#include <MoleculeProcessor.h>

Public Types
enum	TFinder { DIJKSTRA }
Static Public Member Functions
static void	create_num_steps_map (const ImageMolecule &mol, const cv::Ptr< ImageAtom > anchor_atom, const cv::Ptr< ImageAtom > &atom, std::map< cv::Ptr< ImageAtom >, size_t > &num_steps_map, std::map< cv::Ptr< ImageAtom >, std::set< std::string > > atoms_queried, std::map< cv::Ptr< ImageAtom >, bool > &node_lock, const std::string &graphvizDbgFilename=std::string(""))
	create the map that tells how many pairs it takes to travel along longest route from atom1 to atom2 of the anchor_pair. Recursive function.
static void	findAndSetTrinsics (ImageMolecule &mol, TFinder WAY)
static void	getCyclePairsAndAtoms (const ImageMolecule &mol, const std::map< cv::Ptr< ImageAtom >, size_t > &num_steps, const cv::Ptr< ImageAtom > &in_atom, std::map< cv::Ptr< ImageAtom >, AtomPair > &atom_to_pair_map, std::list< cv::Ptr< ImageAtom > > &atomchain, std::list< AtomPair > &cyclePairs)
	work backward from 'atom2' in anchor pair, store list of pairs and atoms along the way until getting back to atom1 anchor. kept hidden to discourage improper external usage.
static AtomPair	matchwithFitter (cv::Ptr< ImageAtom > atom1, cv::Ptr< ImageAtom > atom2, ModelFitter &modelfitter)
static AtomPair	matchwithFitter (cv::Ptr< ImageAtom > atom1, cv::Ptr< ImageAtom > atom2, cv::Ptr< ModelFitter > modelfitter)
static std::list< AtomPair >	queryWithAtom (const ImageMolecule &molecule, cv::Ptr< ImageAtom > atom2, cv::Ptr< ModelFitter > modelfitter, float angle_thresh=-1.0)
Static Public Attributes
static const std::string	GRAPHVIZ_FILENAME = "pairgraph.viz"
static const std::string	SHOW_PAIRS = "SHOW_PAIRS"
static const std::string	VERBOSE_GRAPHVIZ_FILENAME = "pairgraph.verbose.viz"
Private Member Functions
	MoleculeProcessor ()

Detailed Description

A container for algorithms that run on a molecule. For now does not store any particular data. In the future it might have some settings stored.

Definition at line 24 of file MoleculeProcessor.h.

Member Enumeration Documentation

enum pano::MoleculeProcessor::TFinder

Enumerator:

DIJKSTRA

Definition at line 75 of file MoleculeProcessor.h.

Constructor & Destructor Documentation

pano::MoleculeProcessor::MoleculeProcessor ( ) [private]

Definition at line 29 of file MoleculeProcessor.cpp.

Member Function Documentation

static void pano::MoleculeProcessor::create_num_steps_map	(	const ImageMolecule &	mol,
		const cv::Ptr< ImageAtom >	anchor_atom,
		const cv::Ptr< ImageAtom > &	atom,
		std::map< cv::Ptr< ImageAtom >, size_t > &	num_steps_map,
		std::map< cv::Ptr< ImageAtom >, std::set< std::string > >	atoms_queried,
		std::map< cv::Ptr< ImageAtom >, bool > &	node_lock,
		const std::string &	graphvizDbgFilename = `std::string("")`
	)		`[static]`

create the map that tells how many pairs it takes to travel along longest route from atom1 to atom2 of the anchor_pair. Recursive function.

void pano::MoleculeProcessor::findAndSetTrinsics	(	ImageMolecule &	mol,
		TFinder	WAY
	)		`[static]`

this finds and sets the TM and confidence for each atom in the molecule

Parameters:

mol

Definition at line 180 of file MoleculeProcessor.cpp.

static void pano::MoleculeProcessor::getCyclePairsAndAtoms	(	const ImageMolecule &	mol,
		const std::map< cv::Ptr< ImageAtom >, size_t > &	num_steps,
		const cv::Ptr< ImageAtom > &	in_atom,
		std::map< cv::Ptr< ImageAtom >, AtomPair > &	atom_to_pair_map,
		std::list< cv::Ptr< ImageAtom > > &	atomchain,
		std::list< AtomPair > &	cyclePairs
	)		`[static]`

work backward from 'atom2' in anchor pair, store list of pairs and atoms along the way until getting back to atom1 anchor. kept hidden to discourage improper external usage.

static AtomPair pano::MoleculeProcessor::matchwithFitter	(	cv::Ptr< ImageAtom >	atom1,
		cv::Ptr< ImageAtom >	atom2,
		ModelFitter &	modelfitter
	)		`[static]`

Take two atoms and a generic modelfitter, create ImageAtomPair. success/failure of the matching is stored inside the ImageAtomPair.

static AtomPair pano::MoleculeProcessor::matchwithFitter	(	cv::Ptr< ImageAtom >	atom1,
		cv::Ptr< ImageAtom >	atom2,
		cv::Ptr< ModelFitter >	modelfitter
	)		`[inline, static]`

Definition at line 43 of file MoleculeProcessor.h.

std::list< AtomPair > pano::MoleculeProcessor::queryWithAtom	(	const ImageMolecule &	molecule,
		cv::Ptr< ImageAtom >	atom2,
		cv::Ptr< ModelFitter >	modelfitter,
		float	angle_thresh = `-1.0`
	)		`[static]`

Using a 'fit method' to align <this> atom with input atom

Parameters:

atom2	: incoming atom to match
modelfitter,:	a type of fit scheme to match Does NOT change molecule, generates list of pairs containing atom2 and atoms in molecule that atom2 wants to bind to.

Definition at line 45 of file MoleculeProcessor.cpp.

Member Data Documentation

const std::string pano::MoleculeProcessor::GRAPHVIZ_FILENAME = "pairgraph.viz" [static]

default filename for saving meta data to graphviz 'dot' file

Definition at line 34 of file MoleculeProcessor.h.

const std::string pano::MoleculeProcessor::SHOW_PAIRS = "SHOW_PAIRS" [static]

show pairs while matching (e.g. point correspondence)

Definition at line 31 of file MoleculeProcessor.h.

const std::string pano::MoleculeProcessor::VERBOSE_GRAPHVIZ_FILENAME = "pairgraph.verbose.viz" [static]

default filename for saving meta data to verbose graphviz 'dot' file

Definition at line 37 of file MoleculeProcessor.h.

The documentation for this class was generated from the following files:

Public Types

Static Public Member Functions

Static Public Attributes

Private Member Functions

Detailed Description

Member Enumeration Documentation

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation