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)
#include <boost/iterator/indirect_iterator.hpp>
#include <boost/python.hpp>
#include <boost/python/iterator.hpp>
#include <boost/python/return_internal_reference.hpp>
namespace bp = boost::python;
#include "chain.h"
namespace dp = dionysus::python;
boost::indirect_iterator<dp::VChain::const_iterator> chain_begin(dp::VChain& c) { return boost::make_indirect_iterator(c.begin()); }
boost::indirect_iterator<dp::VChain::const_iterator> chain_end(dp::VChain& c) { return boost::make_indirect_iterator(c.end()); }
void export_chain()
{
bp::class_<dp::VChain>("Chain")
.def("__iter__", bp::range<bp::return_internal_reference<1> >(&chain_begin, &chain_end))
.def("__len__", &dp::VChain::size)
;
}