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protocols::frag_picker::scores::ProfileScore Class Reference

a fragment candidate More...

#include <ProfileScore.hh>

Inheritance diagram for protocols::frag_picker::scores::ProfileScore:
Inheritance graph
Collaboration diagram for protocols::frag_picker::scores::ProfileScore:
Collaboration graph

Public Member Functions

 ProfileScore (Size priority, Real lowest_acceptable_value, bool use_lowest, sequence::SequenceProfileOP query_profile, sequence::ScoringSchemeOP profile_scoring, Size longest_vall_chunk)
 ~ProfileScore ()
void do_caching (VallChunkOP)
void clean_up ()
bool cached_score (FragmentCandidateOP, FragmentScoreMapOP)
bool describe_score (FragmentCandidateOP f, FragmentScoreMapOP empty_map, std::ostream &out)
- Public Member Functions inherited from protocols::frag_picker::scores::CachingScoringMethod
 CachingScoringMethod (Size priority, Real lowest_acceptable_value, bool use_lowest, std::string name)
virtual bool score (FragmentCandidateOP fragment, FragmentScoreMapOP scores)
- 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...

Protected Attributes

Matrix scores_

Private Member Functions

void clear ()

Private Attributes

sequence::SequenceProfileOP query_profile_
sequence::ScoringSchemeOP profile_scoring_
std::string cached_scores_id_

Detailed Description

a fragment candidate

Constructor & Destructor Documentation

protocols::frag_picker::scores::ProfileScore::ProfileScore ( Size  priority,
Real  lowest_acceptable_value,
bool  use_lowest,
sequence::SequenceProfileOP  query_profile,
sequence::ScoringSchemeOP  profile_scoring,
Size  longest_vall_chunk 
protocols::frag_picker::scores::ProfileScore::~ProfileScore ( )

Member Function Documentation

bool protocols::frag_picker::scores::ProfileScore::cached_score ( FragmentCandidateOP  f,
FragmentScoreMapOP  empty_map 
void protocols::frag_picker::scores::ProfileScore::clean_up ( )
void protocols::frag_picker::scores::ProfileScore::clear ( )
bool protocols::frag_picker::scores::ProfileScore::describe_score ( FragmentCandidateOP  f,
FragmentScoreMapOP  empty_map,
std::ostream &  out 
void protocols::frag_picker::scores::ProfileScore::do_caching ( VallChunkOP  chunk)

Member Data Documentation

std::string protocols::frag_picker::scores::ProfileScore::cached_scores_id_
sequence::ScoringSchemeOP protocols::frag_picker::scores::ProfileScore::profile_scoring_

Referenced by ProfileScore().

sequence::SequenceProfileOP protocols::frag_picker::scores::ProfileScore::query_profile_

Referenced by ProfileScore().

Matrix protocols::frag_picker::scores::ProfileScore::scores_

Referenced by ProfileScore().

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