Rosetta Protocols  2014.35
Public Member Functions | Protected Attributes | Private Member Functions | Private Attributes | List of all members
protocols::frag_picker::scores::ProfileScoreDistWeight Class Reference

a fragment candidate More...

#include <ProfileScoreDistWeight.hh>

Public Member Functions

 ProfileScoreDistWeight (Size priority, Real lowest_acceptable_value, bool use_lowest, sequence::SequenceProfileOP query_profile, core::fragment::SecondaryStructureOP query_ss_prediction, std::string query_sequence, Size longest_vall_chunk)
 
void do_caching (VallChunkOP)
 
void clean_up ()
 
bool cached_score (FragmentCandidateOP, FragmentScoreMapOP)
 
- 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::stringget_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_
 
- Protected Attributes inherited from protocols::frag_picker::scores::FragmentScoringMethod
Size id_
 
Size priority_
 
std::string name_
 
Real lowest_acceptable_value_
 
bool use_lowest_
 

Private Member Functions

void clear ()
 

Private Attributes

utility::vector1
< utility::vector1
< utility::vector1< Real > > > 
distance_weights_
 
std::string query_sequence_
 
std::map< char, Sizess_type_map_
 
std::map< char, Sizeaa_order_map_
 
sequence::SequenceProfileOP query_profile_
 
core::fragment::SecondaryStructureOP query_ss_
 
std::string cached_scores_id_
 

Detailed Description

a fragment candidate

Constructor & Destructor Documentation

protocols::frag_picker::scores::ProfileScoreDistWeight::ProfileScoreDistWeight ( Size  priority,
Real  lowest_acceptable_value,
bool  use_lowest,
sequence::SequenceProfileOP  query_profile,
core::fragment::SecondaryStructureOP  query_ss_prediction,
std::string  query_sequence,
Size  longest_vall_chunk 
)
inline

Member Function Documentation

bool protocols::frag_picker::scores::ProfileScoreDistWeight::cached_score ( FragmentCandidateOP  f,
FragmentScoreMapOP  empty_map 
)
virtual
void protocols::frag_picker::scores::ProfileScoreDistWeight::clean_up ( )
inlinevirtual
void protocols::frag_picker::scores::ProfileScoreDistWeight::clear ( )
private
void protocols::frag_picker::scores::ProfileScoreDistWeight::do_caching ( VallChunkOP  chunk)
virtual

Member Data Documentation

std::map<char,Size> protocols::frag_picker::scores::ProfileScoreDistWeight::aa_order_map_
private

Referenced by ProfileScoreDistWeight().

std::string protocols::frag_picker::scores::ProfileScoreDistWeight::cached_scores_id_
private
utility::vector1< utility::vector1< utility::vector1 <Real> > > protocols::frag_picker::scores::ProfileScoreDistWeight::distance_weights_
private

Referenced by ProfileScoreDistWeight().

sequence::SequenceProfileOP protocols::frag_picker::scores::ProfileScoreDistWeight::query_profile_
private

Referenced by ProfileScoreDistWeight().

std::string protocols::frag_picker::scores::ProfileScoreDistWeight::query_sequence_
private

Referenced by ProfileScoreDistWeight().

core::fragment::SecondaryStructureOP protocols::frag_picker::scores::ProfileScoreDistWeight::query_ss_
private

Referenced by ProfileScoreDistWeight().

Matrix protocols::frag_picker::scores::ProfileScoreDistWeight::scores_
protected

Referenced by ProfileScoreDistWeight().

std::map<char,Size> protocols::frag_picker::scores::ProfileScoreDistWeight::ss_type_map_
private

Referenced by ProfileScoreDistWeight().


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