protocols::indexed_structure_store::FragmentStore Class Reference

#include <FragmentStore.hh>

Inheritance diagram for protocols::indexed_structure_store::FragmentStore:

Public Member Functions
	FragmentStore (FragmentSpecification fragment_specification, numeric::Size num_fragments=0)
FragmentStoreOP	get_self_ptr ()
	self pointer More...
void	resize (numeric::Size num_fragments)
void	add_threshold_distance_allFrag (numeric::Real distance)
template<class T >
void	inline_vector_delete (std::vector< T > &data_vector, const std::vector< bool > &delete_vector)
std::set< std::string >	get_homologs ()
void	delete_homologs ()
void	generate_residue_subset_fragment_store (std::vector< numeric::Size > residues)
FragmentLookupOP	get_fragmentLookup ()
std::vector < numeric::xyzVector < numeric::Real > >	get_fragment_coordinates (numeric::Size position)

Public Attributes
FragmentSpecification	fragment_specification
numeric::Size	num_fragments_
numeric::Size	hash_id
std::vector< numeric::Real >	fragment_threshold_distances
std::vector < numeric::xyzVector < numeric::Real > >	fragment_coordinates
std::map< std::string, std::vector< numeric::Size > >	int64_groups
std::map< std::string, std::vector< numeric::Real > >	real_groups
std::map< std::string, std::vector< std::vector < numeric::Real > > >	realVector_groups
std::map< std::string, std::vector< std::string > >	string_groups
FragmentStoreOP	residue_subset_fragment_store

Private Attributes
std::mutex	frag_lookup_mutex
FragmentLookupOP	fragLookupOP_

Constructor & Destructor Documentation

protocols::indexed_structure_store::FragmentStore::FragmentStore	(	FragmentSpecification	fragment_specification,
		numeric::Size	num_fragments = 0
	)

References fragLookupOP_, and num_fragments_.

Member Function Documentation

void protocols::indexed_structure_store::FragmentStore::add_threshold_distance_allFrag

(

numeric::Real

distance

)

References core::kinematics::distance(), and fragment_threshold_distances.

void protocols::indexed_structure_store::FragmentStore::delete_homologs

(

)

References fragment_coordinates, protocols::indexed_structure_store::FragmentSpecification::fragment_length, fragment_specification, fragment_threshold_distances, get_homologs(), inline_vector_delete(), int64_groups, num_fragments_, real_groups, realVector_groups, and string_groups.

void protocols::indexed_structure_store::FragmentStore::generate_residue_subset_fragment_store

(

std::vector< numeric::Size >

residues

)

References protocols::indexed_structure_store::FragmentSpecification::coordinates_per_fragment(), protocols::indexed_structure_store::FragmentSpecification::fragment_atoms, fragment_coordinates, fragment_specification, num_fragments_, and residue_subset_fragment_store.

std::vector< numeric::xyzVector< numeric::Real > > protocols::indexed_structure_store::FragmentStore::get_fragment_coordinates

(

numeric::Size

position

)

References protocols::indexed_structure_store::FragmentSpecification::coordinates_per_fragment(), protocols::indexed_structure_store::FragmentSpecification::fragment_atoms, fragment_coordinates, and fragment_specification.

FragmentLookupOP protocols::indexed_structure_store::FragmentStore::get_fragmentLookup

(

)

References frag_lookup_mutex, fragLookupOP_, and get_self_ptr().

std::set< std::string > protocols::indexed_structure_store::FragmentStore::get_homologs

(

)

Referenced by delete_homologs().

FragmentStoreOP protocols::indexed_structure_store::FragmentStore::get_self_ptr ( )

inline

self pointer

Referenced by get_fragmentLookup().

template<class T >

void protocols::indexed_structure_store::FragmentStore::inline_vector_delete ( std::vector< T > &  data_vector, const std::vector< bool > &  delete_vector  )

inline

Referenced by delete_homologs().

void protocols::indexed_structure_store::FragmentStore::resize

(

numeric::Size

num_fragments

)

References protocols::indexed_structure_store::FragmentSpecification::coordinates_per_fragment(), fragment_coordinates, fragment_specification, fragment_threshold_distances, and num_fragments_.

Member Data Documentation

std::mutex protocols::indexed_structure_store::FragmentStore::frag_lookup_mutex

private

Referenced by get_fragmentLookup().

FragmentLookupOP protocols::indexed_structure_store::FragmentStore::fragLookupOP_

private

Referenced by FragmentStore(), and get_fragmentLookup().

std::vector<numeric::xyzVector<numeric::Real> > protocols::indexed_structure_store::FragmentStore::fragment_coordinates

Referenced by delete_homologs(), generate_residue_subset_fragment_store(), get_fragment_coordinates(), and resize().

FragmentSpecification protocols::indexed_structure_store::FragmentStore::fragment_specification

Referenced by delete_homologs(), generate_residue_subset_fragment_store(), get_fragment_coordinates(), and resize().

std::vector<numeric::Real> protocols::indexed_structure_store::FragmentStore::fragment_threshold_distances

Referenced by add_threshold_distance_allFrag(), delete_homologs(), and resize().

numeric::Size protocols::indexed_structure_store::FragmentStore::hash_id

std::map<std::string, std::vector<numeric::Size> > protocols::indexed_structure_store::FragmentStore::int64_groups

Referenced by delete_homologs().

numeric::Size protocols::indexed_structure_store::FragmentStore::num_fragments_

Referenced by delete_homologs(), FragmentStore(), generate_residue_subset_fragment_store(), and resize().

std::map<std::string, std::vector<numeric::Real> > protocols::indexed_structure_store::FragmentStore::real_groups

Referenced by delete_homologs().

std::map<std::string, std::vector<std::vector<numeric::Real> > > protocols::indexed_structure_store::FragmentStore::realVector_groups

Referenced by delete_homologs().

FragmentStoreOP protocols::indexed_structure_store::FragmentStore::residue_subset_fragment_store

Referenced by generate_residue_subset_fragment_store().

std::map<std::string, std::vector<std::string> > protocols::indexed_structure_store::FragmentStore::string_groups

Referenced by delete_homologs().

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

• src/protocols/indexed_structure_store/FragmentStore.hh
• src/protocols/indexed_structure_store/FragmentStore.cc