Added arbitrary coefficients in boundaries (to C++ and Python) + cleaned up CohomologyPersistence.add overloading in Python
#include "utilities/log.h"
#include "utilities/counter.h"
#ifdef LOGGING
static rlog::RLogChannel* rlKineticSort = DEF_CHANNEL("geometry/kinetic-sort", rlog::Log_Debug);
static rlog::RLogChannel* rlKineticSortAudit = DEF_CHANNEL("geometry/kinetic-sort/audit", rlog::Log_Debug);
static rlog::RLogChannel* rlKineticSortSchedule = DEF_CHANNEL("geometry/kinetic-sort/schedule", rlog::Log_Debug);
static rlog::RLogChannel* rlKineticSortProcess = DEF_CHANNEL("geometry/kinetic-sort/process", rlog::Log_Debug);
#endif // LOGGING
#ifdef COUNTERS
static Counter* cKineticSort = GetCounter("kinetic-sort");
static Counter* cKineticSortSwap = GetCounter("kinetic-sort/swap");
#endif // COUNTERS
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::
KineticSort()
{}
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::
KineticSort(ElementIterator b, ElementIterator e, Swap swap, Simulator* simulator)
{
initialize(b, e, swap, simulator);
}
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
void
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::
initialize(ElementIterator b, ElementIterator e, Swap swap, Simulator* simulator)
{
swap_ = swap;
for (ElementIterator cur = b; cur != e; ++cur)
list_.push_back(Node(cur, simulator->null_key()));
schedule_swaps(list_.begin(), list_.end(), simulator);
}
/// Adds elements in the range [f,l) of the underlying data structure to the management by the KineticSort.
/// pos must be a valid iterator, i.e., it cannot be end().
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
void
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::
insert(iterator pos, ElementIterator f, ElementIterator l, Simulator* simulator)
{
iterator previous = pos; --previous;
if (previous != list_.end()) simulator->remove(previous->swap_event_key);
ElementIterator cur = boost::next(previous)->element;
while(cur != pos->element)
list_.insert(pos->element, Node(cur++, simulator->null_key()));
if (previous != list_.end())
schedule_swaps(previous, pos, simulator);
else
schedule_swaps(list_.begin(), pos, simulator);
}
/// Removes pos from the KineticSort structure. Assumes that the element of the underlying data structure
/// that *pos refers to has already been removed.
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
void
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::
erase(iterator pos, Simulator* simulator)
{
simulator->remove(pos->swap_event_key);
iterator prev = pos; --prev;
list_.erase(pos);
schedule_swaps(prev, simulator);
}
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
void
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::
update_trajectory(iterator pos, Simulator* simulator)
{
iterator prev = boost::prior(pos);
if (prev != list_.end())
{
simulator->remove(prev->swap_event_key);
schedule_swaps(prev, simulator);
}
if (boost::next(pos) != list_.end())
{
simulator->remove(pos->swap_event_key);
schedule_swaps(pos, simulator);
}
}
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
void
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::
swap(iterator pos, Simulator* simulator)
{
// TODO: AssertMsg(boost::next(pos) != list_.end(), "Cannot swap the last element");
Count(cKineticSortSwap);
swap_(pos->element, simulator);
// Remove events
iterator prev = boost::prior(pos);
if (prev != list_.end())
simulator->remove(prev->swap_event_key);
iterator next = boost::next(pos);
simulator->remove(next->swap_event_key);
// Swap
list_.splice(pos, list_, next);
// update events
next->swap_event_key = pos->swap_event_key;
static_cast<SwapEvent*>(*(next->swap_event_key))->set_position(next);
schedule_swaps(prev, simulator);
schedule_swaps(pos, simulator);
//audit(simulator);
}
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
bool
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::
audit(Simulator* simulator) const
{
typedef typename Simulator::Function Function;
