Fixed a serious bug in DynamicPersistenceTrails + LSVineyard sorts filtration by attachment + miscellanea:
* added program options to pdbdistance-vineyard
* pdbdistance-vineyard takes frame list in a file
* more logging
* verification of pairing after vertex transpositions (commented out)
template<class S>
typename ConeSimplex<S>::Cycle
ConeSimplex<S>::boundary() const
{
Cycle bdry;
typename Parent::Cycle pbdry = Parent::boundary();
for (typename Parent::Cycle::const_iterator cur = pbdry.begin(); cur != pbdry.end(); ++cur)
bdry.push_back(Self(*cur, coned_));
if (coned_)
bdry.push_back(Self(*this, false));
return bdry;
}
template<class S>
std::ostream&
ConeSimplex<S>::operator<<(std::ostream& out) const
{
Parent::operator<<(out) << ' ';
if (coned_) out << "[coned]";
return out;
}