Implemented ImageZigzagPersistence
* Changed ZigzagPersistence to support a visitor, and implemented
ImageZigzagPersistence
* examples/rips/rips-zigzag now computes using ImageZigzagPersistence
* PersistenceDiagram no longer records zero persistence pairs
* Added utilities/memory.h with report_memory() function
#ifndef __STATIC_PERSISTENCE_H__
#define __STATIC_PERSISTENCE_H__
#include "order.h"
#include "filtration.h"
/**
* Class: StaticPersistence
* The class that encapsulates order and pairing information as well as
* implements methods to compute and maintain the pairing. Its most
* significant method is <pair_simplices()>.
*
* Template parameters:
* Data_ - auxilliary contents to store with each OrderElement
* OrderDescriptor_ - class describing how the order is stored; it defaults to <VectorOrderDescriptor>
* which serves as a prototypical class
*/
template<class Data_ = Empty<>,
class OrderDescriptor_ = VectorOrderDescriptor<> >
class StaticPersistence
{
public:
// Typedef: Data
// The data type stored in each order element
typedef Data_ Data;
/* Typedefs: Order
* Types associated with the order
*
* OrderDescriptor - template parameter rebound with `Data` carrying all the necessary information
* Order - the container class itself
* OrderIndex - iterator into the Order
* OrderComparison - a class for comparing OrderIndices
*/
typedef typename OrderDescriptor_::
template RebindData<Data>::
other OrderDescriptor;
typedef OrderTraits<OrderDescriptor> Traits;
typedef typename Traits::Order Order;
typedef typename Traits::Index OrderIndex;
typedef typename Traits::Element OrderElement;
typedef typename Traits::Comparison OrderComparison;
/* Constructor: StaticPersistence()
* TODO: write a description
*
* Template parameters:
* Filtration - filtration of the complex whose persistence we are computing
*/
template<class Filtration> StaticPersistence(const Filtration& f,
const OrderComparison& ocmp = OrderComparison());
// Function: pair_simplices()
// Compute persistence of the filtration
void pair_simplices() { pair_simplices<PairVisitor>(begin(), end()); }
// Functions: Accessors
// begin() - returns OrderIndex of the first element
// end() - returns OrderIndex of one past the last element
// size() - number of elements in the StaticPersistence
OrderIndex begin() { return order_.begin(); }
OrderIndex end() { return order_.end(); }
size_t size() const { return order_.size(); }
const OrderComparison& order_comparison() const { return ocmp_; }
protected:
// Function: pair_simplices(bg, end)
// Compute persistence of the simplices in filtration between bg and end
template<class Visitor>
void pair_simplices(OrderIndex bg, OrderIndex end, const Visitor& visitor = Visitor());
// Struct: PairVisitor
// Acts as an archetype and if necessary a base class for visitors passed to <pair_simplices(bg, end, visitor)>.
struct PairVisitor
{
// Function: init(i)
// Called after OrderElement pointed to by `i` has been initialized
// (its cycle is set to be its boundary, and pair is set to self, i.e. `i`)
void init(OrderIndex i) const {}
// Function: update(j, i)
// Called after the cycle of `i` has been added to the cycle of `j`,
// this allows the derived class to perform the necessary updates
// (e.g., add `i`'s chain to `j`'s chain)
void update(OrderIndex j, OrderIndex i) const {}
// Function: finished(j)
// Called after the processing of `j` is finished.
void finished(OrderIndex j) const {}
};
const Order& order() const { return order_; }
private:
Order order_;
OrderComparison ocmp_;
};
#include "static-persistence.hpp"
#endif // __STATIC_PERSISTENCE_H__