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protocols::jumping::JumpSelector Class Reference

#include <JumpSetup.hh>

Inheritance diagram for protocols::jumping::JumpSelector:
Inheritance graph
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Classes

class  JumpWeightDef
 

Public Types

typedef utility::vector1
< JumpWeightDef
JumpList
 
typedef JumpList::const_iterator const_iterator
 
typedef JumpList::iterator iterator
 

Public Member Functions

std::string type_name () const override
 
 JumpSelector ()
 
 JumpSelector (std::string const &ss)
 
 ~JumpSelector () override
 
void add_jump (JumpWeightDef const &jd)
 
void add_jump (Interval const &jump, core::Real weight)
 
void add_jump (core::Size js, core::Size je, core::Real weight)
 
core::Size size () const
 
const_iterator begin () const
 
const_iterator end () const
 
void read_file (std::string file)
 
Interval select_random () const
 
JumpSample create_jump_sample () const override
 
JumpSample clean_jumps (JumpSample const &js) const override
 take from a given JumpSample only those Jumps, which could also have been created by create_jump_sample() More...
 
void set_secstruct (std::string ss)
 
- Public Member Functions inherited from protocols::jumping::BaseJumpSetup
 ~BaseJumpSetup () override
 Automatically generated virtual destructor for class deriving directly from VirtualBase. More...
 
virtual core::fragment::FragSetOP generate_jump_frags (JumpSample const &, core::kinematics::MoveMap const &mm) const
 returns an ordered FragSet that is compatible with the JumpSample default: generate jumps from ss-library according to JumpSample More...
 

Private Attributes

std::string secstruct_
 
core::pose::PoseCOP native_pose_
 
JumpList jumps_
 
core::Real total_weight_
 
core::Size min_loop_length_
 
core::Size loop_extension_
 
core::Size nr_jumps_min_
 
core::Size nr_jumps_max_
 

Member Typedef Documentation

typedef JumpList::const_iterator protocols::jumping::JumpSelector::const_iterator
typedef JumpList::iterator protocols::jumping::JumpSelector::iterator

Constructor & Destructor Documentation

protocols::jumping::JumpSelector::JumpSelector ( )
protocols::jumping::JumpSelector::JumpSelector ( std::string const &  ss)
protocols::jumping::JumpSelector::~JumpSelector ( )
overridedefault

Member Function Documentation

void protocols::jumping::JumpSelector::add_jump ( JumpWeightDef const &  jd)
inline
void protocols::jumping::JumpSelector::add_jump ( Interval const &  jump,
core::Real  weight 
)
inline

References add_jump().

void protocols::jumping::JumpSelector::add_jump ( core::Size  js,
core::Size  je,
core::Real  weight 
)
inline

References add_jump().

const_iterator protocols::jumping::JumpSelector::begin ( ) const
inline

References jumps_.

Referenced by select_random().

JumpSample protocols::jumping::JumpSelector::clean_jumps ( JumpSample const &  ) const
inlineoverridevirtual

take from a given JumpSample only those Jumps, which could also have been created by create_jump_sample()

Implements protocols::jumping::BaseJumpSetup.

References hh_tr().

JumpSample protocols::jumping::JumpSelector::create_jump_sample ( ) const
overridevirtual
const_iterator protocols::jumping::JumpSelector::end ( ) const
inline

References jumps_.

Referenced by select_random().

void protocols::jumping::JumpSelector::read_file ( std::string  file)
Interval protocols::jumping::JumpSelector::select_random ( ) const
void protocols::jumping::JumpSelector::set_secstruct ( std::string  ss)
inline

References secstruct_.

core::Size protocols::jumping::JumpSelector::size ( ) const
inline

References jumps_.

std::string protocols::jumping::JumpSelector::type_name ( ) const
inlineoverridevirtual

Member Data Documentation

JumpList protocols::jumping::JumpSelector::jumps_
private

Referenced by add_jump(), begin(), end(), and size().

core::Size protocols::jumping::JumpSelector::loop_extension_
private

Referenced by create_jump_sample(), and read_file().

core::Size protocols::jumping::JumpSelector::min_loop_length_
private

Referenced by create_jump_sample(), and read_file().

core::pose::PoseCOP protocols::jumping::JumpSelector::native_pose_
private
core::Size protocols::jumping::JumpSelector::nr_jumps_max_
private

Referenced by create_jump_sample(), and read_file().

core::Size protocols::jumping::JumpSelector::nr_jumps_min_
private

Referenced by create_jump_sample(), and read_file().

std::string protocols::jumping::JumpSelector::secstruct_
private
core::Real protocols::jumping::JumpSelector::total_weight_
private

Referenced by add_jump(), and select_random().


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