Intermediate commit while converting to the new architecture
* Converted Filtration into StaticPersistence and DynamicPersistenceTrails
(both right now work with the underlying std::vector rather than std::list order)
* Filtration is now just an auxilliary glue (a map between Complex and Persistence)
* Whether chains are vectors or lists can be interchanged
* Added PersistenceDiagram with a simple bottleneck_distance() function
* Converted triangle, alphashapes3d, and cech-complex examples
* Lots of organizational changes
(factoring utilities out into containers.h, indirect.h, property-maps.h)
* Trying to document along the way with NaturalDocs-type comments
#include "utilities/log.h"
#include "utilities/counter.h"
#ifdef LOGGING
static rlog::RLogChannel* rlSimulator = DEF_CHANNEL("geometry/simulator", rlog::Log_Debug);
#endif // LOGGING
#ifdef COUNTERS
static Counter* cSimulatorProcess = GetCounter("simulator/process");
#endif // COUNTERS
template<class FuncKernel_, template<class Event> class EventComparison_>
template<class Event_>
typename Simulator<FuncKernel_, EventComparison_>::Key
Simulator<FuncKernel_, EventComparison_>::
add(const Event_& e)
{
Event* ee = new Event_(e);
return queue_.push(ee);
}
template<class FuncKernel_, template<class Event> class EventComparison_>
template<class Event_>
typename Simulator<FuncKernel_, EventComparison_>::Key
Simulator<FuncKernel_, EventComparison_>::
add(const Function& f, const Event_& e)
{
Event* ee = new Event_(e);
rLog(rlSimulator, "Solving: %s", tostring(f).c_str());
int sign = FunctionKernel::sign_at_negative_infinity(f); // going to be sign after current time
rLog(rlSimulator, "Sign at -infinity: %i", sign);
if (sign != 0)
{
FunctionKernel::solve(f, ee->root_stack());
rLog(rlSimulator, "Got solution with root stack size: %i", ee->root_stack().size());
}
while (!ee->root_stack().empty() && ee->root_stack().top() < current_time())
{
ee->root_stack().pop();
sign *= -1;
}
if (sign == -1)
{
//AssertMsg(ee->root_stack().top() == current_time(),
// "If sign is negative, we must be in the degenerate case");
rLog(rlSimulator, "Popping the root because of negative sign (degeneracy)");
ee->root_stack().pop();
}
if (ee->root_stack().empty())
rLog(rlSimulator, "Pushing event with empty root stack");
else
{
rLog(rlSimulator, "Root stack size: %i", ee->root_stack().size());
rLog(rlSimulator, "Pushing: %s", tostring(ee->root_stack().top()).c_str());
}
return queue_.push(ee);
}
template<class FuncKernel_, template<class Event> class EventComparison_>
void
Simulator<FuncKernel_, EventComparison_>::
update(Key k, const Function& f)
{
Event* ee = *k;
ee->root_stack() = RootStack(); // no clear() in std::stack
FunctionKernel::solve(f, ee->root_stack());
while (!ee->root_stack().empty() && ee->root_stack().top() < current_time())
ee->root_stack().pop();
update(k);
}
template<class FuncKernel_, template<class Event> class EventComparison_>
void
Simulator<FuncKernel_, EventComparison_>::
process()
{
Count(cSimulatorProcess);
if (reached_infinity()) return;
rLog(rlSimulator, "Queue size: %i", queue_.size());
Key top = queue_.top();
Event* e = *top;
rLog(rlSimulator, "Processing event: %s", intostring(*e).c_str());
current_ = e->root_stack().top(); e->root_stack().pop();
// Get the top element out of the queue, put it back depending on what process() says
EventQueueS tmp; tmp.prepend(top, queue_);
if (e->process(this)) { queue_.prepend(top, tmp); update(top); }
else { delete e; }
}
template<class FuncKernel_, template<class Event> class EventComparison_>
void
Simulator<FuncKernel_, EventComparison_>::
update(Key i)
{
queue_.update(i);
}
template<class FuncKernel_, template<class Event> class EventComparison_>
typename Simulator<FuncKernel_, EventComparison_>::Time
Simulator<FuncKernel_, EventComparison_>::
audit_time() const
{
const_Key top = queue_.top();
Event* e = *top;
if (e->root_stack().empty()) return current_ + 1;
else return FunctionKernel::between(e->root_stack().top(), current_);
}
template<class FuncKernel_, template<class Event> class EventComparison_>
std::ostream&
Simulator<FuncKernel_, EventComparison_>::
operator<<(std::ostream& out) const
{
out << "Simulator: " << std::endl;
return queue_.print(out, " ");
}
template<class FuncKernel_, template<class Event> class EventComparison_>
std::ostream&
operator<<(std::ostream& out, const Simulator<FuncKernel_, EventComparison_>& s)
{
return s.operator<<(out);
}
template<class FuncKernel_, template<class Event> class EventComparison_>
std::ostream&
operator<<(std::ostream& out, const typename Simulator<FuncKernel_, EventComparison_>::Event& e)
{
return e.operator<<(out);
}