#include <BasePairStepLibrary.hh>

Inheritance diagram for protocols::farna::libraries::BasePairStepLibrary:

Public Member Functions
	BasePairStepLibrary (bool const canonical=true)

	~BasePairStepLibrary ()

bool	has_value (BasePairStepSequence const &base_pair_step_sequence) const

utility::vector1 < core::pose::MiniPoseOP > const &	mini_pose_list (BasePairStepSequence const &base_pair_step_sequence) const

pose::PoseCOP const &	scratch_pose (BasePairStepSequence const &base_pair_step_sequence) const

bool	canonical () const

std::string	database_dir () const

Private Member Functions
void	initialize ()

void	initialize_data (BasePairStepSequence const &base_pair_step_sequence, bool const load_in_poses=true) const

Private Attributes
bool const	canonical_

std::map< BasePairStepSequence, utility::vector1 < core::pose::MiniPoseOP > >	mini_pose_lists_

std::map< BasePairStepSequence, pose::PoseCOP >	scratch_poses_

Constructor & Destructor Documentation

protocols::farna::libraries::BasePairStepLibrary::BasePairStepLibrary ( bool const canonical = true )

References initialize().

protocols::farna::libraries::BasePairStepLibrary::~BasePairStepLibrary ( )

Member Function Documentation

bool protocols::farna::libraries::BasePairStepLibrary::canonical ( ) const

inline

Referenced by protocols::farna::libraries::RNA_ChunkLibrary::setup_base_pair_step_chunks().

std::string protocols::farna::libraries::BasePairStepLibrary::database_dir ( ) const

References canonical_.

Referenced by initialize_data(), and protocols::farna::libraries::RNA_ChunkLibrary::setup_base_pair_step_chunks().

bool protocols::farna::libraries::BasePairStepLibrary::has_value ( BasePairStepSequence const & base_pair_step_sequence ) const

References mini_pose_lists_.

Referenced by initialize_data(), mini_pose_list(), scratch_pose(), and protocols::farna::libraries::RNA_ChunkLibrary::setup_base_pair_step_chunks().

void protocols::farna::libraries::BasePairStepLibrary::initialize ( )

private

References canonical_, initialize_data(), protocols::farna::libraries::MAX_BULGE_LENGTH(), core::chemical::rings::q, and core::chemical::rna::rna_nts().

Referenced by BasePairStepLibrary().

void protocols::farna::libraries::BasePairStepLibrary::initialize_data	(	BasePairStepSequence const &	base_pair_step_sequence,
		bool const	load_in_poses = `true`
	)		const

private

References database_dir(), protocols::stepwise::modeler::rna::file_exists(), has_value(), mini_pose_list(), mini_pose_lists_, protocols::farna::libraries::BasePairStepSequence::num_bulge(), protocols::farna::process_input_file(), scratch_poses_, protocols::farna::libraries::BasePairStepSequence::subdir(), protocols::farna::libraries::BasePairStepSequence::tag(), core::pose::tag_from_pose(), and protocols::farna::TR().

Referenced by initialize(), mini_pose_list(), and scratch_pose().

utility::vector1< core::pose::MiniPoseOP > const & protocols::farna::libraries::BasePairStepLibrary::mini_pose_list ( BasePairStepSequence const & base_pair_step_sequence ) const

References has_value(), initialize_data(), and mini_pose_lists_.

Referenced by initialize_data(), and protocols::farna::libraries::RNA_ChunkLibrary::setup_base_pair_step_chunks().

pose::PoseCOP const & protocols::farna::libraries::BasePairStepLibrary::scratch_pose ( BasePairStepSequence const & base_pair_step_sequence ) const

References has_value(), initialize_data(), and scratch_poses_.

Referenced by protocols::farna::libraries::RNA_ChunkLibrary::setup_base_pair_step_chunks().