RamaScore score counts identical residues. More...

#include <RamaScore.hh>

Inheritance diagram for protocols::frag_picker::scores::RamaScore:

Collaboration diagram for protocols::frag_picker::scores::RamaScore:

Public Member Functions
	RamaScore (Size, Real, bool, std::string &, std::string)

	RamaScore (Size, Real, bool, std::string &, core::fragment::SecondaryStructureOP, std::string)

void	SetupRamaTables ()

void	do_caching (VallChunkOP)

void	clean_up ()

bool	score (FragmentCandidateOP f, FragmentScoreMapOP empty_map)

bool	cached_score (FragmentCandidateOP f, FragmentScoreMapOP empty_map)

bool	describe_score (FragmentCandidateOP f, FragmentScoreMapOP empty_map, std::ostream &out)
	prints a detailed explanation how a fragment score has been computed More...

std::string &	get_prediction_name ()

Public Member Functions inherited from protocols::frag_picker::scores::CachingScoringMethod
	CachingScoringMethod (Size priority, Real lowest_acceptable_value, bool use_lowest, std::string name)

Public Member Functions inherited from protocols::frag_picker::scores::FragmentScoringMethod
	FragmentScoringMethod (Size priority, Real lowest_acceptable_value, bool use_lowest, std::string name)

std::string &	get_score_name ()
	Returns a name of this scoring method. More...

Size	get_id ()
	Returns an integer index assigned to this scoring method by a scoring manager. More...

void	set_id (Size id)
	Sets a new integer index for this scoring method. More...

Size	get_priority ()
	Returns a priority of this scoring method. More...

Real	get_min_allowed_score ()
	Returns the lowest acceptable score value for this scoring method. More...

bool	get_use_lowest ()
	Returns the boolean choice on using the above lowest acceptable score value. More...

void	set_min_allowed_score (Real lowest_acceptable_value)
	Sets a new value of the lowest acceptable score. More...

Private Attributes
Real	minScoreAllowed_

std::string &	query_

core::fragment::SecondaryStructureOP	query_ss_

std::string	prediction_name_

std::string	cached_scores_id_

utility::vector1 < utility::vector1< Real > >	scores_

Static Private Attributes
static utility::vector1 < utility::vector1 < utility::vector1< Real > > >	sequence_rama_tables_

Additional Inherited Members
Protected Attributes inherited from protocols::frag_picker::scores::FragmentScoringMethod
Size	id_

Size	priority_

std::string	name_

Real	lowest_acceptable_value_

bool	use_lowest_

Detailed Description

RamaScore score counts identical residues.

Detailed: Resulting score is the number of identical residues: on corresponding positions in a vall fragment and a query sequence

Definition at line 41 of file RamaScore.hh.

Constructor & Destructor Documentation

protocols::frag_picker::scores::RamaScore::RamaScore	(	Size	priority,
		Real	lowest_acceptable_value,
		bool	use_lowest,
		std::string &	fastaQuery,
		std::string	prediction_name
	)

Definition at line 43 of file RamaScore.cc.

References query_, query_ss_, and SetupRamaTables().

protocols::frag_picker::scores::RamaScore::RamaScore	(	Size	priority,
		Real	lowest_acceptable_value,
		bool	use_lowest,
		std::string &	fastaQuery,
		core::fragment::SecondaryStructureOP	query_prediction,
		std::string	prediction_name
	)