Keep track of all information related to how a subpose 'fits in' to global modeling scheme. More...

#include <FullModelInfo.hh>

Public Member Functions
	FullModelInfo (std::string const &full_sequence, utility::vector1< Size > const &cutpoint_open_in_full_model, utility::vector1< Size > const &res_numbers_in_pose)

	FullModelInfo (FullModelParametersCOP full_model_parameters)

	FullModelInfo (pose::Pose &pose)

	FullModelInfo (FullModelInfo const &src)

	~FullModelInfo ()

basic::datacache::CacheableDataOP	clone () const

FullModelInfoOP	clone_info () const

FullModelParametersCOP	full_model_parameters () const

void	set_full_model_parameters (FullModelParametersCOP setting)

std::string const &	full_sequence () const

utility::vector1< int > const &	conventional_numbering () const

utility::vector1< Size > const &	cutpoint_open_in_full_model () const

utility::vector1< Size > const &	fixed_domain_map () const

utility::vector1< Size > const &	extra_minimize_res () const

utility::vector1< Size > const &	sample_res () const

void	clear_res_list ()

void	clear_other_pose_list ()

utility::vector1 < core::pose::PoseOP > const &	other_pose_list () const

utility::vector1< Size > const &	res_list () const

utility::vector1< Size >	full_to_sub (utility::vector1< Size > const &res_in_full_model_numbering) const

Size	full_to_sub (Size const res_in_full_model_numbering) const

utility::vector1< Size >	sub_to_full (utility::vector1< Size > const &res) const

std::map< Size, Size >	full_to_sub () const

Size	sub_to_full (Size const &res) const

void	add_other_pose (core::pose::PoseOP pose)

void	set_other_pose_list (utility::vector1< pose::PoseOP > const &setting)

void	set_res_list (utility::vector1< Size > const &res_list)

void	remove_other_pose_at_idx (Size const idx)

Size	find_index_in_other_pose_list (pose::Pose const &pose) const

Size	get_idx_for_other_pose_with_residue (Size const input_res) const

Size	get_idx_for_other_pose (pose::Pose const &pose) const

utility::vector1< Size >	chains_in_full_model () const

utility::vector1< Size >	moving_res_in_full_model () const

Size	size () const

Public Member Functions inherited from basic::datacache::CacheableData
virtual	~CacheableData ()

Private Member Functions
utility::vector1< Size >	get_cutpoint_open_from_pdb_info (pose::Pose const &pose) const

void	get_sequence_with_gaps_filled_with_n (pose::Pose const &pose, std::string &sequence, utility::vector1< Size > &full_numbering) const

Private Attributes
utility::vector1< Size >	res_list_

utility::vector1 < core::pose::PoseOP >	other_pose_list_

FullModelParametersCOP	full_model_parameters_

Detailed Description

Keep track of all information related to how a subpose 'fits in' to global modeling scheme.

See FullModelParameters for more information on the global modeling scheme, including full_sequence, etc.

Constructor & Destructor Documentation

core::pose::full_model_info::FullModelInfo::FullModelInfo	(	std::string const &	full_sequence,
		utility::vector1< Size > const &	cutpoint_open_in_full_model,
		utility::vector1< Size > const &	res_numbers_in_pose
	)

Referenced by clone(), and clone_info().

core::pose::full_model_info::FullModelInfo::FullModelInfo ( FullModelParametersCOP full_model_parameters )

core::pose::full_model_info::FullModelInfo::FullModelInfo ( pose::Pose & pose )

References full_model_parameters_, and res_list_.

core::pose::full_model_info::FullModelInfo::FullModelInfo ( FullModelInfo const & src )

Copy constructors must copy all data, not just some...

References other_pose_list_.

core::pose::full_model_info::FullModelInfo::~FullModelInfo ( )

Member Function Documentation

void core::pose::full_model_info::FullModelInfo::add_other_pose ( core::pose::PoseOP pose )

References other_pose_list_.

utility::vector1< Size > core::pose::full_model_info::FullModelInfo::chains_in_full_model ( ) const

References core::pose::full_model_info::CHAIN, and full_model_parameters_.

void core::pose::full_model_info::FullModelInfo::clear_other_pose_list ( )

References other_pose_list_.

void core::pose::full_model_info::FullModelInfo::clear_res_list ( )

References res_list_.

basic::datacache::CacheableDataOP core::pose::full_model_info::FullModelInfo::clone ( ) const

inlinevirtual

Implements basic::datacache::CacheableData.

