protocols::jumping::JumpSetup Class Reference

#include <JumpSetup.hh>

Inheritance diagram for protocols::jumping::JumpSetup:

Collaboration diagram for protocols::jumping::JumpSetup:

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
	JumpSetup (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
JumpSample	clean_jumps (JumpSample const &js) const
	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
virtual	~BaseJumpSetup ()
	Automatically generated virtual destructor for class deriving directly from ReferenceCount. 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< JumpDef >	jumps_
core::Size	total_residue_
JumpSample	jump_sample_

Detailed Description

Definition at line 111 of file JumpSetup.hh.

Member Typedef Documentation

typedef utility::vector1< JumpDef >::const_iterator protocols::jumping::JumpSetup::const_iterator

Definition at line 127 of file JumpSetup.hh.

typedef utility::vector1< JumpDef >::iterator protocols::jumping::JumpSetup::iterator

Definition at line 128 of file JumpSetup.hh.

Constructor & Destructor Documentation

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

inline

Definition at line 131 of file JumpSetup.hh.

Member Function Documentation

void protocols::jumping::JumpSetup::add_jump ( JumpDef const &  jd)

inline

Definition at line 137 of file JumpSetup.hh.

References jump_sample_, and jumps_.

Referenced by add_jump(), and protocols::jumping::JumpSelector::create_jump_sample().

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

inline

Definition at line 143 of file JumpSetup.hh.

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

Definition at line 149 of file JumpSetup.hh.

References add_jump(), and jump_sample_.

const_iterator protocols::jumping::JumpSetup::begin ( ) const

inline

Definition at line 160 of file JumpSetup.hh.

References jumps_.

Referenced by protocols::jumping::JumpSample::JumpSample().

JumpSample protocols::jumping::JumpSetup::clean_jumps ( JumpSample const &  ) const

inlinevirtual

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

Implements protocols::jumping::BaseJumpSetup.

Definition at line 180 of file JumpSetup.hh.

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

inline

Definition at line 169 of file JumpSetup.hh.

References jumps_.

JumpSample protocols::jumping::JumpSetup::create_jump_sample ( ) const

inlinevirtual

Implements protocols::jumping::BaseJumpSetup.

Definition at line 176 of file JumpSetup.hh.

References jump_sample_.

const_iterator protocols::jumping::JumpSetup::end ( ) const

inline

Definition at line 165 of file JumpSetup.hh.

References jumps_.

Referenced by protocols::jumping::JumpSample::JumpSample().

void protocols::jumping::JumpSetup::read_file

(

std::string

file)

Definition at line 85 of file JumpSetup.cc.

References protocols::jumping::Interval::end_, protocols::jumping::Interval::start_, and protocols::jumping::tr().

void protocols::jumping::JumpSetup::set_jump_sample ( JumpSample const &  jump_sample)

inline

Definition at line 186 of file JumpSetup.hh.

References jump_sample_.

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

inline

Definition at line 155 of file JumpSetup.hh.

References jumps_.

Referenced by protocols::jumping::JumpSample::JumpSample().

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

inline

Definition at line 191 of file JumpSetup.hh.

References total_residue_.

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

inlinevirtual

Implements protocols::jumping::BaseJumpSetup.

Definition at line 122 of file JumpSetup.hh.

Member Data Documentation

JumpSample protocols::jumping::JumpSetup::jump_sample_

private

Definition at line 199 of file JumpSetup.hh.

Referenced by add_jump(), create_jump_sample(), and set_jump_sample().

utility::vector1< JumpDef > protocols::jumping::JumpSetup::jumps_

private

Definition at line 197 of file JumpSetup.hh.

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

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

private

Definition at line 198 of file JumpSetup.hh.

Referenced by total_residue().

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

• src/protocols/jumping/JumpSetup.hh
• src/protocols/jumping/JumpSetup.cc