protocols::pack_daemon::EntityCorrespondence Class Reference

#include <EntityCorrespondence.hh>

Inheritance diagram for protocols::pack_daemon::EntityCorrespondence:

Public Types
typedef core::Size	Size
typedef std::list< core::Size >	ResIDList
typedef ResIDList::const_iterator	ResIDListConstIter
typedef utility::VirtualBase	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 (core::Size num_entities)
void	initialize_from_correspondence_file (std::istream &)
void	add_resid_to_entity_list (core::Size EntityID, core::Size ResID)
core::Size	num_entities () const
core::Size	num_residues () const
core::Size	entity_for_residue (core::Size resid) const
core::Size	n_residues_for_entity (core::Size entity_id) const
ResIDListConstIter	residues_for_entity_begin (core::Size entity_id) const
ResIDListConstIter	residues_for_entity_end (core::Size entity_id) const

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

Private Attributes
core::pose::PoseCOP	pose_
core::pose::PDBPoseMapCOP	pdb_pose_map_
utility::vector1< ResIDList >	entity_id_2_resids_
utility::vector1< core::Size >	resid_2_entity_id_
utility::vector1< std::string >	funcnames_

Member Typedef Documentation

typedef utility::VirtualBase protocols::pack_daemon::EntityCorrespondence::parent

typedef std::list< core::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	(	core::Size	EntityID,
		core::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, core::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, core::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

(

core::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

(

core::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

(

core::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

(

core::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

(

core::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< core::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().

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

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