Classify the particles of molecular systems that are at a given interface. More...

#include <Molecular_structure_classifier.hpp>

Public Types
typedef Partner_labels_traits::Label	Partner_label
	System's label associated to a partner. More...

typedef Mediator_labels_traits::Label	Mediator_label
	System's label associated to a mediator. More...

Internal Public Types
typedef ParticleWithSystemLabelTraits	Particle_traits

typedef MolecularModelClassifier	Molecular_geometric_model_classifier
	Alias for the model classifier. More...

typedef MolecularModelClassifier::Molecular_model	Molecular_model
	Type of molecular model for the model classifier. More...

typedef CSB::T_Molecular_structure_traits< ParticleWithSystemLabelTraits, typename MolecularModelClassifier::Molecular_model >	Molecular_structure_traits

typedef Molecular_structure_traits::Partner_labels_traits	Partner_labels_traits

typedef Molecular_structure_traits::Mediator_labels_traits	Mediator_labels_traits

typedef Molecular_structure_traits::Extra_labels_traits	Extra_labels_traits

typedef Partner_labels_traits::Primitive_label_classifier	Partner_label_classifier
	Model of MolecularSystemLabelsTraits partners. More...

typedef Mediator_labels_traits::Primitive_label_classifier	Mediator_label_classifier
	Model of MolecularSystemLabelsTraits mediators. More...

typedef Extra_labels_traits::Primitive_label_classifier	Extra_label_classifier
	Model of MolecularSystemLabelsTraits extra. More...

typedef Molecular_structure_traits::Partner_labels_forest	Partner_labels_forest

typedef Molecular_structure_traits::Mediator_labels_forest	Mediator_labels_forest

Constructors
	T_Molecular_structure_classifier (MolecularModelClassifier &model_classifier, Partner_label_classifier &partners_classifier, Mediator_label_classifier &mediators_classifier, Extra_label_classifier &extras_classifier)

	T_Molecular_structure_classifier (Molecular_model &model, Partner_label_classifier &partners_classifier, Mediator_label_classifier &mediators_classifier, Extra_label_classifier &extras_classifier)

	~T_Molecular_structure_classifier (void)

Molecular Model
MolecularModelClassifier &	get_model_classifier (void)

const MolecularModelClassifier &	get_model_classifier (void) const

System's Labels
const Partner_labels_forest &	get_partners_forest (void) const
	Return the forest representation of the partners' labels. More...

const Mediator_labels_forest &	get_mediators_forest (void) const
	Return the forest representation of the mediators' labels. More...

Particles Accessors
unsigned	get_number_of_particles (Partner_label partner) const

template<class OutputIterator >
OutputIterator	get_particles (Partner_label partner, OutputIterator out) const

unsigned	get_number_of_particles (Mediator_label mediator) const

template<class OutputIterator >
OutputIterator	get_particles (Mediator_label mediator, OutputIterator out) const

unsigned	get_number_of_particles_at_interface (Partner_label partner_1, Partner_label partner_2) const

template<class OutputIterator >
OutputIterator	get_particles_at_interface (Partner_label partner_1, Partner_label partner_2, OutputIterator out) const

unsigned	get_number_of_particles_at_interface (Partner_label partner_1, Partner_label partner_2, Mediator_label mediator) const

template<class OutputIterator >
OutputIterator	get_particles_at_interface (Partner_label partner_1, Partner_label partner_2, Mediator_label mediator, OutputIterator out) const

unsigned	get_number_of_particles_at_interface (Mediator_label mediator, Partner_label partner_1, Partner_label partner_2) const

template<class OutputIterator >
OutputIterator	get_particles_at_interface (Mediator_label mediator, Partner_label partner_1, Partner_label partner_2, OutputIterator out) const

Contacts Accessors
unsigned	get_number_of_contacts_at_interface (Partner_label partner_1, Partner_label partner_2) const
	Get the number of contacts at the interface defined by the two partners. More...

template<class OutputIterator >
OutputIterator	get_contacts_at_interface (Partner_label partner_1, Partner_label partner_2, OutputIterator out) const
	Get all the contacts at the interface (partner_1, partner_2). More...

unsigned	get_number_of_contacts_at_interface (Partner_label partner_1, Partner_label partner_2, Mediator_label mediator) const
	Get the number of contacts at the interface defined by the two partners and the mediator that are nearest to a vertex labelled with partner_1. More...

template<class OutputIterator >
OutputIterator	get_contacts_at_interface (Partner_label partner_1, Partner_label partner_2, Mediator_label mediator, OutputIterator out) const
	Get all the contacts at the interface (partner_1, mediator) that are nearest to a contact (partner_2, mediator). More...

template<class OutputIterator >
OutputIterator	get_neighborhood (Particle_vertex_handle particle, OutputIterator out) const
	nearest particles in the triangulation, not in the alpha-complex !!!! More...

Queries
bool	is_interface_partner_partner_contact (Particle_vertex_handle u, Particle_vertex_handle v) const

bool	is_interface_partner_mediator_contact (Particle_vertex_handle u, Particle_vertex_handle v) const

Contacts Order 3 Accessors
template<class OutputIterator >
OutputIterator	get_neighborhood (const Contact &contact, OutputIterator out) const
	nearest particles in the triangulation, not in the alpha-complex !!!! More...

