>(fe_degree + 1));
source_q_collection.push_back(dealii::QGauss<dim>(1));
dealii::hp::FEValues<dim> hp_fe_values(fe_collection, source_q_collection,
dealii::update_quadrature_points |
dealii::update_values |
dealii::update_JxW_values);
unsigned int const dofs_per_cell = fe_collection.max_dofs_per_cell();
unsigned int const n_q_points = source_q_collection.max_n_quadrature_points();
std::vector<dealii::types::global_dof_index> local_dof_indices(dofs_per_cell);
dealii::QGauss<dim - 1> face_quadrature(fe_degree + 1);
dealii::FEFaceValues<dim> fe_face_values(
fe_collection[0], face_quadrature,
dealii::update_values | dealii::update_quadrature_points |
dealii::update_JxW_values);
unsigned int const n_face_q_points = face_quadrature.size();
dealii::Vector<double> cell_source(dofs_per_cell);
// Loop over the locally owned cells with an active FE index of zero
for (auto const &cell : dealii::filter_iterators(
dof_handler.active_cell_iterators(),
dealii::IteratorFilters::LocallyOwnedCell(),
dealii::IteratorFilters::ActiveFEIndexEqualTo(0)))
{
cell_source = 0.;
hp_fe_values.reinit(cell);
dealii::FEValues<dim> const &fe_values =
hp_fe_values.get_present_fe_values();
for (unsigned int i = 0; i < dofs_per_cell; ++i)
{
for (unsigned int q = 0; q < n_q_points; ++q)
{
double const inv_rho_cp = thermal_operator_dev->get_inv_rho_cp(cell, q);
double quad_pt_source = 0.;
dealii::Point<dim> const &q_point = fe_values.quadrature_point(q);
for (auto &beam : heat_sources)
quad_pt_source += beam->value(q_point, current_source_height);
cell_source[i] += inv_rho_cp * quad_pt_source *
fe_values.shape_value(i, q) * fe_values.JxW(q);
}
}
// If we don't have a adiabatic boundary conditions, we need to add boundary
// conditions
if (!(boundary_type & BoundaryType::adiabatic))
{
for (unsigned int f = 0; f < dealii::GeometryInfo<dim>::faces_per_cell;
++f)
{
// We need to add the boundary conditions on the faces on the boundary
// but also on the faces at the interface with FE_Nothing
auto const &face = cell->face(f);
if ((face->at_boundary()) &&
((!face->at_boundary()) &&
(cell->neighbor(f)->active_fe_index() != 0)))
{
double conv_temperature_infty = 0.;
double conv_heat_transfer_coef = 0.;
double rad_temperature_infty = 0.;
double rad_heat_transfer_coef = 0.;
if (boundary_type & BoundaryType::convective)
{
conv_temperature_infty = material_properties.get_cell_value(
cell, Property::convection_temperature_infty);
conv_heat_transfer_coef = material_properties.get_cell_value(
cell, StateProperty::convection_heat_transfer_coef);
}
if (boundary_type & BoundaryType::radiative)
{
rad_temperature_infty = material_properties.get_cell_value(
cell, Property::radiation_temperature_infty);
rad_heat_transfer_coef = material_properties.get_cell_value(
cell, StateProperty::radiation_heat_transfer_coef);
}
fe_face_values.reinit(cell, face);
for (unsigned int i = 0; i < dofs_per_cell; ++i)
{
for (unsigned int q = 0; q < n_face_q_points; ++q)
{
double const inv_rho_cp =
thermal_operator_dev->get_inv_rho_cp(cell, q);
cell_source[i] +=
inv_rho_cp *
(conv_heat_transfer_coef * conv_temperature_infty +
rad_heat_transfer_coef * rad_temperature_infty) *
fe_face_values.shape_value(i, q) * fe_face_values.JxW(q);
}
}
}
}
}
cell->get_dof_indices(local_dof_indices);
affine_constraints.distribute_local_to_global(cell_source,
local_dof_indices, source);
}
source.compress(dealii::VectorOperation::add);
// Add source
dealii::LA::distributed::Vector<double, dealii::MemorySpace::Default>
source_dev(source.get_partitioner());
source_dev.import(source, dealii::VectorOperation::insert);
value_dev += source_dev;
// Multiply by the inverse of the mass matrix.
value_dev.scale(*thermal_operator_dev->get_inverse_mass_matrix());
timers[evol_time_eval_th_ph].stop();
return value_dev;
}
template <int dim, int fe_degree, typename MemorySpaceType,
std::enable_if_t<std::is_same<MemorySpaceType,
dealii::MemorySpace::Default>::value,
int> = 0>
void init_dof_vector(
double const value,
dealii::LinearAlgebra::distributed::Vector<double, MemorySpaceType> &vector)
{
dealii::LA::distributed::Vector<double, dealii::MemorySpace::Host>
vector_host(vector.get_partitioner());
unsigned int const local_size = vector_host.locally_owned_size();
for (unsigned int i = 0; i < local_size; ++i)
vector_host.local_element(i) = value;
vector.import(vector_host, dealii::VectorOperation::insert);
}
} // namespace
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
ThermalPhysics<dim, fe_degree, MemorySpaceType, QuadratureType>::ThermalPhysics(
MPI_Comm const &communicator, boost::property_tree::ptree const &database,
Geometry<dim> &geometry,
MaterialProperty<dim, MemorySpaceType> &material_properties)
: _boundary_type(BoundaryType::invalid), _geometry(geometry),
_dof_handler(_geometry.get_triangulation()),
_cell_weights(
_dof_handler,
dealii::parallel::CellWeights<dim>::ndofs_weighting({1, 1})),
_material_properties(material_properties)
{
// Create the FECollection
_fe_collection.push_back(dealii::FE_Q<dim>(fe_degree));
_fe_collection.push_back(dealii::FE_Nothing<dim>());
// Create the QCollection
_q_collection.push_back(QuadratureType(fe_degree + 1));
_q_collection.push_back(QuadratureType(fe_degree + 1));
// Create the heat sources
boost::property_tree::ptree const &source_database =
database.get_child("sources");
// PropertyTreeInput sources.n_beams
unsigned int const n_beams = source_database.get<unsigned int>("n_beams");
_heat_sources.resize(n_beams);
for (unsigned int i = 0; i < n_beams; ++i)
{
// PropertyTreeInput sources.beam_X.type
boost::property_tree::ptree const &beam_database =
source_database.get_child("beam_" + std::to_string(i));
std::string type = beam_database.get<std::string>("type");
if (type == "goldak")
{
_heat_sources[i] = std::make_shared<GoldakHeatSource<dim>>(beam_database);
}
else if (type == "electron_beam")
{
_heat_sources[i] =
std::make_shared<ElectronBeamHeatSource<dim>>(beam_database);
}
else if (type == "cube")
{
_heat_sources[i] = std::make_shared<CubeHeatSource<dim>>(beam_database);
}
else
{
ASSERT_THROW(false, "Error: Beam type '" +
beam_database.get<std::string>("type") +
"' not recognized.");
}
}
// Create the boundary condition type
// PropertyTreeInput boundary.type
std::string boundary_type_str = database.get<std::string>("boundary.type");
// Parse the string
size_t pos_str = 0;
std::string boundary;
std::string delimiter = ",";
auto parse_boundary_type = [&](std::string const &boundary)
{
if (boundary == "adiabatic")
{
_boundary_type = BoundaryType::adiabatic;
}
else
{
if (boundary == "radiative")
{
_boundary_type |= BoundaryType::radiative;
}
else if (boundary == "convective")
{
_boundary_type |= BoundaryType::convective;
}
else
{
ASSERT_THROW(false, "Unknown boundary type.");
}
}
};
while ((pos_str = boundary_type_str.find(delimiter)) != std::string::npos)
{
boundary = boundary_type_str.substr(0, pos_str);
parse_boundary_type(boundary);
boundary_type_str.erase(0, pos_str + delimiter.length());
}
parse_boundary_type(boundary_type_str);
// Create the thermal operator
if (std::is_same<MemorySpaceType, dealii::MemorySpace::Host>::value)
_thermal_operator =
std::make_shared<ThermalOperator<dim, fe_degree, MemorySpaceType>>(
communicator, _boundary_type, _material_properties, _heat_sources);
else
_thermal_operator = std::make_shared<
ThermalOperatorDevice<dim, fe_degree, MemorySpaceType>>(
communicator, _boundary_type, _material_properties);
// Create the time stepping scheme
boost::property_tree::ptree const &time_stepping_database =
database.get_child("time_stepping");
// PropertyTreeInput time_stepping.method
std::string method = time_stepping_database.get<std::string>("method");
std::transform(method.begin(), method.end(), method.begin(),
[](unsigned char c) { return std::tolower(c); });
if (method.compare("forward_euler") == 0)
_time_stepping =
std::make_unique<dealii::TimeStepping::ExplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::FORWARD_EULER);
else if (method.compare("rk_third_order") == 0)
_time_stepping =
std::make_unique<dealii::TimeStepping::ExplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::RK_THIRD_ORDER);
else if (method.compare("rk_fourth_order") == 0)
_time_stepping =
std::make_unique<dealii::TimeStepping::ExplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::RK_CLASSIC_FOURTH_ORDER);
else if (method.compare("heun_euler") == 0)
{
_time_stepping = std::make_unique<
dealii::TimeStepping::EmbeddedExplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::HEUN_EULER);
_embedded_method = true;
}
else if (method.compare("bogacki_shampine") == 0)
{
_time_stepping = std::make_unique<
dealii::TimeStepping::EmbeddedExplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::BOGACKI_SHAMPINE);
_embedded_method = true;
}
else if (method.compare("dopri") == 0)
{
_time_stepping = std::make_unique<
dealii::TimeStepping::EmbeddedExplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::DOPRI);
_embedded_method = true;
}
else if (method.compare("fehlberg") == 0)
{
_time_stepping = std::make_unique<
dealii::TimeStepping::EmbeddedExplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::FEHLBERG);
_embedded_method = true;
}
else if (method.compare("cash_karp") == 0)
{
_time_stepping = std::make_unique<
dealii::TimeStepping::EmbeddedExplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::CASH_KARP);
_embedded_method = true;
}
else if (method.compare("backward_euler") == 0)
{
_time_stepping =
std::make_unique<dealii::TimeStepping::ImplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::BACKWARD_EULER);
_implicit_method = true;
}
else if (method.compare("implicit_midpoint") == 0)
{
_time_stepping =
std::make_unique<dealii::TimeStepping::ImplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::IMPLICIT_MIDPOINT);
_implicit_method = true;
}
else if (method.compare("crank_nicolson") == 0)
{
_time_stepping =
std::make_unique<dealii::TimeStepping::ImplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::CRANK_NICOLSON);
_implicit_method = true;
}
else if (method.compare("sdirk2") == 0)
{
_time_stepping =
std::make_unique<dealii::TimeStepping::ImplicitRungeKutta<LA_Vector>>(
dealii::TimeStepping::SDIRK_TWO_STAGES);
_implicit_method = true;
}
if (_embedded_method == true)
{
// PropertyTreeInput time_steppping.coarsening_parameter
double coarsen_param =
time_stepping_database.get("coarsening_parameter", 1.2);
// PropertyTreeInput time_steppping.refining_parameter
double refine_param = time_stepping_database.get("refining_parameter", 0.8);
// PropertyTreeInput time_stepping.min_time_step
double min_delta = time_stepping_database.get("min_time_step", 1e-14);
// PropertyTreeInput time_stepping.max_time_step
double max_delta = time_stepping_database.get("max_time_step", 1e100);
// PropertyTreeInput time_stepping.refining_tolerance
double refine_tol = time_stepping_database.get("refining_tolerance", 1e-8);
// PropertyTreeInput time_stepping.coarsening_tolerance
double coarsen_tol =
time_stepping_database.get("coarsening_tolerance", 1e-12);
dealii::TimeStepping::EmbeddedExplicitRungeKutta<LA_Vector> *embedded_rk =
static_cast<
dealii::TimeStepping::EmbeddedExplicitRungeKutta<LA_Vector> *>(
_time_stepping.get());
embedded_rk->set_time_adaptation_parameters(coarsen_param, refine_param,
min_delta, max_delta,
refine_tol, coarsen_tol);
}
// If the time stepping scheme is implicit, set the parameters for the solver
// and create the implicit operator.
if (_implicit_method == true)
{
// PropertyTreeInput time_stepping.max_iteration
_max_iter = time_stepping_database.get("max_iteration", 1000);
// PropertyTreeInput time_stepping.tolerance
_tolerance = time_stepping_database.get("tolerance", 1e-12);
// PropertyTreeInput time_stepping.right_preconditioning
_right_preconditioning =
time_stepping_database.get("right_preconditioning", false);
// PropertyTreeInput time_stepping.n_tmp_vectors
_max_n_tmp_vectors = time_stepping_database.get("n_tmp_vectors", 30);
// PropertyTreeInput time_stepping.newton_max_iteration
unsigned int newton_max_iter =
time_stepping_database.get("newton_max_iteration", 100);
// PropertyTreeInput time_stepping.newton_tolerance
double newton_tolerance =
time_stepping_database.get("newton_tolerance", 1e-6);
dealii::TimeStepping::ImplicitRungeKutta<LA_Vector> *implicit_rk =
static_cast<dealii::TimeStepping::ImplicitRungeKutta<LA_Vector> *>(
_time_stepping.get());
implicit_rk->set_newton_solver_parameters(newton_max_iter,
newton_tolerance);
// PropertyTreeInput time_stepping.jfnk
bool jfnk = time_stepping_database.get("jfnk", false);
_implicit_operator = std::make_unique<ImplicitOperator<MemorySpaceType>>(
_thermal_operator, jfnk);
}
// Set material on part of the domain
// PropertyTreeInput geometry.material_height
double const material_height = database.get("geometry.material_height", 1e9);
for (auto const &cell :
dealii::filter_iterators(_dof_handler.active_cell_iterators(),
dealii::IteratorFilters::LocallyOwnedCell()))
{
// If the center of the cell is below material_height, it contains material
// otherwise it does not.
if (cell->center()[axis<dim>::z] < material_height)
{
cell->set_active_fe_index(0);
// Set material deposition cos and sin. We arbitrarily choose cos = 1 and
// sin = 0
_deposition_cos.push_back(1.);
_deposition_sin.push_back(0.);
// Set the initial material as non-melted
_has_melted.push_back(false);
}
else
cell->set_active_fe_index(1);
}
// Set the initial height of the heat source. Right now this is just the
// maximum heat source height, which can lead to unexpected behavior for
// different sources with different heights.
double temp_height = std::numeric_limits<double>::lowest();
for (auto const &source : _heat_sources)
{
temp_height = std::max(temp_height, source->get_current_height(0.0));
}
_current_source_height = temp_height;
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
void ThermalPhysics<dim, fe_degree, MemorySpaceType, QuadratureType>::setup()
{
setup_dofs();
update_material_deposition_orientation();
compute_inverse_mass_matrix();
get_state_from_material_properties();
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
void ThermalPhysics<dim, fe_degree, MemorySpaceType,
QuadratureType>::setup_dofs()
{
_dof_handler.distribute_dofs(_fe_collection);
dealii::IndexSet locally_relevant_dofs;
dealii::DoFTools::extract_locally_relevant_dofs(_dof_handler,
locally_relevant_dofs);
_affine_constraints.clear();
_affine_constraints.reinit(locally_relevant_dofs);
dealii::DoFTools::make_hanging_node_constraints(_dof_handler,
_affine_constraints);
_affine_constraints.close();
_thermal_operator->reinit(_dof_handler, _affine_constraints, _q_collection);
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
void ThermalPhysics<dim, fe_degree, MemorySpaceType,
QuadratureType>::compute_inverse_mass_matrix()
{
_thermal_operator->compute_inverse_mass_matrix(_dof_handler,
_affine_constraints);
if (_implicit_method == true)
_implicit_operator->set_inverse_mass_matrix(
_thermal_operator->get_inverse_mass_matrix());
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
void ThermalPhysics<dim, fe_degree, MemorySpaceType, QuadratureType>::
mark_has_melted(
double const threshold_temperature,
dealii::LA::distributed::Vector<double, MemorySpaceType> &temperature)
{
temperature.update_ghost_values();
auto dofs_per_cell = _dof_handler.get_fe().dofs_per_cell;
dealii::hp::FEValues<dim> hp_fe_values(
_dof_handler.get_fe_collection(), _q_collection,
dealii::UpdateFlags::update_values |
dealii::UpdateFlags::update_JxW_values);
unsigned int const n_q_points = _q_collection.max_n_quadrature_points();
unsigned int cell_id = 0;
for (auto const &cell : dealii::filter_iterators(
_dof_handler.active_cell_iterators(),
dealii::IteratorFilters::LocallyOwnedCell(),
dealii::IteratorFilters::ActiveFEIndexEqualTo(0)))
{
if (!_has_melted[cell_id])
{
hp_fe_values.reinit(cell);
dealii::FEValues<dim> const &fe_values =
hp_fe_values.get_present_fe_values();
std::vector<dealii::types::global_dof_index> local_dof_indices(
fe_values.dofs_per_cell);
cell->get_dof_indices(local_dof_indices);
double cell_temperature = 0.0;
double cell_volume = 0.0;
for (unsigned int i = 0; i < dofs_per_cell; ++i)
{
for (unsigned int q = 0; q < n_q_points; ++q)
{
cell_temperature += fe_values.shape_value(i, q) *
temperature(local_dof_indices[i]) *
fe_values.JxW(q);
cell_volume += fe_values.shape_value(i, q) * fe_values.JxW(q);
}
}
cell_temperature /= cell_volume;
// Set the indicator that this cell has melted
if (cell_temperature > threshold_temperature)
{
_has_melted[cell_id] = true;
}
}
++cell_id;
}
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
void ThermalPhysics<dim, fe_degree, MemorySpaceType, QuadratureType>::
add_material(
std::vector<std::vector<
typename dealii::DoFHandler<dim>::active_cell_iterator>> const
&elements_to_activate,
std::vector<double> const &new_deposition_cos,
std::vector<double> const &new_deposition_sin,
std::vector<bool> &new_has_melted, unsigned int const activation_start,
unsigned int const activation_end,
double const new_material_temperature,
dealii::LA::distributed::Vector<double, MemorySpaceType> &solution)
{
#ifdef ADAMANTINE_WITH_CALIPER
CALI_CXX_MARK_FUNCTION;
#endif
// Update the material state from the ThermalOperator to MaterialProperty
// because, for now, we need to use state from MaterialProperty to perform the
// transfer to the refined mesh.
set_state_to_material_properties();
_thermal_operator->clear();
// The data on each cell is stored in the following order: solution, direction
// of deposition (cosine and sine), prior melting indictor, and state ratio.
std::vector<std::vector<double>> data_to_transfer;
unsigned int const n_dofs_per_cell = _dof_handler.get_fe().n_dofs_per_cell();
unsigned int const direction_data_size = 2;
unsigned int const phase_history_data_size = 1;
unsigned int const data_size_per_cell =
n_dofs_per_cell + direction_data_size + phase_history_data_size +
g_n_material_states;
dealii::Vector<double> cell_solution(n_dofs_per_cell);
std::vector<double> dummy_cell_data(data_size_per_cell,
std::numeric_limits<double>::infinity());
solution.update_ghost_values();
// We need to move the solution on the host because we cannot use
// CellDataTransfer on the device.
dealii::IndexSet rw_index_set = solution.locally_owned_elements();
rw_index_set.add_indices(solution.get_partitioner()->ghost_indices());
dealii::LA::ReadWriteVector<double> rw_solution(rw_index_set);
rw_solution.import(solution, dealii::VectorOperation::insert);
auto state_host = Kokkos::create_mirror_view_and_copy(
Kokkos::HostSpace{}, _material_properties.get_state());
unsigned int locally_owned_cell_id = 0;
unsigned int activated_cell_id = 0;
unsigned int cell_id = 0;
std::map<typename dealii::DoFHandler<dim>::active_cell_iterator, int>
cell_to_id;
for (auto const &cell : _dof_handler.active_cell_iterators())
{
if (cell->is_locally_owned())
{
if (cell->active_fe_index() == 0)
{
std::vector<double> cell_data(direction_data_size +
phase_history_data_size +
g_n_material_states);
cell->get_dof_values(rw_solution, cell_solution);
cell_data.insert(cell_data.begin(), cell_solution.begin(),
cell_solution.end());
cell_data[n_dofs_per_cell] = _deposition_cos[activated_cell_id];
cell_data[n_dofs_per_cell + 1] = _deposition_sin[activated_cell_id];
if (_has_melted[activated_cell_id])
cell_data[n_dofs_per_cell + direction_data_size] = 1.0;
else
cell_data[n_dofs_per_cell + direction_data_size] = 0.0;
for (unsigned int i = 0; i < g_n_material_states; ++i)
cell_data[n_dofs_per_cell + direction_data_size +
phase_history_data_size + i] =
state_host(i, locally_owned_cell_id);
data_to_transfer.push_back(cell_data);
++activated_cell_id;
}
else
{
std::vector<double> cell_data = dummy_cell_data;
for (unsigned int i = 0; i < g_n_material_states; ++i)
cell_data[n_dofs_per_cell + direction_data_size +
phase_history_data_size + i] =
state_host(i, locally_owned_cell_id);
data_to_transfer.push_back(cell_data);
}
++locally_owned_cell_id;
}
else
{
data_to_transfer.push_back(dummy_cell_data);
}
cell_to_id[cell] = cell_id;
++cell_id;
}
// Activate elements by updating the fe_index
for (unsigned int i = activation_start; i < activation_end; ++i)
{
for (auto const &cell : elements_to_activate[i])
{
if (cell->active_fe_index() != 0)
{
cell->set_future_fe_index(0);
data_to_transfer[cell_to_id[cell]][n_dofs_per_cell] =
new_deposition_cos[i];
data_to_transfer[cell_to_id[cell]][n_dofs_per_cell + 1] =
new_deposition_sin[i];
if (data_to_transfer[cell_to_id[cell]]
[n_dofs_per_cell + direction_data_size] > 0.5)
new_has_melted[i] = true;
else
new_has_melted[i] = false;
}
}
}
dealii::parallel::distributed::Triangulation<dim> &triangulation =
dynamic_cast<dealii::parallel::distributed::Triangulation<dim> &>(
const_cast<dealii::Triangulation<dim> &>(
_dof_handler.get_triangulation()));
triangulation.prepare_coarsening_and_refinement();
dealii::parallel::distributed::CellDataTransfer<
dim, dim, std::vector<std::vector<double>>>
cell_data_trans(triangulation);
cell_data_trans.prepare_for_coarsening_and_refinement(data_to_transfer);
#ifdef ADAMANTINE_WITH_CALIPER
CALI_MARK_BEGIN("refine triangulation");
#endif
triangulation.execute_coarsening_and_refinement();
#ifdef ADAMANTINE_WITH_CALIPER
CALI_MARK_END("refine triangulation");
#endif
setup_dofs();
// Update MaterialProperty DoFHandler and resize the state vectors
_material_properties.reinit_dofs();
// Recompute the inverse of the mass matrix
compute_inverse_mass_matrix();
initialize_dof_vector(std::numeric_limits<double>::infinity(), solution);
rw_index_set = solution.locally_owned_elements();
rw_index_set.add_indices(solution.get_partitioner()->ghost_indices());
rw_solution.reinit(rw_index_set);
for (auto val : solution.locally_owned_elements())
rw_solution[val] = new_material_temperature;
// Unpack the material state and repopulate the material state
std::vector<std::vector<double>> transferred_data(
