Abstract class to implement hierarchical methods. More...

#include <IMP/Refiner.h>

Inheritance diagram for IMP::Refiner:

Detailed Description

Abstract class to implement hierarchical methods.

The job of this class is to take a single particle and, if appropriate, return a list of particles. These lists can reflect existing relationships, such as the IMP::core::LeavesRefiner, or arbitrary relationships set up for a particular purpose, such as IMP::core::TableRefiner.

Note: it is assumed that refined particles belong to the same model as the coarse particle

Definition at line 34 of file Refiner.h.

Public Member Functions
	Refiner (std::string name="Refiner %1%", bool is_by_ref=false)

virtual bool	get_can_refine (Particle *) const
	Return true if this refiner can refine that particle. More...

bool	get_is_by_ref_supported ()

virtual unsigned int	get_number_of_refined (Particle *a) const

virtual const ParticlesTemp	get_refined (Particle *a) const =0
	Refine the passed particle into a set of particles. More...

virtual Particle *	get_refined (Particle *a, unsigned int i) const
	Get the ith refined particle. More...

virtual ParticleIndexes	get_refined_indexes (Model *m, ParticleIndex pi) const
	Return the indexes of the particles returned by get_refined() More...

virtual ParticleIndexes const &	get_refined_indexes_by_ref (Model *m, ParticleIndex pi) const
	Return the indexes of the particles returned by get_refined() More...

Public Member Functions inherited from IMP::ParticleInputs
ModelObjectsTemp	get_inputs (Model *m, const ParticleIndexes &pis) const
	Get the ModelObjects read when the given list of particles is used. More...

Public Member Functions inherited from IMP::Object
virtual void	clear_caches ()

CheckLevel	get_check_level () const

LogLevel	get_log_level () const

virtual VersionInfo	get_version_info () const
	Get information about the module and version of the object. More...

void	set_check_level (CheckLevel l)

void	set_log_level (LogLevel l)
	Set the logging level used in this object. More...

void	set_was_used (bool tf) const

void	show (std::ostream &out=std::cout) const

const std::string &	get_name () const

void	set_name (std::string name)

virtual std::string	get_type_name () const

Iterating through the set of refined particles
Using iterators can be more efficient than using the bulk get_refined(), however it is not necessarily so.
typedef internal::IndexingIterator < Accessor >	RefinedIterator

RefinedIterator	refined_begin (Particle *a) const

RefinedIterator	refined_end (Particle *a) const

Additional Inherited Members
Protected Member Functions inherited from IMP::ParticleInputs
virtual ModelObjectsTemp	do_get_inputs (Model *m, const ParticleIndexes &pis) const =0
	Overload this method to specify the inputs. More...

Protected Member Functions inherited from IMP::Object
	Object (std::string name)
	Construct an object with the given name. More...

virtual void	do_destroy ()

Constructor & Destructor Documentation

IMP::Refiner::Refiner	(	std::string	name = `"Refiner %1%"`,
		bool	is_by_ref = `false`
	)

Constructs the refiner

Parameters

name	object name for refiner
is_by_ref	if true, this refiner is expected to support the get_refined_indexes_by_ref method, for refiners that support faster cached list of particles, etc.

Member Function Documentation

virtual bool IMP::Refiner::get_can_refine ( Particle * ) const

virtual

Return true if this refiner can refine that particle.

This should not throw, so be careful what fields are touched.

Reimplemented in IMP::core::TableRefiner, IMP::core::ChildrenRefiner, IMP::core::FixedRefiner, IMP::core::LeavesRefiner, IMP::atom::BondEndpointsRefiner, and IMP::multifit::RigidLeavesRefiner.

Definition at line 51 of file Refiner.h.

bool IMP::Refiner::get_is_by_ref_supported ( )

returns true if this refiner supports get_refined_indexes_by_ref() (e.g. FixedRefiner)

Definition at line 93 of file Refiner.h.

virtual unsigned int IMP::Refiner::get_number_of_refined ( Particle * a ) const

virtual

As a precondition can_refine_particle(a) should be true.

Definition at line 104 of file Refiner.h.

virtual const ParticlesTemp IMP::Refiner::get_refined ( Particle * a ) const

pure virtual

Refine the passed particle into a set of particles.

As a precondition can_refine_particle(a) should be true.

Parameters

a	coarse particle to be refined

Implemented in IMP::core::FixedRefiner, IMP::core::TableRefiner, IMP::core::ChildrenRefiner, IMP::core::LeavesRefiner, IMP::atom::BondEndpointsRefiner, and IMP::multifit::RigidLeavesRefiner.

virtual Particle* IMP::Refiner::get_refined	(	Particle *	a,
		unsigned int	i
	)		const

virtual

Get the ith refined particle.

As a precondition can_refine_particle(a) should be true.

Definition at line 98 of file Refiner.h.

virtual ParticleIndexes IMP::Refiner::get_refined_indexes	(	Model *	m,
		ParticleIndex	pi
	)		const

virtual

Return the indexes of the particles returned by get_refined()

Return the indexes of the particles returned by get_refined() for particle pi in model m.

Parameters

m,pi	model and particle index of coarse particle to be refined

Note: assumes that the refined particles are also in model m

Reimplemented in IMP::core::FixedRefiner.

virtual ParticleIndexes const& IMP::Refiner::get_refined_indexes_by_ref	(	Model *	m,
		ParticleIndex	pi
	)		const

virtual

Return the indexes of the particles returned by get_refined()

Return the indexes of the particles returned by get_refined() for particle pi in model m by reference (possibly faster).

Parameters

m,pi	model and particle index of coarse particle to be refined

Note: assumes that get_is_by_ref() is true.; assumes that the refined particles are also in model m

Reimplemented in IMP::core::FixedRefiner.

Definition at line 81 of file Refiner.h.

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

Refiner.h

Detailed Description

Public Member Functions

Iterating through the set of refined particles

Additional Inherited Members

Constructor & Destructor Documentation

Member Function Documentation