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rAKA/src/model/common/non_local_toolbox/non_local_neighborhood_base.cc
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non_local_neighborhood_base.cc
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/**
* @file non_local_neighborhood_base.cc
* @author Aurelia Isabel Cuba Ramos <aurelia.cubaramos@epfl.ch>
* @date Mon Sep 21 18:10:49 2015
*
* @brief Implementation of non-local neighborhood base
*
* @section LICENSE
*
* Copyright (©) 2010-2011 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 "non_local_neighborhood_base.hh"
/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
NonLocalNeighborhoodBase::NonLocalNeighborhoodBase(const SolidMechanicsModel & model,
const ElementTypeMapReal & quad_coordinates,
const ID & id,
const MemoryID & memory_id) :
Memory(id, memory_id),
Parsable(_st_non_local, id),
model(model),
non_local_radius(0.),
spatial_grid(NULL),
is_creating_grid(false),
grid_synchronizer(NULL),
quad_coordinates(quad_coordinates),
spatial_dimension(this->model.getSpatialDimension()){
AKANTU_DEBUG_IN();
this->registerParam("radius" , non_local_radius , 100.,
_pat_parsable | _pat_readable , "Non local radius");
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
NonLocalNeighborhoodBase::~NonLocalNeighborhoodBase() {
AKANTU_DEBUG_IN();
delete spatial_grid;
delete grid_synchronizer;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void NonLocalNeighborhoodBase::initNeighborhood() {
AKANTU_DEBUG_IN();
// Material::initMaterial();
Mesh & mesh = this->model.getMesh();
ElementTypeMap<UInt> nb_ghost_protected;
Mesh::type_iterator it = mesh.firstType(spatial_dimension, _ghost);
Mesh::type_iterator last_type = mesh.lastType(spatial_dimension, _ghost);
for(; it != last_type; ++it)
nb_ghost_protected(mesh.getNbElement(*it, _ghost), *it, _ghost);
AKANTU_DEBUG_INFO("Creating the grid");
this->createGrid();
/// todo: create pairs, set radius of weight function, intialize weight function, compute weights
AKANTU_DEBUG_OUT();
}
/* ------------------------------------------------------------------------- */
void NonLocalNeighborhoodBase::createGrid() {
AKANTU_DEBUG_IN();
const Real safety_factor = 1.2; // for the cell grid spacing
Mesh & mesh = this->model.getMesh();
mesh.computeBoundingBox();
const Vector<Real> & lower_bounds = mesh.getLocalLowerBounds();
const Vector<Real> & upper_bounds = mesh.getLocalUpperBounds();
Vector<Real> center = 0.5 * (upper_bounds + lower_bounds);
Vector<Real> spacing(spatial_dimension, this->non_local_radius * safety_factor);
spatial_grid = new SpatialGrid<QuadraturePoint>(spatial_dimension, spacing, center);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void NonLocalNeighborhoodBase::updatePairList() {
AKANTU_DEBUG_IN();
//// loop over all quads -> all cells
SpatialGrid<QuadraturePoint>::cells_iterator cell_it = spatial_grid->beginCells();
SpatialGrid<QuadraturePoint>::cells_iterator cell_end = spatial_grid->endCells();
Vector<Real> q1_coords(spatial_dimension);
Vector<Real> q2_coords(spatial_dimension);
QuadraturePoint q1;
QuadraturePoint q2;
UInt counter = 0;
for (; cell_it != cell_end; ++cell_it) {
AKANTU_DEBUG_INFO("Looping on next cell");
SpatialGrid<QuadraturePoint>::Cell::iterator first_quad =
spatial_grid->beginCell(*cell_it);
SpatialGrid<QuadraturePoint>::Cell::iterator last_quad =
spatial_grid->endCell(*cell_it);
for (;first_quad != last_quad; ++first_quad, ++counter){
q1 = *first_quad;
Array<Real>::const_vector_iterator coords_type_1_it = this->quad_coordinates(q1.type, q1.ghost_type).begin(spatial_dimension);
q1_coords = coords_type_1_it[q1.global_num];
AKANTU_DEBUG_INFO("Current quadrature point in this cell: " << q1);
SpatialGrid<QuadraturePoint>::CellID cell_id = spatial_grid->getCellID(q1_coords);
/// loop over all the neighbouring cells of the current quad
SpatialGrid<QuadraturePoint>::neighbor_cells_iterator first_neigh_cell =
spatial_grid->beginNeighborCells(cell_id);
SpatialGrid<QuadraturePoint>::neighbor_cells_iterator last_neigh_cell =
spatial_grid->endNeighborCells(cell_id);
for (; first_neigh_cell != last_neigh_cell; ++first_neigh_cell) {
SpatialGrid<QuadraturePoint>::Cell::iterator first_neigh_quad =
spatial_grid->beginCell(*first_neigh_cell);
SpatialGrid<QuadraturePoint>::Cell::iterator last_neigh_quad =
spatial_grid->endCell(*first_neigh_cell);
