IMP::em::EnvelopePenetrationRestraint Class Reference

Calculate score based on fit to EM map.

#include <IMP/em/EnvelopePenetrationRestraint.h>

Inheritance diagram for IMP::em::EnvelopePenetrationRestraint:

Public Member Functions
	EnvelopePenetrationRestraint (kernel::Particles ps, DensityMap *em_map, Float threshold)
	Constructor. More...
unsigned int	add_particle (kernel::Particle *obj)
void	add_particles (const kernel::Particles &objs)
void	clear_particles ()
virtual IMP::kernel::ModelObjectsTemp	do_get_inputs () const
bool	get_has_particles ()
unsigned int	get_number_of_particles () const
kernel::Particle *	get_particle (unsigned int i) const
kernel::Particles	get_particles () const
virtual std::string	get_type_name () const
virtual ::IMP::base::VersionInfo	get_version_info () const
	Get information about the module and version of the object.
void	remove_particle (kernel::Particle *d)
void	remove_particles (const kernel::Particles &d)
void	reserve_particles (unsigned int sz)
void	set_particles (const kernel::Particles &ps)
void	set_particles_order (const kernel::Particles &objs)
Public Member Functions inherited from IMP::kernel::Restraint
	Restraint (kernel::Model *m, std::string name)
	Restraint (std::string name="Restraint %1%")
void	add_score_and_derivatives (ScoreAccumulator sa) const
Restraint *	create_current_decomposition () const
	Decompose this restraint into constituent terms for the current conf. More...
Restraint *	create_decomposition () const
	Decompose this restraint into constituent terms. More...
virtual ScoringFunction *	create_scoring_function (double weight=1.0, double max=NO_MAX) const
ContainersTemp	get_input_containers () const
ParticlesTemp	get_input_particles () const
virtual double	get_last_score () const
double	get_score () const
bool	get_was_good () const
void	set_weight (Float weight)
Float	get_weight () const
double	get_maximum_score () const
void	set_maximum_score (double s)
Public Member Functions inherited from IMP::kernel::ModelObject
	ModelObject (kernel::Model *m, std::string name)
	ModelObject (std::string name)
virtual void	do_set_model (kernel::Model *)
bool	get_has_dependencies () const
	Return whether this object has dependencies computed.
bool	get_has_required_score_states () const
ModelObjectsTemp	get_inputs () const
ModelObjectsTemps	get_interactions () const
bool	get_is_part_of_model () const
Model *	get_model () const
ModelObjectsTemp	get_outputs () const
const ScoreStatesTemp &	get_required_score_states () const
void	set_has_dependencies (bool tf)
void	set_has_required_score_states (bool tf)
virtual void	set_model (kernel::Model *m)
Public Member Functions inherited from IMP::base::Object
virtual void	clear_caches ()
virtual void	do_destroy ()
CheckLevel	get_check_level () const
LogLevel	get_log_level () const
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)

Public Attributes
virtual double	const

Additional Inherited Members
Protected Member Functions inherited from IMP::kernel::Restraint
virtual void	do_add_score_and_derivatives (ScoreAccumulator sa) const
virtual Restraints	do_create_current_decomposition () const
virtual Restraints	do_create_decomposition () const
ModelObjectsTemp	do_get_outputs () const
Protected Member Functions inherited from IMP::kernel::ModelObject
virtual ModelObjectsTemps	do_get_interactions () const
virtual void	handle_set_has_required_score_states (bool)
Protected Member Functions inherited from IMP::base::Object
	Object (std::string name)
	Construct an object with the given name. More...
	Object ()

Detailed Description

Definition at line 28 of file EnvelopePenetrationRestraint.h.

Constructor & Destructor Documentation

IMP::em::EnvelopePenetrationRestraint::EnvelopePenetrationRestraint	(	kernel::Particles	ps,
		DensityMap *	em_map,
		Float	threshold
	)

Parameters

[in]	ps	The particles participating in the fitting score
[in]	em_map	The density map used in the fitting score
[in]	threshold

Note

kernel::Particles that are rigid-bodies are interpolated and not resampled. This significantly reduces the running time but is less accurate. If the user prefers to get more accurate results, provide its members as input particles and not the rigid body.

Member Function Documentation

virtual IMP::kernel::ModelObjectsTemp IMP::em::EnvelopePenetrationRestraint::do_get_inputs ( ) const

virtual

Get any Particle, Container or other ModelObjects read by this during evaluation. If you read everything in a container, you can just return that container.

Implements IMP::kernel::ModelObject.

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

• EnvelopePenetrationRestraint.h