protocols::legacy_sewing::SewGraph Class Reference

#include <SewGraph.hh>

Inheritance diagram for protocols::legacy_sewing::SewGraph:

Public Member Functions
	~SewGraph () override
	SewGraph ()
	SewGraph (SewGraph const &src)
	SewGraph (std::map< int, Model > const &models, core::Size segment_matches_per_edge)
	default construct More...
utility::graph::Node *	create_new_node (core::Size index) override
	Factory method for node creation. More...
utility::graph::Edge *	create_new_edge (core::Size index1, core::Size index2) override
	Factory method for edge creation. More...
void	delete_edge (utility::graph::Edge *edge) override
HashEdge *	find_hash_edge (core::Size n1, core::Size n2)
HashEdge const *	find_hash_edge (core::Size n1, core::Size n2) const
std::set< core::Size >	get_node_indices_from_model_id (int model_id) const
ModelNode const *	get_model_node (core::Size n) const
ModelNode const *	get_model_node (int model_id, std::set< core::Size > segment_ids) const
ModelNode const *	get_random_node () const
	get a random node from the graph More...
ModelNode const *	get_random_node_with_edges () const
	get a random node involved in at least one edge from the graph More...
void	set_special_edges (ScoreResults const &scores)
void	add_special_edges ()
void	generate_binary_score_file (std::string score_filename, std::string binary_filename)
void	add_all_model_edges_from_binary (std::string filename, int model_id)
void	add_edges_from_binary (std::string filename, core::Size node_id)
void	report_binary_stats (std::map< int, Model > const &models, std::string filename)

Private Attributes
boost::unordered_object_pool < HashEdge > *	hash_edge_pool_
std::map< int, std::set < core::Size > >	model_indices_
core::Size	last_node_added_
ScoreResults	special_edge_data_

Constructor & Destructor Documentation

protocols::legacy_sewing::SewGraph::~SewGraph ( )

override

References hash_edge_pool_.

protocols::legacy_sewing::SewGraph::SewGraph

(

)

protocols::legacy_sewing::SewGraph::SewGraph

(

SewGraph const &

src

)

Notice that this does not call the parent( src ) copy constructor. This is because the copy constructor relies on polymorphic functions which are unavailable during the Graph constructor. Instead, this function waits until parent construction is complete, and relies on the assigmnent operator.

protocols::legacy_sewing::SewGraph::SewGraph	(	std::map< int, Model > const &	models,
		core::Size	segment_matches_per_edge
	)

default construct

iterate through the models and add all the nodes to the graph

References protocols::legacy_sewing::ModelNode::model(), model_indices_, and protocols::legacy_sewing::TR().

Member Function Documentation

void protocols::legacy_sewing::SewGraph::add_all_model_edges_from_binary	(	std::string	filename,
		int	model_id
	)

References add_edges_from_binary(), and model_indices_.

void protocols::legacy_sewing::SewGraph::add_edges_from_binary	(	std::string	filename,
		core::Size	node_id
	)

References add_special_edges(), protocols::legacy_sewing::HashEdge::basis_pair(), get_model_node(), core::conformation::membrane::in, last_node_added_, protocols::legacy_sewing::ModelNode::model(), protocols::legacy_sewing::Model::model_id_, core::simple_metrics::metrics::sum, core::id::to_string(), and protocols::legacy_sewing::TR().

Referenced by add_all_model_edges_from_binary(), and report_binary_stats().

void protocols::legacy_sewing::SewGraph::add_special_edges

(

)

References protocols::legacy_sewing::HashEdge::basis_pair(), core::sequence::end, get_model_node(), protocols::legacy_sewing::ModelNode::model(), protocols::legacy_sewing::Model::segments_, and special_edge_data_.

Referenced by add_edges_from_binary().

utility::graph::Edge * protocols::legacy_sewing::SewGraph::create_new_edge ( core::Size  index1, core::Size  index2  )

override

Factory method for edge creation.

References hash_edge_pool_.

utility::graph::Node * protocols::legacy_sewing::SewGraph::create_new_node ( core::Size  index )

override

Factory method for node creation.

void protocols::legacy_sewing::SewGraph::delete_edge ( utility::graph::Edge *  edge )

override

References hash_edge_pool_.

HashEdge * protocols::legacy_sewing::SewGraph::find_hash_edge	(	core::Size	n1,
		core::Size	n2
	)

HashEdge const * protocols::legacy_sewing::SewGraph::find_hash_edge	(	core::Size	n1,
		core::Size	n2
	)		const

void protocols::legacy_sewing::SewGraph::generate_binary_score_file	(	std::string	score_filename,
		std::string	binary_filename
	)

References get_model_node(), protocols::legacy_sewing::ModelNode::model(), protocols::legacy_sewing::Model::model_id_, core::conformation::membrane::out, protocols::legacy_sewing::ModelNode::segment_ids(), and protocols::legacy_sewing::TR().

ModelNode const * protocols::legacy_sewing::SewGraph::get_model_node

(

core::Size

n

)

const

Referenced by add_edges_from_binary(), add_special_edges(), generate_binary_score_file(), get_random_node(), and report_binary_stats().

ModelNode const * protocols::legacy_sewing::SewGraph::get_model_node	(	int	model_id,
		std::set< core::Size >	segment_ids
	)		const

References model_indices_, and core::id::to_string().

std::set< core::Size > protocols::legacy_sewing::SewGraph::get_node_indices_from_model_id

(

int

model_id

)

const

References model_indices_, and core::id::to_string().

ModelNode const * protocols::legacy_sewing::SewGraph::get_random_node

(

)

const

get a random node from the graph

References get_model_node().

Referenced by get_random_node_with_edges().

ModelNode const * protocols::legacy_sewing::SewGraph::get_random_node_with_edges

(

)

const

get a random node involved in at least one edge from the graph

References get_random_node().

void protocols::legacy_sewing::SewGraph::report_binary_stats	(	std::map< int, Model > const &	models,
		std::string	filename
	)

References add_edges_from_binary(), get_model_node(), core::conformation::membrane::in, protocols::legacy_sewing::ModelNode::model(), protocols::legacy_sewing::Model::model_id_, model_indices_, protocols::legacy_sewing::ModelNode::segment_ids(), core::id::to_string(), and protocols::legacy_sewing::TR().

void protocols::legacy_sewing::SewGraph::set_special_edges

(

ScoreResults const &

scores

)

References special_edge_data_.

Member Data Documentation

boost::unordered_object_pool< HashEdge >* protocols::legacy_sewing::SewGraph::hash_edge_pool_

private

Referenced by create_new_edge(), delete_edge(), and ~SewGraph().

core::Size protocols::legacy_sewing::SewGraph::last_node_added_

private

Referenced by add_edges_from_binary().

std::map< int, std::set<core::Size> > protocols::legacy_sewing::SewGraph::model_indices_

private

Referenced by add_all_model_edges_from_binary(), get_model_node(), get_node_indices_from_model_id(), report_binary_stats(), and SewGraph().

ScoreResults protocols::legacy_sewing::SewGraph::special_edge_data_

private

Referenced by add_special_edges(), and set_special_edges().

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

• src/protocols/legacy_sewing/sampling/SewGraph.hh
• src/protocols/legacy_sewing/sampling/SewGraph.cc