protocols::indexed_structure_store::FragmentStoreManager Class Reference

#include <FragmentStoreManager.hh>

Inheritance diagram for protocols::indexed_structure_store::FragmentStoreManager:

Public Types
typedef std::map< std::string, std::map< numeric::Size, FragmentStoreOP > >	GroupedFragmentMap
typedef std::map< std::string, FragmentLookupOP >	FragmentLookupMap
typedef std::map< std::string, SSHashedFragmentStoreOP >	SSHashedFragmentStoreMap

Public Member Functions
FragmentLookupOP	load_fragment_lookup (std::string lookup_name)
FragmentLookupOP	load_fragment_lookup (std::string lookup_name, std::string store_path)
FragmentStoreOP	load_fragment_store (std::string lookup_name, std::string store_path, utility::vector1< std::string > fields_to_load, utility::vector1< std::string > fields_to_load_types)
std::map< numeric::Size, FragmentStoreOP >	load_grouped_fragment_store (std::string group_field, std::string lookup_name, std::string store_path, utility::vector1< std::string > fields_to_load, utility::vector1< std::string > fields_to_load_types)
SSHashedFragmentStoreOP	SSHashedFragmentStore (std::string store_path="", std::string store_format="hashed", std::string store_compression="")
std::string	resolve_store_path (std::string store_path)
std::map< numeric::Size, FragmentStoreOP >	find_previously_loaded_fragmentStore (std::string const &fragment_store_path)
std::map< numeric::Size, FragmentStoreOP >	load_and_hash_fragmentStore (std::string const &fragment_store_path, std::string const &fragment_store_compression, numeric::Size const &fragment_size)
std::map< numeric::Size, std::vector< numeric::Size > >	get_dssp_fragCt (StructureStoreOP structure_store, std::string const &fragment_store_compression, numeric::Size const &fragment_size, std::vector< numeric::Size > &ss_vector)
std::string	queue_to_string (std::queue< char > frag_dssp)
void	register_store_provider (core::SSize priority, std::string name, FragmentStoreProviderOP backend)

Private Member Functions
	FragmentStoreManager ()

Private Attributes
GroupedFragmentMap	grouped_fragment_map_
SSHashedFragmentStoreMap	SSHashedFragmentStoreMap_
std::map< std::tuple< core::SSize, std::string >, FragmentStoreProviderOP >	store_providers
std::mutex	cache_mutex

Friends
class	utility::SingletonBase< FragmentStoreManager >

Member Typedef Documentation

FragmentLookupMap

typedef std::map< std::string, FragmentLookupOP > protocols::indexed_structure_store::FragmentStoreManager::FragmentLookupMap

GroupedFragmentMap

typedef std::map< std::string, std::map<numeric::Size, FragmentStoreOP> > protocols::indexed_structure_store::FragmentStoreManager::GroupedFragmentMap

SSHashedFragmentStoreMap

typedef std::map< std::string, SSHashedFragmentStoreOP > protocols::indexed_structure_store::FragmentStoreManager::SSHashedFragmentStoreMap

Constructor & Destructor Documentation

FragmentStoreManager()

protocols::indexed_structure_store::FragmentStoreManager::FragmentStoreManager ( )

private

References store_providers.

Member Function Documentation

find_previously_loaded_fragmentStore()

std::map< numeric::Size, FragmentStoreOP > protocols::indexed_structure_store::FragmentStoreManager::find_previously_loaded_fragmentStore

(

std::string const &

fragment_store_path

)

References grouped_fragment_map_.

get_dssp_fragCt()

std::map< numeric::Size, std::vector< numeric::Size > > protocols::indexed_structure_store::FragmentStoreManager::get_dssp_fragCt	(	StructureStoreOP	structure_store,
		std::string const &	fragment_store_compression,
		numeric::Size const &	fragment_size,
		std::vector< numeric::Size > &	ss_vector
	)

References queue_to_string(), protocols::frag_picker::quota::ss_index(), and core::sequence::SSManager::symbolString2index().