Detailed Description

template<class ParticleWithSystemLabelTraits, class MolecularModelClassifier = T_Molecular_geometric_model_classifier_for_alpha_complex <CSB::T_Alpha_complex_of_molecular_model<ParticleWithSystemLabelTraits> >>
class SBL::CSB::T_Molecular_structure_classifier< ParticleWithSystemLabelTraits, MolecularModelClassifier >

Classify the particles of molecular systems that are at a given interface.

Data structure classifying the set of vertices and edges located at the interface between the partners. It also finalizes the labelling of vertices of an alpha-complex designed for a molecular system with several partners. In particular, it marks water molecules that are at the interface between the partners (interface water molecules), and the ones that are not (bulked water molecules).

Template Parameters

ParticleWithSystemLabelTraits	model of ParticleTraits where particles have an attached system\'s label.
MolecularModelClassifier	Classify a molecular model, i.e the geometric embedding of a molecular structure.

Member Typedef Documentation

◆ Extra_label_classifier

typedef Extra_labels_traits::Primitive_label_classifier Extra_label_classifier

Model of MolecularSystemLabelsTraits extra.

◆ Mediator_label

typedef Mediator_labels_traits::Label Mediator_label

System's label associated to a mediator.

◆ Mediator_label_classifier

typedef Mediator_labels_traits::Primitive_label_classifier Mediator_label_classifier

Model of MolecularSystemLabelsTraits mediators.

◆ Molecular_geometric_model_classifier

typedef MolecularModelClassifier Molecular_geometric_model_classifier

Alias for the model classifier.

◆ Molecular_model

typedef MolecularModelClassifier::Molecular_model Molecular_model

Type of molecular model for the model classifier.

◆ Partner_label

typedef Partner_labels_traits::Label Partner_label

System's label associated to a partner.

◆ Partner_label_classifier

typedef Partner_labels_traits::Primitive_label_classifier Partner_label_classifier

Model of MolecularSystemLabelsTraits partners.

Member Function Documentation

◆ get_contacts_at_interface() [1/2]

OutputIterator get_contacts_at_interface	(	Partner_label	partner_1,
		Partner_label	partner_2,
		Mediator_label	mediator,
		OutputIterator	out
	)		const

inline

Get all the contacts at the interface (partner_1, mediator) that are nearest to a contact (partner_2, mediator).

Precondition: partner_1 is not equal to or an ancestor of partner_2, and reciprocally.

◆ get_contacts_at_interface() [2/2]

OutputIterator get_contacts_at_interface	(	Partner_label	partner_1,
		Partner_label	partner_2,
		OutputIterator	out
	)		const

inline

Get all the contacts at the interface (partner_1, partner_2).

Precondition: partner_1 is not equal to or an ancestor of partner_2, and reciprocally.

◆ get_mediators_forest()

const T_Molecular_structure_classifier< ParticleWithSystemLabelTraits, MolecularModelClassifier >::Mediator_labels_forest & get_mediators_forest ( void ) const

inline

Return the forest representation of the mediators' labels.

◆ get_neighborhood() [1/2]

OutputIterator get_neighborhood	(	const Contact &	contact,
		OutputIterator	out
	)		const

inline

nearest particles in the triangulation, not in the alpha-complex !!!!

◆ get_neighborhood() [2/2]

OutputIterator get_neighborhood	(	Particle_vertex_handle	particle,
		OutputIterator	out
	)		const

inline

nearest particles in the triangulation, not in the alpha-complex !!!!

◆ get_number_of_contacts_at_interface() [1/2]

unsigned get_number_of_contacts_at_interface	(	Partner_label	partner_1,
		Partner_label	partner_2
	)		const

inline

Get the number of contacts at the interface defined by the two partners.

Precondition: partner_1 is not equal to or an ancestor of partner_2, and reciprocally.

◆ get_number_of_contacts_at_interface() [2/2]

unsigned get_number_of_contacts_at_interface	(	Partner_label	partner_1,
		Partner_label	partner_2,
		Mediator_label	mediator
	)		const

inline

Get the number of contacts at the interface defined by the two partners and the mediator that are nearest to a vertex labelled with partner_1.

Precondition: partner_1 is not equal to or an ancestor of partner_2, and reciprocally.

◆ get_partners_forest()

const T_Molecular_structure_classifier< ParticleWithSystemLabelTraits, MolecularModelClassifier >::Partner_labels_forest & get_partners_forest ( void ) const

inline

Return the forest representation of the partners' labels.

Public Types

Internal Public Types

Constructors

Molecular Model

System's Labels

Particles Accessors

Contacts Accessors

Queries

Contacts Order 3 Accessors

Detailed Description

Member Typedef Documentation

◆ Extra_label_classifier

◆ Mediator_label

◆ Mediator_label_classifier

◆ Molecular_geometric_model_classifier

◆ Molecular_model

◆ Partner_label

◆ Partner_label_classifier

Member Function Documentation

◆ get_contacts_at_interface() [1/2]

◆ get_contacts_at_interface() [2/2]

◆ get_mediators_forest()

◆ get_neighborhood() [1/2]

◆ get_neighborhood() [2/2]

◆ get_number_of_contacts_at_interface() [1/2]

◆ get_number_of_contacts_at_interface() [2/2]

◆ get_partners_forest()