Modified cohomology code (unweighted and weighted) so that it doesn't use std::map for boundary computations, which should optimize memory usage.
/*
* Author: Dmitriy Morozov
* Department of Computer Science, Duke University, 2005 -- 2008
*/
#ifndef __GRID2DVINEYARD_H__
#define __GRID2DVINEYARD_H__
#include "grid2D.h"
#include "topology/lowerstarfiltration.h"
#include <CGAL/Kinetic/Inexact_simulation_traits.h>
#include <CGAL/Kinetic/Sort.h>
#include <CGAL/Kinetic/Sort_visitor_base.h>
#include <vector>
class Grid2DVineyard
{
public:
typedef Grid2DVineyard Self;
typedef Grid2D::CoordinateIndex CoordinateIndex;
typedef Grid2D::ValueType ValueType;
class KineticVertexType;
typedef std::vector<KineticVertexType> VertexVector;
typedef VertexVector::iterator VertexIndex;
typedef LowerStarFiltration<VertexIndex> LSFiltration;
class StaticEvaluator;
class KineticEvaluator;
class VertexComparison;
typedef LSFiltration::Index Index;
typedef LSFiltration::Simplex Simplex;
typedef LSFiltration::VertexOrderIndex VertexOrderIndex;
typedef LSFiltration::VertexType<CoordinateIndex> LSVertexType;
typedef LSFiltration::Vineyard Vineyard;
typedef Vineyard::Evaluator Evaluator;
class SortVisitor;
typedef CGAL::Kinetic::Inexact_simulation_traits Traits;
typedef CGAL::Kinetic::Sort<Traits, SortVisitor> Sort;
typedef Traits::Simulator Simulator;
typedef Traits::Active_points_1_table ActivePointsTable;
typedef ActivePointsTable::Key Key;
typedef std::map<Key, VertexOrderIndex> KeyOrderMap;
typedef std::vector<Grid2D*> GridStackContainer;
public:
Grid2DVineyard(Grid2D* g);
~Grid2DVineyard();
void compute_pairing();
void compute_vineyard(Grid2D* grid, bool explicit_events = false);
Grid2D* grid() const { return grid_stack_.back(); }
Grid2D* grid(int i) const { return grid_stack_[i]; }
int num_grids() const { return grid_stack_.size(); }
const LSFiltration* filtration() const { return filtration_; }
const Vineyard* vineyard() const { return vineyard_; }
public:
// For Kinetic Sort
void swap(Key a, Key b);
protected:
// Do something cleverer
virtual bool neighbors(VertexIndex v1, VertexIndex v2) const { return true; }
private:
void add_simplices();
void change_evaluator(Evaluator* eval);
private:
GridStackContainer grid_stack_;
VertexVector vertices_;
LSFiltration* filtration_;
Vineyard* vineyard_;
Evaluator* evaluator_;
KeyOrderMap kinetic_map_;
#if 0
private:
// Serialization
friend class boost::serialization::access;
Grid2DVineyard() {}
template<class Archive>
void serialize(Archive& ar, version_type )
{
ar & BOOST_SERIALIZATION_NVP(grid_stack_);
ar & BOOST_SERIALIZATION_NVP(vertices_);
ar & BOOST_SERIALIZATION_NVP(filtration_);
};
#endif
};
//BOOST_CLASS_EXPORT(Grid2DVineyard)
class Grid2DVineyard::KineticVertexType: public LSVertexType
{
public:
typedef LSVertexType Parent;
Key kinetic_key() const { return key_; }
void set_kinetic_key(Key k) { key_ = k; }
private:
Key key_;
};
std::ostream& operator<<(std::ostream& out, const Grid2DVineyard::VertexIndex& vi) { return out << vi->index(); }
class Grid2DVineyard::VertexComparison
{
public:
VertexComparison(const Grid2D* g): grid(g) {}
bool operator()(VertexIndex i, VertexIndex j) const { return (*grid)(i->index()) <
(*grid)(j->index()); }
private:
const Grid2D* grid;
#if 0
private:
// Serialization
friend class boost::serialization::access;
VertexComparison() {}
template<class Archive>
void serialize(Archive& ar, version_type ) { ar & BOOST_SERIALIZATION_NVP(grid); }
#endif
};
class Grid2DVineyard::StaticEvaluator: public Evaluator
{
public:
StaticEvaluator(Grid2D* grid, RealType time):
time_(time), grid_(grid) {}
virtual RealType time() { return time_; }
virtual RealType value(const Simplex& s) { return (*grid_)(s.get_attachment()->index()); }
private:
RealType time_;
Grid2D* grid_;
};
class Grid2DVineyard::KineticEvaluator: public Evaluator
{
public:
KineticEvaluator(Simulator::Handle sp, ActivePointsTable::Handle apt, RealType time_offset):
sp_(sp), apt_(apt), time_offset_(time_offset) {}
virtual RealType time() { return time_offset_ + CGAL::to_double(get_time()); }
virtual RealType value(const Simplex& s) { return CGAL::to_double(apt_->at(s.get_attachment()->kinetic_key()).x()(get_time())); }
private:
Simulator::Time get_time() { return sp_->current_time(); }
Simulator::Handle sp_;
ActivePointsTable::Handle apt_;
RealType time_offset_;
};
class Grid2DVineyard::SortVisitor: public CGAL::Kinetic::Sort_visitor_base
{
public:
SortVisitor(Grid2DVineyard* gv): gv_(gv) {}
template<class Vertex_handle>
void before_swap(Vertex_handle a, Vertex_handle b) const { gv_->swap(*a,*b); }
private:
Grid2DVineyard* gv_;
};
#include "grid2Dvineyard.hpp"
#endif // __GRID2DVINEYARD_H__