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protocols::jumping::JumpSetup Class Reference

#include <JumpSetup.hh>

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

class  JumpDef
 

Public Types

typedef utility::vector1
< JumpDef >::const_iterator 
const_iterator
 
typedef utility::vector1
< JumpDef >::iterator 
iterator
 

Public Member Functions

std::string type_name () const override
 
 JumpSetup (core::Size total_residue)
 
void add_jump (JumpDef const &jd)
 
void add_jump (Interval const &jump, Interval const &cut_reg)
 
void add_jump (core::Size js, core::Size je, core::Size crs, core::Size cre)
 
core::Size size () const
 
const_iterator begin () const
 
const_iterator end () const
 
void clear ()
 
void read_file (std::string file)
 
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_jump_sample (JumpSample const &jump_sample)
 
core::Size total_residue () const
 
- 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

utility::vector1< JumpDefjumps_
 
core::Size total_residue_
 
JumpSample jump_sample_
 

Member Typedef Documentation

Constructor & Destructor Documentation

protocols::jumping::JumpSetup::JumpSetup ( core::Size  total_residue)
inline

Member Function Documentation

void protocols::jumping::JumpSetup::add_jump ( JumpDef const &  jd)
inline
void protocols::jumping::JumpSetup::add_jump ( Interval const &  jump,
Interval const &  cut_reg 
)
inline

References add_jump(), and jump_sample_.

void protocols::jumping::JumpSetup::add_jump ( core::Size  js,
core::Size  je,
core::Size  crs,
core::Size  cre 
)
inline

References add_jump(), and jump_sample_.

const_iterator protocols::jumping::JumpSetup::begin ( ) const
inline
JumpSample protocols::jumping::JumpSetup::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().

void protocols::jumping::JumpSetup::clear ( )
inline

References jumps_.

JumpSample protocols::jumping::JumpSetup::create_jump_sample ( ) const
inlineoverridevirtual
const_iterator protocols::jumping::JumpSetup::end ( ) const
inline
void protocols::jumping::JumpSetup::read_file ( std::string  file)
void protocols::jumping::JumpSetup::set_jump_sample ( JumpSample const &  jump_sample)
inline

References jump_sample_.

core::Size protocols::jumping::JumpSetup::size ( ) const
inline
core::Size protocols::jumping::JumpSetup::total_residue ( ) const
inline

References total_residue_.

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

Member Data Documentation

JumpSample protocols::jumping::JumpSetup::jump_sample_
private
utility::vector1< JumpDef > protocols::jumping::JumpSetup::jumps_
private

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

core::Size protocols::jumping::JumpSetup::total_residue_
private

Referenced by total_residue().


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