IMP::domino::JNode Class Reference

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Detailed Description

Handles all functionalities of a junction tree node.

Holds multiple particles, their states and the current marginalization state.

Public Member Functions
void	clear ()
std::vector< CombState * > *	find_minimum (bool move_to_state=false, unsigned int num_of_solutions=1)
	Finds the minimum combination in the node.
void	get_intersection (const JNode &other, Particles &in) const
	Get the set of intersecting particles between two nodes.
void	get_intersection2 (const JNode &other, Particles in) const
unsigned int	get_node_index () const
const Particles *	get_particles () const
const DiscreteSampler *	get_sampler ()
Float	get_score (const CombState &comb)
	Get the score for this combination.
CombState *	get_state (unsigned int index, bool move_to_state=false)
void	init_sampling (DiscreteSampler &ds)
	Set the discrete sampling space of each of particles in the node.
bool	is_part (const Particles &p) const
	checks if the input set of particles is part of the node
	JNode (const Particles &p, int node_ind)
	Constructor.
std::vector< CombState * >	min_marginalize (const CombState &s, bool move_to_state=false)
void	move2state (CombState *cs)
	Move the system to the state encoded in the class.
void	populate_states_of_particles (Particles *particles, Combinations *states)
	Fill states as encoded in the node for the input subset of particles.
void	realize (Restraint *r, Particles *ps, Float weight)
	Adds the restraint values to all combinations.
void	set_restraint_evaluator (RestraintEvaluatorI *rstr_eval)
void	show (std::ostream &out=std::cout) const
void	show_sampling_space (std::ostream &out=std::cout) const
void	update_potentials (const std::map< std::string, float > &old_score_separators, const std::map< std::string, float > &new_score_separators, const Particles &intersection_particles)
	Update the potentials.
Protected Attributes
Combinations	comb_states_
std::vector< std::string >	comb_states_keys_
DiscreteSampler *	ds_
unsigned int	node_ind_
Particles	particles_
RestraintEvaluatorI *	rstr_eval_

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Constructor & Destructor Documentation

IMP::domino::JNode::JNode	(	const Particles &	p,
		int	node_ind
	)

Constructor.

Parameters:

[in]	p	a vector of IMP particles that are part of the node
[in]	node_ind	The index of the JNode

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Member Function Documentation

std::vector<CombState *>* IMP::domino::JNode::find_minimum	(	bool	move_to_state = false,
		unsigned int	num_of_solutions = 1
	)

Finds the minimum combination in the node.

Parameters:

[in]	move_to_state	true if the model should move to the new state
[in]	num_of_solutions

Returns:

all of the combinations that reach the global minimum

void IMP::domino::JNode::get_intersection	(	const JNode &	other,
		Particles &	in
	)			const

Get the set of intersecting particles between two nodes.

Parameters:

[in]	other	the second node
[out]	in	the intersection set

void IMP::domino::JNode::init_sampling

(

DiscreteSampler &

ds

)

Set the discrete sampling space of each of particles in the node.

Parameters:

[in]

ds

the sampler data

bool IMP::domino::JNode::is_part

(

const Particles &

p

)

const

checks if the input set of particles is part of the node

Parameters:

[in]

p

a set of particles

Returns:

True if the node contains the input set of nodes, False otherwise

std::vector<CombState *> IMP::domino::JNode::min_marginalize	(	const CombState &	s,
		bool	move_to_state = false
	)

Return the optimal score for the separator, for the given separator find the optimal combination of the rest of the components.

Parameters:

[in]	s	a combination of some of the particles in the node
[in]	move_to_state	True if should move to the state with the minimum score.

void IMP::domino::JNode::populate_states_of_particles	(	Particles *	particles,
		Combinations *	states
	)

Fill states as encoded in the node for the input subset of particles.

Parameters:

[in]	particles	a set of particles
[in]	states	the dataset to be filled with states.

void IMP::domino::JNode::realize	(	Restraint *	r,
		Particles *	ps,
		Float	weight
	)

Adds the restraint values to all combinations.

Parameters:

[in]	r	the restraint
[in]	ps	the particles participate in the restraint at the hierarhcy level encoded in the graph
[in]	weight	the weight of the restraint

void IMP::domino::JNode::update_potentials	(	const std::map< std::string, float > &	old_score_separators,
		const std::map< std::string, float > &	new_score_separators,
		const Particles &	intersection_particles
	)

Update the potentials.

Parameters:

[in]	old_score_separators
[in]	new_score_separators
[in]	intersection_particles

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

• JNode.h
• domino/__init__.py