References FullModelInfo().

FullModelInfoOP core::pose::full_model_info::FullModelInfo::clone_info ( ) const

inline

References FullModelInfo().

Referenced by core::pose::full_model_info::update_res_list_in_full_model_info_and_pdb_info().

utility::vector1< int > const & core::pose::full_model_info::FullModelInfo::conventional_numbering ( ) const

References full_model_parameters_.

utility::vector1< Size > const & core::pose::full_model_info::FullModelInfo::cutpoint_open_in_full_model ( ) const

References core::pose::full_model_info::CUTPOINT_OPEN, and full_model_parameters_.

Referenced by core::pose::full_model_info::get_chains_full(), core::scoring::methods::IntermolEnergy::get_num_chains_frozen(), core::scoring::methods::MissingEnergy::get_number_missing_residue_connections(), core::scoring::methods::FreeMoietyEnergy::residue_energy(), and core::scoring::loop_graph::LoopGraph::update().

utility::vector1< Size > const & core::pose::full_model_info::FullModelInfo::extra_minimize_res ( ) const

References core::pose::full_model_info::EXTRA_MINIMIZE, and full_model_parameters_.

Size core::pose::full_model_info::FullModelInfo::find_index_in_other_pose_list ( pose::Pose const & pose ) const

References other_pose_list_.

utility::vector1< Size > const & core::pose::full_model_info::FullModelInfo::fixed_domain_map ( ) const

References core::pose::full_model_info::FIXED_DOMAIN, and full_model_parameters_.

Referenced by core::pose::full_model_info::get_fixed_domain_from_full_model_info_const(), core::pose::full_model_info::get_move_elements_from_full_model_info_const(), core::pose::full_model_info::get_moving_res_from_full_model_info(), and core::scoring::methods::MissingEnergy::get_number_missing_residue_connections().

FullModelParametersCOP core::pose::full_model_info::FullModelInfo::full_model_parameters ( ) const

References full_model_parameters_.

std::string const & core::pose::full_model_info::FullModelInfo::full_sequence ( ) const

References full_model_parameters_.

Referenced by core::pose::full_model_info::get_chains_full().

utility::vector1< Size > core::pose::full_model_info::FullModelInfo::full_to_sub ( utility::vector1< Size > const & res_in_full_model_numbering ) const

References utility::vector1< T, class >::index(), and res_list_.

Size core::pose::full_model_info::FullModelInfo::full_to_sub ( Size const res_in_full_model_numbering ) const

References utility::vector1< T, class >::index(), res_list_, and runtime_assert.

std::map< Size, Size > core::pose::full_model_info::FullModelInfo::full_to_sub ( ) const

References utility::vector1< T, class >::has_value(), utility::vector1< T, class >::index(), res_list_, and size().

utility::vector1< Size > core::pose::full_model_info::FullModelInfo::get_cutpoint_open_from_pdb_info ( pose::Pose const & pose ) const

private

Size core::pose::full_model_info::FullModelInfo::get_idx_for_other_pose ( pose::Pose const & pose ) const

References get_idx_for_other_pose_with_residue(), core::pose::full_model_info::get_res_list_from_full_model_info_const(), other_pose_list_, runtime_assert, and core::pose::Pose::total_residue().

Size core::pose::full_model_info::FullModelInfo::get_idx_for_other_pose_with_residue ( Size const input_res ) const

References core::pose::full_model_info::const_full_model_info(), utility::vector1< T, class >::has_value(), other_pose_list_, res_list(), and runtime_assert.