triangulation.n_active_cells(), std::vector<double>(data_size_per_cell));
cell_data_trans.unpack(transferred_data);
auto state = _material_properties.get_state();
state_host = Kokkos::create_mirror_view(state);
_deposition_cos.clear();
_deposition_sin.clear();
_has_melted.clear();
cell_id = 0;
locally_owned_cell_id = 0;
for (auto const &cell : _dof_handler.active_cell_iterators())
{
if (cell->is_locally_owned())
{
if (transferred_data[cell_id][0] !=
std::numeric_limits<double>::infinity())
{
std::copy(transferred_data[cell_id].begin(),
transferred_data[cell_id].begin() + n_dofs_per_cell,
cell_solution.begin());
cell->set_dof_values(cell_solution, rw_solution);
}
if (cell->active_fe_index() == 0)
{
_deposition_cos.push_back(transferred_data[cell_id][n_dofs_per_cell]);
_deposition_sin.push_back(
transferred_data[cell_id][n_dofs_per_cell + 1]);
if (transferred_data[cell_id][n_dofs_per_cell + direction_data_size] >
0.5)
_has_melted.push_back(true);
else
_has_melted.push_back(false);
}
for (unsigned int i = 0; i < g_n_material_states; ++i)
{
state_host(i, locally_owned_cell_id) =
transferred_data[cell_id][n_dofs_per_cell + direction_data_size +
phase_history_data_size + i];
}
++locally_owned_cell_id;
}
++cell_id;
}
Kokkos::deep_copy(state, state_host);
get_state_from_material_properties();
_thermal_operator->set_material_deposition_orientation(_deposition_cos,
_deposition_sin);
// Communicate the results.
solution.import(rw_solution, dealii::VectorOperation::insert);
// Set the value to the newly create DoFs. Here we need to be careful with the
// hanging nodes. When there is a hanging node, the dofs at the vertices are
// "doubled": there is a dof associated to the coarse cell and a dof
// associated to the fine cell. The final value is decided by
// AffineConstraints. Thus, we need to make sure that the newly activated
// cells are at the same level than their neighbors.
rw_solution.reinit(solution.locally_owned_elements());
rw_solution.import(solution, dealii::VectorOperation::insert);
Kokkos::parallel_for("adamantine::set_new_material_temperature",
Kokkos::RangePolicy<Kokkos::DefaultHostExecutionSpace>(
0, rw_solution.locally_owned_size()),
[&](int i)
{
if (rw_solution.local_element(i) ==
std::numeric_limits<double>::infinity())
{
rw_solution.local_element(i) =
new_material_temperature;
}
});
solution.import(rw_solution, dealii::VectorOperation::insert);
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
void ThermalPhysics<dim, fe_degree, MemorySpaceType, QuadratureType>::
update_physics_parameters(
boost::property_tree::ptree const &heat_source_database)
{
// Update the heat source from heat_source_database to reflect changes during
// the simulation (i.e. due to data assimilation)
unsigned int source_index = 0;
for (auto const &source : _heat_sources)
{
// PropertyTreeInput sources.beam_X
boost::property_tree::ptree const &beam_database =
heat_source_database.get_child("beam_" + std::to_string(source_index));
// PropertyTreeInput sources.beam_X.type
std::string type = beam_database.get<std::string>("type");
if (type == "goldak" || type == "electron_beam")
source->set_beam_properties(beam_database);
source_index++;
}
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
double ThermalPhysics<dim, fe_degree, MemorySpaceType, QuadratureType>::
evolve_one_time_step(
double t, double delta_t,
dealii::LA::distributed::Vector<double, MemorySpaceType> &solution,
std::vector<Timer> &timers)
{
// Update the height of the heat source. Right now this is just the
// maximum heat source height, which can lead to unexpected behavior for
// different sources with different heights.
