protocols::loops::loop_mover::refine Namespace Reference

Classes
class	LoopMover_Refine_Backrub
class	LoopMover_Refine_BackrubCreator
	creator for the LoopMover_Refine_BackrubCreator class More...
class	LoopMover_Refine_CCD
class	LoopMover_Refine_CCDCreator
	creator for the LoopMover_Refine_CCDCreator class More...
class	LoopMover_Refine_KIC
class	LoopMover_Refine_KICCreator
	creator for the LoopMover_Perturb_KICCreator class More...
class	LoopRefineInnerCycle
class	LoopRefineInnerCycleContainer
class	LoopRefineInnerCycleContainerCreator
	creator for the LoopRefineInnerCycleContainer class More...
class	LoopRefineInnerCycleFactory
	Create LoopMover Reporters. More...
class	RepackTrial
class	RepackTrialCreator
	creator for the RepackTrial class More...
class	ShearMinCCDTrial
class	ShearMinCCDTrialCreator
	creator for the ShearMinCCDTrial class More...
class	SmallMinCCDTrial
class	SmallMinCCDTrialCreator
	creator for the SmallMinCCDTrial class More...

Typedefs
typedef utility::pointer::shared_ptr < LoopMover_Refine_Backrub >	LoopMover_Refine_BackrubOP
typedef utility::pointer::shared_ptr < LoopMover_Refine_Backrub const >	LoopMover_Refine_BackrubCOP
typedef utility::pointer::shared_ptr < LoopMover_Refine_CCD >	LoopMover_Refine_CCDOP
typedef utility::pointer::shared_ptr < LoopMover_Refine_CCD const >	LoopMover_Refine_CCDCOP
typedef utility::pointer::weak_ptr < LoopMover_Refine_CCD >	LoopMover_Refine_CCDAP
typedef utility::pointer::weak_ptr < LoopMover_Refine_CCD const >	LoopMover_Refine_CCDCAP
typedef utility::pointer::shared_ptr < LoopMover_Refine_KIC >	LoopMover_Refine_KICOP
typedef utility::pointer::shared_ptr < LoopMover_Refine_KIC const >	LoopMover_Refine_KICCOP
typedef utility::pointer::shared_ptr < LoopRefineInnerCycle >	LoopRefineInnerCycleOP
typedef utility::pointer::shared_ptr < LoopRefineInnerCycle const >	LoopRefineInnerCycleCOP
typedef utility::pointer::shared_ptr < LoopRefineInnerCycleContainer >	LoopRefineInnerCycleContainerOP
typedef utility::pointer::shared_ptr < LoopRefineInnerCycleContainer const >	LoopRefineInnerCycleContainerCOP
typedef utility::pointer::shared_ptr < RepackTrial >	RepackTrialOP
typedef utility::pointer::shared_ptr < RepackTrial const >	RepackTrialCOP
typedef utility::pointer::shared_ptr < ShearMinCCDTrial >	ShearMinCCDTrialOP
typedef utility::pointer::shared_ptr < ShearMinCCDTrial const >	ShearMinCCDTrialCOP
typedef utility::pointer::shared_ptr < SmallMinCCDTrial >	SmallMinCCDTrialOP
typedef utility::pointer::shared_ptr < SmallMinCCDTrial const >	SmallMinCCDTrialCOP

Enumerations
enum	LoopRefineInnerCycleName {   IC_SmallMinCCDTrial = 1, IC_ShearMinCCDTrial, IC_RepackTrial, IC_RefineCCDStandard,   number_of_loop_refine_inner_cycle_names = IC_RefineCCDStandard }

Functions
static basic::Tracer	TR ("protocols.loops..LoopMover_Refine_Backrub")
static basic::Tracer	TR ("protocols.loops.loop_mover.refine.LoopMover_Refine_CCD")
std::ostream &	operator<< (std::ostream &os, LoopMover_Refine_CCD const &mover)
static basic::Tracer	TR ("protocols.loops.loop_mover.refine.LoopMover_Refine_KIC")
std::ostream &	operator<< (std::ostream &os, LoopMover_Refine_KIC const &mover)
std::ostream &	operator<< (std::ostream &out, LoopRefineInnerCycle const &loop_refine_inner_cycle)
std::ostream &	operator<< (std::ostream &out, LoopRefineInnerCycleContainer const &loop_refine_inner_cycle_container)
static basic::Tracer	TR ("protocols.loops.loop_mover.refine.LoopRefineInnerCycleFactory")
std::ostream &	operator<< (std::ostream &out, RepackTrial const &repack_trial)
std::ostream &	operator<< (std::ostream &out, ShearMinCCDTrial const &loop_refine_shear_CCD_min_trial_inner_cycle)
std::ostream &	operator<< (std::ostream &out, SmallMinCCDTrial const &small_min_ccd_trial)

Variables
Real const	CHAINBREAK_SCORE_RAMP_FACTOR = 10./3.