typedef typename Simulator::Time Time;
Time t = simulator->audit_time();
rLog(rlKineticSortAudit, "Auditing at %s", tostring(t).c_str());
TrajectoryExtractor te;
typename NodeList::const_iterator next = list_.begin();
typename NodeList::const_iterator cur = next++;
Function cur_trajectory = te(cur->element);
while (next != list_.end())
{
rLog(rlKineticSortAudit, " %s", intostring(**(cur->swap_event_key)).c_str());
Function next_trajectory = te(next->element);
rLog(rlKineticSortAudit, " Auditing: %s, %s", tostring(cur_trajectory).c_str(),
tostring(next_trajectory).c_str());
rLog(rlKineticSortAudit, " Difference: %s", tostring(next_trajectory - cur_trajectory).c_str());
rLog(rlKineticSortAudit, " Sign at: %s, %s", tostring(t).c_str(),
tostring(FunctionKernel::sign_at(next_trajectory - cur_trajectory, t)).c_str());
if (FunctionKernel::sign_at(next_trajectory - cur_trajectory, t) == -1)
{
rError("Audit failed at %s, %s", tostring(*cur->element).c_str(),
tostring(*next->element).c_str());
return false;
}
cur_trajectory = next_trajectory;
cur = next++;
}
if (cur != list_.end()) rLog(rlKineticSortAudit, " %s", intostring(**(cur->swap_event_key)).c_str());
return true;
}
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
void
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::
schedule_swaps(iterator b, iterator e, Simulator* simulator)
{
typedef typename Simulator::Function Function;
TrajectoryExtractor te;
iterator next = b;
iterator cur = next++;
Function cur_trajectory = te(cur->element);
while (next != e)
{
Function next_trajectory = te(next->element);
rLog(rlKineticSortSchedule, "Next trajectory: %s", tostring(next_trajectory).c_str());
// TODO: add assertion that (next_trajectory - cur_trajectory)(s->curren_time()) > 0
cur->swap_event_key = simulator->add(next_trajectory - cur_trajectory, SwapEvent(this, cur));
cur = next++;
cur_trajectory = next_trajectory;
}
if (cur != e) schedule_swaps(cur, simulator);
}
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
void
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::
schedule_swaps(iterator i, Simulator* simulator)
{
typedef typename Simulator::Function Function;
if (i == list_.end()) return;
if (boost::next(i) == list_.end())
{
i->swap_event_key = simulator->add(SwapEvent(this, i));
return;
}
TrajectoryExtractor te;
iterator next = boost::next(i);
Function i_trajectory = te(i->element);
Function next_trajectory = te(next->element);
//std::cout << "Updating swaps for: " << i_trajectory << ", " << next_trajectory << std::endl;
//std::cout << "Difference: " << next_trajectory - i_trajectory << std::endl;
i->swap_event_key = simulator->add(next_trajectory - i_trajectory, SwapEvent(this, i));
//i->swap_event_key = simulator->add(next_trajectory, SwapEvent(this, i));
}
/* SwapEvent */
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
class KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::SwapEvent: public Simulator::Event
{
public:
typedef typename Simulator::Event Parent;
SwapEvent(const SwapEvent& e):
sort_(e.sort_), pos_(e.pos_) {}
SwapEvent(KineticSort* sort, iterator pos):
sort_(sort), pos_(pos) {}
virtual bool process(Simulator* s) const;
void set_position(iterator i) { pos_ = i; }
iterator position() const { return pos_; }
std::ostream& operator<<(std::ostream& out) const;
private:
KineticSort* sort_;
iterator pos_;
};
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
bool
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::SwapEvent::
process(Simulator* s) const
{
rLog(rlKineticSortProcess, "Swapping. Current time: %s", tostring(s->current_time()).c_str());
sort_->swap(pos_, s);
return true;
}
template<class ElementIterator_, class TrajectoryExtractor_, class Simulator_, class Swap_>
std::ostream&
KineticSort<ElementIterator_, TrajectoryExtractor_, Simulator_, Swap_>::SwapEvent::
operator<<(std::ostream& out) const
{
Parent::operator<<(out) << "SwapEvent at " << TrajectoryExtractor_()(position()->element);
return out;
}