Referenced by get_idx_for_other_pose().

void core::pose::full_model_info::FullModelInfo::get_sequence_with_gaps_filled_with_n	(	pose::Pose const &	pose,
		std::string &	sequence,
		utility::vector1< Size > &	full_numbering
	)		const

private

utility::vector1< Size > core::pose::full_model_info::FullModelInfo::moving_res_in_full_model ( ) const

References core::pose::full_model_info::FIXED_DOMAIN, full_model_parameters_, runtime_assert, and size().

utility::vector1< core::pose::PoseOP > const& core::pose::full_model_info::FullModelInfo::other_pose_list ( ) const

inline

References other_pose_list_.

Referenced by core::scoring::methods::IntermolEnergy::get_chains_connected(), core::pose::full_model_info::get_residue(), and core::pose::full_model_info::update_pose_domain_map().

void core::pose::full_model_info::FullModelInfo::remove_other_pose_at_idx ( Size const idx )

References other_pose_list_, and runtime_assert.

utility::vector1< Size > const& core::pose::full_model_info::FullModelInfo::res_list ( ) const

inline

References res_list_.

Referenced by core::pose::full_model_info::full_to_sub(), core::pose::full_model_info::get_fixed_domain_from_full_model_info_const(), get_idx_for_other_pose_with_residue(), core::pose::full_model_info::get_move_elements_from_full_model_info_const(), core::pose::full_model_info::get_moving_res_from_full_model_info(), core::pose::full_model_info::get_res_list_from_full_model_info(), core::pose::full_model_info::get_res_list_from_full_model_info_const(), core::pose::full_model_info::get_residue(), core::scoring::methods::FreeMoietyEnergy::residue_energy(), set_res_list(), core::pose::full_model_info::sub_to_full(), and core::pose::full_model_info::update_pose_domain_map().

utility::vector1< Size > const & core::pose::full_model_info::FullModelInfo::sample_res ( ) const

References full_model_parameters_, and core::pose::full_model_info::SAMPLE.

void core::pose::full_model_info::FullModelInfo::set_full_model_parameters ( FullModelParametersCOP setting )

References full_model_parameters_.

void core::pose::full_model_info::FullModelInfo::set_other_pose_list ( utility::vector1< pose::PoseOP > const & setting )

References other_pose_list_.

void core::pose::full_model_info::FullModelInfo::set_res_list ( utility::vector1< Size > const & res_list )

inline

References res_list(), and res_list_.

Size core::pose::full_model_info::FullModelInfo::size ( ) const

References full_model_parameters_.

Referenced by core::pose::full_model_info::full_model_size(), full_to_sub(), and moving_res_in_full_model().

utility::vector1< Size > core::pose::full_model_info::FullModelInfo::sub_to_full ( utility::vector1< Size > const & res ) const

References res_list_, and runtime_assert.

Referenced by core::pose::full_model_info::sub_to_full().

Size core::pose::full_model_info::FullModelInfo::sub_to_full ( Size const & res ) const

References res_list_, and runtime_assert.

Member Data Documentation

FullModelParametersCOP core::pose::full_model_info::FullModelInfo::full_model_parameters_

private

Referenced by chains_in_full_model(), conventional_numbering(), cutpoint_open_in_full_model(), extra_minimize_res(), fixed_domain_map(), full_model_parameters(), full_sequence(), FullModelInfo(), moving_res_in_full_model(), sample_res(), set_full_model_parameters(), and size().

utility::vector1< core::pose::PoseOP > core::pose::full_model_info::FullModelInfo::other_pose_list_

private

Referenced by add_other_pose(), clear_other_pose_list(), find_index_in_other_pose_list(), FullModelInfo(), get_idx_for_other_pose(), get_idx_for_other_pose_with_residue(), other_pose_list(), remove_other_pose_at_idx(), and set_other_pose_list().

utility::vector1< Size > core::pose::full_model_info::FullModelInfo::res_list_

private

Referenced by clear_res_list(), full_to_sub(), FullModelInfo(), res_list(), set_res_list(), and sub_to_full().

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

symlinks/rosetta/src/core/pose/full_model_info/FullModelInfo.hh
symlinks/rosetta/src/core/pose/full_model_info/FullModelInfo.cc

Public Member Functions

Private Member Functions

Private Attributes

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation