protocols::legacy_sewing::Model Struct Reference

#include <Model.hh>

Inheritance diagram for protocols::legacy_sewing::Model:

Public Member Functions
	Model ()
core::pose::Pose	to_pose_from_db () const
	create a pose for this model from the database More...
void	trim_db_pose (core::pose::Pose &pose) const
	trim the given pose to include only model residues More...
core::Size	pose_number (core::Size resnum) const
	get the corresponding pose resnum from the More...
std::set< core::Size >	segment_ids () const
	return the set of segment ids for this model More...
SewResidue	get_residue (core::Size resnum) const
ModelConstIterator< SewSegment >	model_begin () const
ModelIterator< SewSegment >	model_begin ()
ModelConstIterator< SewSegment >	model_end () const
ModelIterator< SewSegment >	model_end ()

Public Attributes
int	model_id_
std::string	pdb_code_
core::Size	structure_id_
SegmentGraph	segments_
core::Real	distance_
core::Real	hoist_angle_degrees_
core::Real	packing_angle_degrees_
core::Real	meridian_angle_degrees_

Friends
bool	operator< (Model const &a, Model const &b)

Constructor & Destructor Documentation

protocols::legacy_sewing::Model::Model ( )

inline

Member Function Documentation

SewResidue protocols::legacy_sewing::Model::get_residue

(

core::Size

resnum

)

const

References model_id_, and segments_.

Referenced by protocols::legacy_sewing::Assembly::follow_edge(), and protocols::legacy_sewing::Assembly::get_score_result().

ModelConstIterator< SewSegment > protocols::legacy_sewing::Model::model_begin

(

)

const

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

Referenced by protocols::legacy_sewing::Assembly::align_model(), protocols::legacy_sewing::Hasher::hash_model(), protocols::legacy_sewing::Hasher::score_basis(), protocols::legacy_sewing::Hasher::score_basis_125(), and protocols::legacy_sewing::Hasher::transform_model().

ModelIterator< SewSegment > protocols::legacy_sewing::Model::model_begin

(

)

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

ModelConstIterator< SewSegment > protocols::legacy_sewing::Model::model_end

(

)

const

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

Referenced by protocols::legacy_sewing::Assembly::align_model(), protocols::legacy_sewing::Hasher::hash_model(), protocols::legacy_sewing::Hasher::score_basis(), protocols::legacy_sewing::Hasher::score_basis_125(), and protocols::legacy_sewing::Hasher::transform_model().

ModelIterator< SewSegment > protocols::legacy_sewing::Model::model_end

(

)

References segments_.

core::Size protocols::legacy_sewing::Model::pose_number

(

core::Size

resnum

)

const

get the corresponding pose resnum from the

References core::id::to_string().

Referenced by protocols::legacy_sewing::serialize_graph_json().

std::set< core::Size > protocols::legacy_sewing::Model::segment_ids

(

)

const

return the set of segment ids for this model

References segments_.

core::pose::Pose protocols::legacy_sewing::Model::to_pose_from_db

(

)

const

create a pose for this model from the database

References structure_id_.

void protocols::legacy_sewing::Model::trim_db_pose

(

core::pose::Pose &

pose

)

const

trim the given pose to include only model residues

References core::pose::Pose::conformation(), core::conformation::Conformation::delete_residue_slow(), segments_, and core::pose::Pose::size().

Friends And Related Function Documentation

bool operator< ( Model const &  a, Model const &  b  )

friend

Member Data Documentation

core::Real protocols::legacy_sewing::Model::distance_

Referenced by protocols::legacy_sewing::read_model_file(), protocols::legacy_sewing::result_to_models(), and protocols::legacy_sewing::write_model_file().

core::Real protocols::legacy_sewing::Model::hoist_angle_degrees_

Referenced by protocols::legacy_sewing::read_model_file(), protocols::legacy_sewing::result_to_models(), and protocols::legacy_sewing::write_model_file().

core::Real protocols::legacy_sewing::Model::meridian_angle_degrees_

Referenced by protocols::legacy_sewing::read_model_file(), protocols::legacy_sewing::result_to_models(), and protocols::legacy_sewing::write_model_file().

int protocols::legacy_sewing::Model::model_id_

Referenced by protocols::legacy_sewing::SewGraph::add_edges_from_binary(), protocols::legacy_sewing::add_linker_segments(), protocols::legacy_sewing::Assembly::add_model(), protocols::legacy_sewing::LegacyAppendAssemblyMover::apply(), protocols::legacy_sewing::create_model_from_pose(), protocols::legacy_sewing::LegacyRepeatAssemblyMover::dfs_cycle_finder(), protocols::legacy_sewing::Assembly::follow_edge(), protocols::legacy_sewing::LegacyEnumerateAssemblyMover::generate_assembly(), protocols::legacy_sewing::LegacyGreedyAssemblyMover::generate_assembly(), protocols::legacy_sewing::LegacyRepeatAssemblyMover::generate_assembly(), protocols::legacy_sewing::SewGraph::generate_binary_score_file(), protocols::legacy_sewing::get_alpha_beta_models_from_db(), protocols::legacy_sewing::get_continuous_models_from_db(), get_residue(), protocols::legacy_sewing::Assembly::get_score_result(), protocols::legacy_sewing::Hasher::hash_model(), protocols::legacy_sewing::LegacyAppendAssemblyMover::hash_pdb_model(), protocols::legacy_sewing::operator<<(), protocols::legacy_sewing::read_model_file(), protocols::legacy_sewing::Assembly::regenerate_model(), protocols::legacy_sewing::remove_models_from_dssp(), protocols::legacy_sewing::SewGraph::report_binary_stats(), protocols::legacy_sewing::result_to_five_ss_models(), protocols::legacy_sewing::result_to_models(), protocols::legacy_sewing::Hasher::score(), protocols::legacy_sewing::Hasher::score_basis(), protocols::legacy_sewing::Hasher::score_basis_125(), protocols::legacy_sewing::Hasher::score_one(), protocols::legacy_sewing::serialize_graph_json(), and protocols::legacy_sewing::write_model_file().

core::Real protocols::legacy_sewing::Model::packing_angle_degrees_

Referenced by protocols::legacy_sewing::read_model_file(), protocols::legacy_sewing::result_to_models(), and protocols::legacy_sewing::write_model_file().

std::string protocols::legacy_sewing::Model::pdb_code_

Referenced by protocols::legacy_sewing::read_model_file(), protocols::legacy_sewing::result_to_five_ss_models(), protocols::legacy_sewing::result_to_models(), protocols::legacy_sewing::see_whether_model_is_H_bonded_by_terminal_strands(), protocols::legacy_sewing::serialize_graph_json(), and protocols::legacy_sewing::write_model_file().

SegmentGraph protocols::legacy_sewing::Model::segments_

Referenced by protocols::legacy_sewing::add_linker_segments(), protocols::legacy_sewing::Assembly::add_model(), protocols::legacy_sewing::SewGraph::add_special_edges(), protocols::legacy_sewing::DisembodiedAssembly::append_model(), protocols::legacy_sewing::ContinuousAssembly::append_model(), protocols::legacy_sewing::LegacyAppendAssemblyMover::apply(), protocols::legacy_sewing::create_model_from_pose(), protocols::legacy_sewing::LegacyEnumerateAssemblyMover::generate_assembly(), protocols::legacy_sewing::get_5_ss_models_from_db(), protocols::legacy_sewing::get_alpha_beta_models_from_db(), protocols::legacy_sewing::Assembly::get_chimera_segments(), protocols::legacy_sewing::get_continuous_models_from_db(), protocols::legacy_sewing::Assembly::get_matching_model_segments(), get_residue(), protocols::legacy_sewing::LegacyAppendAssemblyMover::hash_pdb_model(), protocols::legacy_sewing::Hasher::insert(), protocols::legacy_sewing::Assembly::map_residues(), model_begin(), model_end(), protocols::legacy_sewing::read_model_file(), protocols::legacy_sewing::Assembly::regenerate_model(), protocols::legacy_sewing::Hasher::remove_connection_inconsistencies(), protocols::legacy_sewing::remove_models_from_dssp(), protocols::legacy_sewing::result_to_five_ss_models(), protocols::legacy_sewing::result_to_models(), protocols::legacy_sewing::Hasher::score(), protocols::legacy_sewing::Hasher::score_basis(), protocols::legacy_sewing::see_whether_model_is_H_bonded_by_terminal_strands(), segment_ids(), trim_db_pose(), and protocols::legacy_sewing::write_model_file().

core::Size protocols::legacy_sewing::Model::structure_id_

Referenced by protocols::legacy_sewing::add_linker_segments(), protocols::legacy_sewing::read_model_file(), protocols::legacy_sewing::result_to_five_ss_models(), protocols::legacy_sewing::result_to_models(), to_pose_from_db(), and protocols::legacy_sewing::write_model_file().

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

• src/protocols/legacy_sewing/conformation/Model.hh
• src/protocols/legacy_sewing/conformation/Model.cc