Homec4science
Diffusion akantu (bugfixes/60-hybrid-phase-field-formulation-unstable-in-dynamics) Browse

rAKA/src/common/aka_grid_dynamic.hh
8fc0f4808df2bugfixes/60-hybrid…

Last Change
Raw File

aka_grid_dynamic.hh
View Options

/**
* @file aka_grid_dynamic.hh
*
* @author Aurelia Isabel Cuba Ramos <aurelia.cubaramos@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Thu Feb 21 2013
* @date last modification: Sat Sep 26 2015
*
* @brief Grid that is auto balanced
*
* @section LICENSE
*
* Copyright (©) 2014, 2015 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 "aka_common.hh"
#include "aka_array.hh"
#include "aka_types.hh"
#include <iostream>
/* -------------------------------------------------------------------------- */
#include <map>
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_AKA_GRID_DYNAMIC_HH__
#define __AKANTU_AKA_GRID_DYNAMIC_HH__
namespace akantu {
class Mesh;
template<typename T>
class SpatialGrid {
public:
SpatialGrid(UInt dimension) : dimension(dimension),
spacing(dimension),
center(dimension),
lower(dimension),
upper(dimension),
empty_cell() {}
SpatialGrid(UInt dimension,
const Vector<Real> & spacing,
const Vector<Real> & center) : dimension(dimension),
spacing(spacing),
center(center),
lower(dimension),
upper(dimension),
empty_cell() {
for (UInt i = 0; i < dimension; ++i) {
lower(i) = std::numeric_limits<Real>::max();
upper(i) = - std::numeric_limits<Real>::max();
}
}
virtual ~SpatialGrid() {};
class neighbor_cells_iterator;
class cells_iterator;
class CellID {
public:
CellID() : ids() {}
CellID(UInt dimention) : ids(dimention) {}
void setID(UInt dir, Int id) { ids(dir) = id; }
Int getID(UInt dir) const { return ids(dir); }
bool operator<(const CellID & id) const {
return std::lexicographical_compare(ids.storage(), ids.storage() + ids.size(),
id.ids.storage(), id.ids.storage() + id.ids.size());
}
bool operator==(const CellID & id) const {
return std::equal(ids.storage(), ids.storage() + ids.size(),
id.ids.storage());
}
bool operator!=(const CellID & id) const {
return !(operator==(id));
}
private:
friend class neighbor_cells_iterator;
friend class cells_iterator;
Vector<Int> ids;
};
/* -------------------------------------------------------------------------- */
class Cell {
public:
typedef typename std::vector<T>::iterator iterator;
typedef typename std::vector<T>::const_iterator const_iterator;
Cell() : id(), data() { }
Cell(const CellID &cell_id) : id(cell_id), data() { }
bool operator==(const Cell & cell) const { return id == cell.id; }
bool operator!=(const Cell & cell) const { return id != cell.id; }
Cell & add(const T & d) { data.push_back(d); return *this; }
iterator begin() { return data.begin(); }
const_iterator begin() const { return data.begin(); }
iterator end() { return data.end(); }
const_iterator end() const { return data.end(); }
private:
CellID id;
std::vector<T> data;
};
private:
typedef std::map<CellID, Cell> cells_container;
public:
const Cell & getCell(const CellID & cell_id) const {
typename cells_container::const_iterator it = cells.find(cell_id);
if(it != cells.end()) return it->second;
else return empty_cell;
}
typename Cell::iterator beginCell(const CellID & cell_id) {
typename cells_container::iterator it = cells.find(cell_id);
if(it != cells.end()) return it->second.begin();
else return empty_cell.begin();
}
typename Cell::iterator endCell(const CellID & cell_id) {
typename cells_container::iterator it = cells.find(cell_id);
if(it != cells.end()) return it->second.end();
else return empty_cell.end();
}
typename Cell::const_iterator beginCell(const CellID & cell_id) const {
typename cells_container::const_iterator it = cells.find(cell_id);
if(it != cells.end()) return it->second.begin();
else return empty_cell.begin();
}
typename Cell::const_iterator endCell(const CellID & cell_id) const {
typename cells_container::const_iterator it = cells.find(cell_id);
if(it != cells.end()) return it->second.end();
else return empty_cell.end();
}
class neighbor_cells_iterator : private std::iterator<std::forward_iterator_tag, UInt> {
public:
neighbor_cells_iterator(const CellID & cell_id, bool end) :
cell_id(cell_id),
position(cell_id.ids.size(), end ? 1 : -1) {
this->updateIt();
if(end) this->it++;
}
neighbor_cells_iterator& operator++() {
UInt i = 0;
for (; i < position.size() && position(i) == 1; ++i);
if(i == position.size()) ++it;
else {
for (UInt j = 0; j < i; ++j) position(j) = -1;
position(i)++;
updateIt();
}
return *this;
}
neighbor_cells_iterator operator++(int) { neighbor_cells_iterator tmp(*this); operator++(); return tmp; };
bool operator==(const neighbor_cells_iterator& rhs) const { return cell_id == rhs.cell_id && it == rhs.it; };
bool operator!=(const neighbor_cells_iterator& rhs) const { return ! operator==(rhs); };
CellID operator*() const {
CellID cur_cell_id(cell_id);
cur_cell_id.ids += position;
return cur_cell_id;
};
private:
void updateIt() {
it = 0;
for (UInt i = 0; i < position.size(); ++i) it = it * 3 + (position(i) + 1);
}
private:
/// central cell id
const CellID & cell_id;
// number representing the current neighbor in base 3;
UInt it;
Vector<Int> position;
};
class cells_iterator : private std::iterator<std::forward_iterator_tag, CellID> {
public:
cells_iterator(typename std::map<CellID, Cell>::const_iterator it) :
it(it) { }
cells_iterator & operator++() {
this->it++;
return *this;
}
cells_iterator operator++(int) {cells_iterator tmp(*this); operator++(); return tmp; };
bool operator==(const cells_iterator& rhs) const { return it == rhs.it; };
bool operator!=(const cells_iterator& rhs) const { return ! operator==(rhs); };
CellID operator*() const {
CellID cur_cell_id(this->it->first);
return cur_cell_id;
};
private:
/// map iterator
typename std::map<CellID, Cell>::const_iterator it;
};
public:
template<class vector_type>
Cell & insert(const T & d, const vector_type & position) {
CellID cell_id = getCellID(position);
typename cells_container::iterator it = cells.find(cell_id);
if(it == cells.end()) {
Cell cell(cell_id);
// #if defined(AKANTU_NDEBUG)
Cell & tmp = (cells[cell_id] = cell).add(d);
// #else
// Cell & tmp = (cells[cell_id] = cell).add(d, position);
// #endif
for (UInt i = 0; i < dimension; ++i) {
Real posl = center(i) + cell_id.getID(i) * spacing(i);
Real posu = posl + spacing(i);
if(posl < lower(i)) lower(i) = posl;
if(posu > upper(i)) upper(i) = posu;
}
return tmp;
} else {
// #if defined(AKANTU_NDEBUG)
return it->second.add(d);
// #else
// return it->second.add(d, position);
// #endif
}
}
inline neighbor_cells_iterator beginNeighborCells(const CellID & cell_id) const {
return neighbor_cells_iterator(cell_id, false);
}
inline neighbor_cells_iterator endNeighborCells(const CellID & cell_id) const {
return neighbor_cells_iterator(cell_id, true);
}
inline cells_iterator beginCells() const {
typename std::map<CellID, Cell>::const_iterator begin = this->cells.begin();
return cells_iterator(begin);
}
inline cells_iterator endCells() const {
typename std::map<CellID, Cell>::const_iterator end = this->cells.end();
return cells_iterator(end);
}
template<class vector_type>
CellID getCellID(const vector_type & position) const {
CellID cell_id(dimension);
for (UInt i = 0; i < dimension; ++i) {
cell_id.setID(i, getCellID(position(i), i));
}
return cell_id;
}
void printself(std::ostream & stream, int indent = 0) const {
std::string space;
for(Int i = 0; i < indent; i++, space += AKANTU_INDENT);
std::streamsize prec = stream.precision();
std::ios_base::fmtflags ff = stream.flags();
stream.setf (std::ios_base::showbase);
stream.precision(5);
stream << space << "SpatialGrid<" << debug::demangle(typeid(T).name()) << "> [" << std::endl;
stream << space << " + dimension : " << this->dimension << std::endl;
stream << space << " + lower bounds : {";
for (UInt i = 0; i < lower.size(); ++i) { if(i != 0) stream << ", "; stream << lower(i); };
stream << "}" << std::endl;
stream << space << " + upper bounds : {";
