#include <EntityCorrespondence.hh>

Inheritance diagram for protocols::pack_daemon::EntityCorrespondence:

Public Types
typedef core::Size	Size

typedef std::list< Size >	ResIDList

typedef ResIDList::const_iterator	ResIDListConstIter

typedef utility::pointer::ReferenceCount	parent

Public Member Functions
	EntityCorrespondence ()

	~EntityCorrespondence () override

	EntityCorrespondence (EntityCorrespondence const &)

EntityCorrespondence &	operator= (EntityCorrespondence const &)

void	set_pose (core::pose::PoseCOP pose)

void	set_num_entities (Size num_entities)

void	initialize_from_correspondence_file (std::istream &)

void	add_resid_to_entity_list (Size EntityID, Size ResID)

Size	num_entities () const

Size	num_residues () const

Size	entity_for_residue (Size resid) const

Size	n_residues_for_entity (Size entity_id) const

ResIDListConstIter	residues_for_entity_begin (Size entity_id) const

ResIDListConstIter	residues_for_entity_end (Size entity_id) const

Private Member Functions
void	bounds_check_entity (std::string const &funcname, Size entity_id) const

void	bounds_check_residue (std::string const &funcname, Size resid) const

Private Attributes
core::pose::PoseCOP	pose_

core::pose::PDBPoseMapCOP	pdb_pose_map_

utility::vector1< ResIDList >	entity_id_2_resids_

utility::vector1< Size >	resid_2_entity_id_

utility::vector1< std::string >	funcnames_

Member Typedef Documentation

typedef utility::pointer::ReferenceCount protocols::pack_daemon::EntityCorrespondence::parent

typedef std::list< Size > protocols::pack_daemon::EntityCorrespondence::ResIDList

typedef ResIDList::const_iterator protocols::pack_daemon::EntityCorrespondence::ResIDListConstIter

typedef core::Size protocols::pack_daemon::EntityCorrespondence::Size

Constructor & Destructor Documentation

protocols::pack_daemon::EntityCorrespondence::EntityCorrespondence ( )

References protocols::pack_daemon::func_add_resid_to_entity_list, protocols::pack_daemon::func_entity_for_residue, protocols::pack_daemon::func_n_residues_for_entity, protocols::pack_daemon::func_residues_for_entity_begin, protocols::pack_daemon::func_residues_for_entity_end, and funcnames_.

protocols::pack_daemon::EntityCorrespondence::~EntityCorrespondence ( )

overridedefault

protocols::pack_daemon::EntityCorrespondence::EntityCorrespondence ( EntityCorrespondence const & src )

Member Function Documentation

void protocols::pack_daemon::EntityCorrespondence::add_resid_to_entity_list	(	Size	EntityID,
		Size	ResID
	)

References bounds_check_entity(), bounds_check_residue(), entity_id_2_resids_, protocols::pack_daemon::func_add_resid_to_entity_list, funcnames_, and resid_2_entity_id_.

Referenced by initialize_from_correspondence_file().

void protocols::pack_daemon::EntityCorrespondence::bounds_check_entity	(	std::string const &	funcname,
		Size	entity_id
	)		const

private

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

Referenced by add_resid_to_entity_list(), n_residues_for_entity(), residues_for_entity_begin(), and residues_for_entity_end().

void protocols::pack_daemon::EntityCorrespondence::bounds_check_residue	(	std::string const &	funcname,
		Size	resid
	)		const

private

References num_residues(), pose_, and core::id::to_string().

Referenced by add_resid_to_entity_list(), and entity_for_residue().

EntityCorrespondence::Size protocols::pack_daemon::EntityCorrespondence::entity_for_residue ( Size resid ) const

References bounds_check_residue(), protocols::pack_daemon::func_entity_for_residue, funcnames_, and resid_2_entity_id_.

void protocols::pack_daemon::EntityCorrespondence::initialize_from_correspondence_file ( std::istream & instream )

File format for entity correspondence: Column 1: entity id. Columns 2 and 3 PDB id (resid+[optional insertion code] chain)

References add_resid_to_entity_list(), num_entities(), num_residues(), pdb_pose_map_, and core::id::to_string().

EntityCorrespondence::Size protocols::pack_daemon::EntityCorrespondence::n_residues_for_entity ( Size entity_id ) const

References bounds_check_entity(), entity_id_2_resids_, protocols::pack_daemon::func_n_residues_for_entity, and funcnames_.

EntityCorrespondence::Size protocols::pack_daemon::EntityCorrespondence::num_entities ( ) const

References entity_id_2_resids_.

Referenced by bounds_check_entity(), and initialize_from_correspondence_file().

EntityCorrespondence::Size protocols::pack_daemon::EntityCorrespondence::num_residues ( ) const

References pose_.

Referenced by bounds_check_residue(), initialize_from_correspondence_file(), and protocols::pack_daemon::PackDaemon::set_entity_correspondence().

EntityCorrespondence & protocols::pack_daemon::EntityCorrespondence::operator= ( EntityCorrespondence const & other )

References entity_id_2_resids_, funcnames_, pdb_pose_map_, pose_, and resid_2_entity_id_.

EntityCorrespondence::ResIDListConstIter protocols::pack_daemon::EntityCorrespondence::residues_for_entity_begin ( Size entity_id ) const

References bounds_check_entity(), entity_id_2_resids_, protocols::pack_daemon::func_residues_for_entity_begin, and funcnames_.

EntityCorrespondence::ResIDListConstIter protocols::pack_daemon::EntityCorrespondence::residues_for_entity_end ( Size entity_id ) const

References bounds_check_entity(), entity_id_2_resids_, protocols::pack_daemon::func_residues_for_entity_end, and funcnames_.

void protocols::pack_daemon::EntityCorrespondence::set_num_entities ( Size num_entities )

References entity_id_2_resids_, and resid_2_entity_id_.

void protocols::pack_daemon::EntityCorrespondence::set_pose ( core::pose::PoseCOP pose )

References pdb_pose_map_, pose_, and resid_2_entity_id_.

Member Data Documentation

utility::vector1< ResIDList > protocols::pack_daemon::EntityCorrespondence::entity_id_2_resids_

private

Referenced by add_resid_to_entity_list(), n_residues_for_entity(), num_entities(), operator=(), residues_for_entity_begin(), residues_for_entity_end(), and set_num_entities().

utility::vector1< std::string > protocols::pack_daemon::EntityCorrespondence::funcnames_

private

Referenced by add_resid_to_entity_list(), entity_for_residue(), EntityCorrespondence(), n_residues_for_entity(), operator=(), residues_for_entity_begin(), and residues_for_entity_end().

core::pose::PDBPoseMapCOP protocols::pack_daemon::EntityCorrespondence::pdb_pose_map_

private

Referenced by initialize_from_correspondence_file(), operator=(), and set_pose().

core::pose::PoseCOP protocols::pack_daemon::EntityCorrespondence::pose_

private

Referenced by bounds_check_residue(), num_residues(), operator=(), and set_pose().

utility::vector1< Size > protocols::pack_daemon::EntityCorrespondence::resid_2_entity_id_

private

Referenced by add_resid_to_entity_list(), entity_for_residue(), operator=(), set_num_entities(), and set_pose().

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

src/protocols/pack_daemon/EntityCorrespondence.hh
src/protocols/pack_daemon/EntityCorrespondence.cc

Public Types

Public Member Functions

Private Member Functions

Private Attributes

Member Typedef Documentation

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation