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

scores a fragment by the root mean square deviation of Phi and Psi angles. More...

#include <PhiPsiSquareWell.hh>

Public Member Functions

 PhiPsiSquareWell (Size, Real, bool, PhiPsiTalosIO &)
 creates a Phi-Psi-based scoring function. More...
 
 PhiPsiSquareWell (Size, Real, bool, core::pose::PoseOP)
 
void do_caching (VallChunkOP)
 
void clean_up ()
 
bool cached_score (FragmentCandidateOP, FragmentScoreMapOP)
 
bool 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)
 
- 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...
 

Private Attributes

std::string cached_scores_id_
 
ObjexxFCL::FArray1D_double chunk_phi_
 
ObjexxFCL::FArray1D_double chunk_psi_
 
ObjexxFCL::FArray1D_double query_phi_
 
ObjexxFCL::FArray1D_double query_psi_
 
ObjexxFCL::FArray1D_double query_d_phi_
 
ObjexxFCL::FArray1D_double query_d_psi_
 
ObjexxFCL::FArray1D_double query_dist_
 
ObjexxFCL::FArray1D_double query_s2_
 
utility::vector1< Sizequery_cnt_
 
utility::vector1< std::stringquery_class_
 
utility::vector1< boolexisting_data_
 

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

scores a fragment by the root mean square deviation of Phi and Psi angles.

Constructor & Destructor Documentation

protocols::frag_picker::scores::PhiPsiSquareWell::PhiPsiSquareWell ( Size  priority,
Real  lowest_acceptable_value,
bool  use_lowest,
PhiPsiTalosIO reader 
)
protocols::frag_picker::scores::PhiPsiSquareWell::PhiPsiSquareWell ( Size  priority,
Real  lowest_acceptable_value,
bool  use_lowest,
core::pose::PoseOP  reference_pose 
)

Member Function Documentation

bool protocols::frag_picker::scores::PhiPsiSquareWell::cached_score ( FragmentCandidateOP  fragment,
FragmentScoreMapOP  scores 
)
virtual
void protocols::frag_picker::scores::PhiPsiSquareWell::clean_up ( )
virtual
void protocols::frag_picker::scores::PhiPsiSquareWell::do_caching ( VallChunkOP  current_chunk)
virtual
bool protocols::frag_picker::scores::PhiPsiSquareWell::score ( FragmentCandidateOP  fragment,
FragmentScoreMapOP  scores 
)
virtual

Member Data Documentation

std::string protocols::frag_picker::scores::PhiPsiSquareWell::cached_scores_id_
private
ObjexxFCL::FArray1D_double protocols::frag_picker::scores::PhiPsiSquareWell::chunk_phi_
private

Referenced by do_caching().

ObjexxFCL::FArray1D_double protocols::frag_picker::scores::PhiPsiSquareWell::chunk_psi_
private

Referenced by do_caching().

utility::vector1<bool> protocols::frag_picker::scores::PhiPsiSquareWell::existing_data_
private

Referenced by PhiPsiSquareWell(), and score().

utility::vector1<std::string> protocols::frag_picker::scores::PhiPsiSquareWell::query_class_
private

Referenced by PhiPsiSquareWell().

utility::vector1<Size> protocols::frag_picker::scores::PhiPsiSquareWell::query_cnt_
private

Referenced by PhiPsiSquareWell().

ObjexxFCL::FArray1D_double protocols::frag_picker::scores::PhiPsiSquareWell::query_d_phi_
private

Referenced by PhiPsiSquareWell(), and score().

ObjexxFCL::FArray1D_double protocols::frag_picker::scores::PhiPsiSquareWell::query_d_psi_
private

Referenced by PhiPsiSquareWell(), and score().

ObjexxFCL::FArray1D_double protocols::frag_picker::scores::PhiPsiSquareWell::query_dist_
private

Referenced by PhiPsiSquareWell().

ObjexxFCL::FArray1D_double protocols::frag_picker::scores::PhiPsiSquareWell::query_phi_
private

Referenced by PhiPsiSquareWell(), and score().

ObjexxFCL::FArray1D_double protocols::frag_picker::scores::PhiPsiSquareWell::query_psi_
private

Referenced by PhiPsiSquareWell(), and score().

ObjexxFCL::FArray1D_double protocols::frag_picker::scores::PhiPsiSquareWell::query_s2_
private

Referenced by PhiPsiSquareWell().


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