for (UInt i = 0; i < upper.size(); ++i) { if(i != 0) stream << ", "; stream << upper(i); };
stream << "}" << std::endl;
stream << space << " + spacing : {";
for (UInt i = 0; i < spacing.size(); ++i) { if(i != 0) stream << ", "; stream << spacing(i); };
stream << "}" << std::endl;
stream << space << " + center : {";
for (UInt i = 0; i < center.size(); ++i) { if(i != 0) stream << ", "; stream << center(i); };
stream << "}" << std::endl;
stream << space << " + nb_cells : " << this->cells.size() << "/";
Vector<Real> dist(this->dimension);
dist = upper;
dist -= lower;
for (UInt i = 0; i < this->dimension; ++i) {
dist(i) /= spacing(i);
}
UInt nb_cells = std::ceil(dist(0));
for (UInt i = 1; i < this->dimension; ++i) {
nb_cells *= std::ceil(dist(i));
}
stream << nb_cells << std::endl;
stream << space << "]" << std::endl;
stream.precision(prec);
stream.flags(ff);
}
void saveAsMesh(Mesh & mesh) const;
private:
/* -------------------------------------------------------------------------- */
inline UInt getCellID(Real position, UInt direction) const {
AKANTU_DEBUG_ASSERT(direction < center.size(), "The direction asked ("
<< direction << ") is out of range " << center.size());
Real dist_center = position - center(direction);
Int id = std::floor(dist_center / spacing(direction));
//if(dist_center < 0) id--;
return id;
}
friend class GridSynchronizer;
public:
AKANTU_GET_MACRO(LowerBounds, lower, const Vector<Real> &);
AKANTU_GET_MACRO(UpperBounds, upper, const Vector<Real> &);
AKANTU_GET_MACRO(Spacing, spacing, const Vector<Real> &);
protected:
UInt dimension;
cells_container cells;
Vector<Real> spacing;
Vector<Real> center;
Vector<Real> lower;
Vector<Real> upper;
Cell empty_cell;
};
/// standard output stream operator
template<typename T>
inline std::ostream & operator <<(std::ostream & stream, const SpatialGrid<T> & _this)
{
_this.printself(stream);
return stream;
}
} // akantu
#include "mesh.hh"
namespace akantu {
/* -------------------------------------------------------------------------- */
template<typename T>
void SpatialGrid<T>::saveAsMesh(Mesh & mesh) const {
Array<Real> & nodes = const_cast<Array<Real> &>(mesh.getNodes());
ElementType type;
switch(dimension) {
case 1: type = _segment_2; break;
case 2: type = _quadrangle_4; break;
case 3: type = _hexahedron_8; break;
}
mesh.addConnectivityType(type);
auto & connectivity = const_cast<Array<UInt> &>(mesh.getConnectivity(type));
auto & uint_data = mesh.getDataPointer<UInt>("tag_1", type);
Vector<Real> pos(dimension);
UInt global_id = 0;
for (auto & cell_pair : cells) {
UInt cur_node = nodes.size();
UInt cur_elem = connectivity.size();
const CellID & cell_id = cell_pair.first;
for (UInt i = 0; i < dimension; ++i) pos(i) = center(i) + cell_id.getID(i) * spacing(i);
nodes.push_back(pos);
for (UInt i = 0; i < dimension; ++i) pos(i) += spacing(i);
nodes.push_back(pos);
connectivity.push_back(cur_node);
switch(dimension) {
case 1:
connectivity(cur_elem, 1) = cur_node + 1;
break;
case 2:
pos(0) -= spacing(0); nodes.push_back(pos);
pos(0) += spacing(0); pos(1) -= spacing(1); nodes.push_back(pos);
connectivity(cur_elem, 1) = cur_node + 3;
connectivity(cur_elem, 2) = cur_node + 1;
connectivity(cur_elem, 3) = cur_node + 2;
break;
case 3:
pos(1) -= spacing(1); pos(2) -= spacing(2); nodes.push_back(pos);
pos(1) += spacing(1); nodes.push_back(pos);
pos(0) -= spacing(0); nodes.push_back(pos);
pos(1) -= spacing(1); pos(2) += spacing(2); nodes.push_back(pos);
pos(0) += spacing(0); nodes.push_back(pos);
pos(0) -= spacing(0); pos(1) += spacing(1); nodes.push_back(pos);
connectivity(cur_elem, 1) = cur_node + 2;
connectivity(cur_elem, 2) = cur_node + 3;
connectivity(cur_elem, 3) = cur_node + 4;
connectivity(cur_elem, 4) = cur_node + 5;
connectivity(cur_elem, 5) = cur_node + 6;
connectivity(cur_elem, 6) = cur_node + 1;
connectivity(cur_elem, 7) = cur_node + 7;
break;
}
uint_data.push_back(global_id);
++global_id;
}
}
} // akantu
#endif /* __AKANTU_AKA_GRID_DYNAMIC_HH__ */
c4science · Help