Referenced by load_and_hash_fragmentStore().

load_and_hash_fragmentStore()

std::map< numeric::Size, FragmentStoreOP > protocols::indexed_structure_store::FragmentStoreManager::load_and_hash_fragmentStore	(	std::string const &	fragment_store_path,
		std::string const &	fragment_store_compression,
		numeric::Size const &	fragment_size
	)

References protocols::cluster::calibur::aa, protocols::frag_picker::CA, get_dssp_fragCt(), grouped_fragment_map_, core::scoring::omega, core::scoring::pair, and protocols::indexed_structure_store::TR().

load_fragment_lookup() [1/2]

FragmentLookupOP protocols::indexed_structure_store::FragmentStoreManager::load_fragment_lookup

(

std::string

lookup_name

)

References resolve_store_path().

load_fragment_lookup() [2/2]

FragmentLookupOP protocols::indexed_structure_store::FragmentStoreManager::load_fragment_lookup	(	std::string	lookup_name,
		std::string	store_path
	)

References resolve_store_path(), store_providers, and protocols::indexed_structure_store::TR().

load_fragment_store()

FragmentStoreOP protocols::indexed_structure_store::FragmentStoreManager::load_fragment_store	(	std::string	lookup_name,
		std::string	store_path,
		utility::vector1< std::string >	fields_to_load,
		utility::vector1< std::string >	fields_to_load_types
	)

References resolve_store_path(), store_providers, and protocols::indexed_structure_store::TR().

Referenced by load_grouped_fragment_store().

load_grouped_fragment_store()

std::map< numeric::Size, FragmentStoreOP > protocols::indexed_structure_store::FragmentStoreManager::load_grouped_fragment_store	(	std::string	group_field,
		std::string	lookup_name,
		std::string	store_path,
		utility::vector1< std::string >	fields_to_load,
		utility::vector1< std::string >	fields_to_load_types
	)

References grouped_fragment_map_, load_fragment_store(), core::scoring::pair, and core::id::swap().

queue_to_string()

std::string protocols::indexed_structure_store::FragmentStoreManager::queue_to_string

(

std::queue< char >

frag_dssp

)

Referenced by get_dssp_fragCt().

register_store_provider()

void protocols::indexed_structure_store::FragmentStoreManager::register_store_provider	(	core::SSize	priority,
		std::string	name,
		FragmentStoreProviderOP	backend
	)

References cache_mutex, and store_providers.

resolve_store_path()

std::string protocols::indexed_structure_store::FragmentStoreManager::resolve_store_path

(

std::string

store_path

)

Referenced by load_fragment_lookup(), and load_fragment_store().

SSHashedFragmentStore()

SSHashedFragmentStoreOP protocols::indexed_structure_store::FragmentStoreManager::SSHashedFragmentStore	(	std::string	store_path = "",
		std::string	store_format = "hashed",
		std::string	store_compression = ""
	)

References SSHashedFragmentStoreMap_, and protocols::indexed_structure_store::TR().

Friends And Related Function Documentation

utility::SingletonBase< FragmentStoreManager >

friend class utility::SingletonBase< FragmentStoreManager >

friend

Member Data Documentation

cache_mutex

std::mutex protocols::indexed_structure_store::FragmentStoreManager::cache_mutex

private

Referenced by register_store_provider().

grouped_fragment_map_

GroupedFragmentMap protocols::indexed_structure_store::FragmentStoreManager::grouped_fragment_map_

private

Referenced by find_previously_loaded_fragmentStore(), load_and_hash_fragmentStore(), and load_grouped_fragment_store().

SSHashedFragmentStoreMap_

SSHashedFragmentStoreMap protocols::indexed_structure_store::FragmentStoreManager::SSHashedFragmentStoreMap_

private

Referenced by SSHashedFragmentStore().

store_providers

std::map<std::tuple<core::SSize, std::string>, FragmentStoreProviderOP> protocols::indexed_structure_store::FragmentStoreManager::store_providers

private

Referenced by FragmentStoreManager(), load_fragment_lookup(), load_fragment_store(), and register_store_provider().

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

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