double temp_height = std::numeric_limits<double>::lowest();
for (auto const &source : _heat_sources)
{
temp_height = std::max(temp_height, source->get_current_height(t));
}
_current_source_height = temp_height;
auto eval = [&](double const t, LA_Vector const &y)
{ return evaluate_thermal_physics(t, y, timers); };
auto id_m_Jinv = [&](double const t, double const tau, LA_Vector const &y)
{ return id_minus_tau_J_inverse(t, tau, y, timers); };
double time = _time_stepping->evolve_one_time_step(eval, id_m_Jinv, t,
delta_t, solution);
// If the method is embedded, get the next time step. Otherwise, just use the
// current time step.
if (_embedded_method == false)
_delta_t_guess = delta_t;
else
{
dealii::TimeStepping::EmbeddedExplicitRungeKutta<LA_Vector> *embedded_rk =
static_cast<
dealii::TimeStepping::EmbeddedExplicitRungeKutta<LA_Vector> *>(
_time_stepping.get());
_delta_t_guess = embedded_rk->get_status().delta_t_guess;
}
// Return the time at the end of the time step. This may be different than
// t+delta_t for embedded methods.
return time;
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
void ThermalPhysics<dim, fe_degree, MemorySpaceType, QuadratureType>::
initialize_dof_vector(
double const value,
dealii::LA::distributed::Vector<double, MemorySpaceType> &vector) const
{
// Resize the vector and initialize it to zero
_thermal_operator->initialize_dof_vector(vector);
if (value != 0.)
{
init_dof_vector<dim, fe_degree, MemorySpaceType>(value, vector);
}
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
void ThermalPhysics<dim, fe_degree, MemorySpaceType,
QuadratureType>::get_state_from_material_properties()
{
_thermal_operator->get_state_from_material_properties();
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
void ThermalPhysics<dim, fe_degree, MemorySpaceType,
QuadratureType>::set_state_to_material_properties()
{
_thermal_operator->set_state_to_material_properties();
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
dealii::LA::distributed::Vector<double, MemorySpaceType>
ThermalPhysics<dim, fe_degree, MemorySpaceType, QuadratureType>::
evaluate_thermal_physics(
double const t,
dealii::LA::distributed::Vector<double, MemorySpaceType> const &y,
std::vector<Timer> &timers) const
{
#ifdef ADAMANTINE_WITH_CALIPER
CALI_CXX_MARK_FUNCTION;
#endif
if constexpr (std::is_same<MemorySpaceType, dealii::MemorySpace::Host>::value)
{
return evaluate_thermal_physics_impl<dim, fe_degree, MemorySpaceType>(
_thermal_operator, t, _current_source_height, y, timers);
}
else
{
return evaluate_thermal_physics_impl<dim, fe_degree, MemorySpaceType>(
_thermal_operator, _fe_collection, t, _dof_handler, _heat_sources,
_current_source_height, _boundary_type, _material_properties,
_affine_constraints, y, timers);
}
// Dummy to silence warning
return dealii::LA::distributed::Vector<double, MemorySpaceType>();
}
template <int dim, int fe_degree, typename MemorySpaceType,
typename QuadratureType>
dealii::LA::distributed::Vector<double, MemorySpaceType>
ThermalPhysics<dim, fe_degree, MemorySpaceType, QuadratureType>::
id_minus_tau_J_inverse(
double const /*t*/, double const tau,
dealii::LA::distributed::Vector<double, MemorySpaceType> const &y,
std::vector<Timer> &timers) const