// loop over the quadrature point in the current neighboring cell
for (;first_neigh_quad != last_neigh_quad; ++first_neigh_quad){
q2 = *first_neigh_quad;
Array<Real>::const_vector_iterator coords_type_2_it = this->quad_coordinates(q2.type, q2.ghost_type).begin(spatial_dimension);
q2_coords = coords_type_2_it[q2.global_num];
Real distance = q1_coords.distance(q2_coords);
if(distance <= this->non_local_radius + Math::getTolerance() &&
(q2.ghost_type == _ghost ||
(q2.ghost_type == _not_ghost && q1.global_num <= q2.global_num))) { // storing only half lists
pair_list[q2.ghost_type].push_back(std::make_pair(q1, q2));
}
}
}
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void NonLocalNeighborhoodBase::createGridSynchronizer() {
this->is_creating_grid = true;
std::set<SynchronizationTag> tags;
tags.insert(_gst_mnl_for_average);
tags.insert(_gst_mnl_weight);
tags.insert(_gst_material_id);
SynchronizerRegistry & synch_registry = this->model.getSynchronizerRegistry();
std::stringstream sstr; sstr << getID() << ":grid_synchronizer";
this->grid_synchronizer = GridSynchronizer::createGridSynchronizer(this->model.getMesh(),
*spatial_grid,
sstr.str(),
&synch_registry,
tags);
this->is_creating_grid = false;
}
/* -------------------------------------------------------------------------- */
void NonLocalNeighborhoodBase::savePairs(const std::string & filename) const {
std::ofstream pout;
std::stringstream sstr;
StaticCommunicator & comm = StaticCommunicator::getStaticCommunicator();
Int prank = comm.whoAmI();
sstr << filename << "." << prank;
pout.open(sstr.str().c_str());
for(UInt gt = _not_ghost; gt <= _ghost; ++gt) {
GhostType ghost_type2 = (GhostType) gt;
PairList::const_iterator first_pair = pair_list[ghost_type2].begin();
PairList::const_iterator last_pair = pair_list[ghost_type2].end();
for(;first_pair != last_pair; ++first_pair) {
const QuadraturePoint & q1 = first_pair->first;
const QuadraturePoint & q2 = first_pair->second;
pout << q1 << " " << q2 << " " << std::endl;
}
}
}
/* -------------------------------------------------------------------------- */
void NonLocalNeighborhoodBase::saveNeighborCoords(const std::string & filename) const {
/// this function is not optimazed and only used for tests on small meshes
/// @todo maybe optimize this function for better performance?
Vector<Real> q1_coords(spatial_dimension);
Vector<Real> q2_coords(spatial_dimension);
QuadraturePoint q1;
QuadraturePoint q2;
std::ofstream pout;
std::stringstream sstr;
StaticCommunicator & comm = StaticCommunicator::getStaticCommunicator();
Int prank = comm.whoAmI();
sstr << filename << "." << prank;
pout.open(sstr.str().c_str());
/// loop over all the quads and write the position of their neighbors
SpatialGrid<QuadraturePoint>::cells_iterator cell_it = spatial_grid->beginCells();
SpatialGrid<QuadraturePoint>::cells_iterator cell_end = spatial_grid->endCells();
for (; cell_it != cell_end; ++cell_it) {
SpatialGrid<QuadraturePoint>::Cell::iterator first_quad =
spatial_grid->beginCell(*cell_it);
SpatialGrid<QuadraturePoint>::Cell::iterator last_quad =
spatial_grid->endCell(*cell_it);
for (;first_quad != last_quad; ++first_quad){
q1 = *first_quad;
Array<Real>::const_vector_iterator coords_type_1_it = this->quad_coordinates(q1.type, q1.ghost_type).begin(spatial_dimension);
q1_coords = coords_type_1_it[q1.global_num];
pout << "#neighbors for quad " << q1.global_num << std::endl;
pout << q1_coords << std::endl;
for(UInt gt = _not_ghost; gt <= _ghost; ++gt) {
GhostType ghost_type2 = (GhostType) gt;
PairList::const_iterator first_pair = pair_list[ghost_type2].begin();
PairList::const_iterator last_pair = pair_list[ghost_type2].end();
for(;first_pair != last_pair; ++first_pair) {
if (q1 == first_pair->first && first_pair->second != q1) {
q2 = first_pair->second;
Array<Real>::const_vector_iterator coords_type_2_it =
this->quad_coordinates(q2.type, q2.ghost_type).begin(spatial_dimension);
q2_coords = coords_type_2_it[q2.global_num];
pout << q2_coords << std::endl;
}
if (q1 == first_pair->second && first_pair->first != q1) {
q2 = first_pair->first;
Array<Real>::const_vector_iterator coords_type_2_it =
this->quad_coordinates(q2.type, q2.ghost_type).begin(spatial_dimension);
q2_coords = coords_type_2_it[q2.global_num];
pout << q2_coords << std::endl;
}
}
}
}
}
}
__END_AKANTU__
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