Typedef Documentation

typedef utility::pointer::shared_ptr< LoopMover_Refine_Backrub const > protocols::loops::loop_mover::refine::LoopMover_Refine_BackrubCOP

typedef utility::pointer::shared_ptr< LoopMover_Refine_Backrub > protocols::loops::loop_mover::refine::LoopMover_Refine_BackrubOP

typedef utility::pointer::weak_ptr< LoopMover_Refine_CCD > protocols::loops::loop_mover::refine::LoopMover_Refine_CCDAP

typedef utility::pointer::weak_ptr< LoopMover_Refine_CCD const > protocols::loops::loop_mover::refine::LoopMover_Refine_CCDCAP

typedef utility::pointer::shared_ptr< LoopMover_Refine_CCD const > protocols::loops::loop_mover::refine::LoopMover_Refine_CCDCOP

typedef utility::pointer::shared_ptr< LoopMover_Refine_CCD > protocols::loops::loop_mover::refine::LoopMover_Refine_CCDOP

typedef utility::pointer::shared_ptr< LoopMover_Refine_KIC const > protocols::loops::loop_mover::refine::LoopMover_Refine_KICCOP

typedef utility::pointer::shared_ptr< LoopMover_Refine_KIC > protocols::loops::loop_mover::refine::LoopMover_Refine_KICOP

typedef utility::pointer::shared_ptr< LoopRefineInnerCycleContainer const > protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainerCOP

typedef utility::pointer::shared_ptr< LoopRefineInnerCycleContainer > protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainerOP

typedef utility::pointer::shared_ptr< LoopRefineInnerCycle const > protocols::loops::loop_mover::refine::LoopRefineInnerCycleCOP

typedef utility::pointer::shared_ptr< LoopRefineInnerCycle > protocols::loops::loop_mover::refine::LoopRefineInnerCycleOP

typedef utility::pointer::shared_ptr< RepackTrial const > protocols::loops::loop_mover::refine::RepackTrialCOP

typedef utility::pointer::shared_ptr< RepackTrial > protocols::loops::loop_mover::refine::RepackTrialOP

typedef utility::pointer::shared_ptr< ShearMinCCDTrial const > protocols::loops::loop_mover::refine::ShearMinCCDTrialCOP

typedef utility::pointer::shared_ptr< ShearMinCCDTrial > protocols::loops::loop_mover::refine::ShearMinCCDTrialOP

typedef utility::pointer::shared_ptr< SmallMinCCDTrial const > protocols::loops::loop_mover::refine::SmallMinCCDTrialCOP

typedef utility::pointer::shared_ptr< SmallMinCCDTrial > protocols::loops::loop_mover::refine::SmallMinCCDTrialOP

Enumeration Type Documentation

enum protocols::loops::loop_mover::refine::LoopRefineInnerCycleName

Enumerator
IC_SmallMinCCDTrial
IC_ShearMinCCDTrial
IC_RepackTrial
IC_RefineCCDStandard
number_of_loop_refine_inner_cycle_names

Function Documentation

std::ostream& protocols::loops::loop_mover::refine::operator<<	(	std::ostream &	out,
		RepackTrial const &	repack_trial
	)

References protocols::loops::loop_mover::refine::RepackTrial::get_name(), and core::conformation::membrane::out.

std::ostream & protocols::loops::loop_mover::refine::operator<<	(	std::ostream &	os,
		LoopMover_Refine_CCD const &	mover
	)

References protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::show().

std::ostream& protocols::loops::loop_mover::refine::operator<<	(	std::ostream &	out,
		ShearMinCCDTrial const &	loop_refine_shear_CCD_min_trial_inner_cycle
	)

References protocols::loops::loop_mover::refine::ShearMinCCDTrial::get_name(), and core::conformation::membrane::out.

std::ostream& protocols::loops::loop_mover::refine::operator<<	(	std::ostream &	out,
		LoopRefineInnerCycleContainer const &	loop_refine_inner_cycle_container
	)

References protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer::get_name(), protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer::inner_cycle_list_, and core::conformation::membrane::out.

std::ostream& protocols::loops::loop_mover::refine::operator<<	(	std::ostream &	out,
		LoopRefineInnerCycle const &	loop_refine_inner_cycle
	)

References protocols::loops::loop_mover::refine::LoopRefineInnerCycle::get_name(), and core::conformation::membrane::out.

std::ostream& protocols::loops::loop_mover::refine::operator<<	(	std::ostream &	out,
		SmallMinCCDTrial const &	small_min_ccd_trial
	)

References protocols::loops::loop_mover::refine::SmallMinCCDTrial::get_name(), and core::conformation::membrane::out.

std::ostream & protocols::loops::loop_mover::refine::operator<<	(	std::ostream &	os,
		LoopMover_Refine_KIC const &	mover
	)

References protocols::loops::loop_mover::refine::LoopMover_Refine_KIC::show().

static basic::Tracer protocols::loops::loop_mover::refine::TR ( "protocols.loops.loop_mover.refine.LoopRefineInnerCycleFactory"  )

static

static basic::Tracer protocols::loops::loop_mover::refine::TR ( "protocols.loops..LoopMover_Refine_Backrub"  )

static

Referenced by protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_five(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_four(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_one(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_three(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_two(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_zero(), protocols::loops::loop_mover::refine::LoopRefineInnerCycleFactory::make_inner_cycle_from_string_name(), protocols::loops::loop_mover::refine::LoopRefineInnerCycle::setup_objects(), protocols::loops::loop_mover::refine::LoopMover_Refine_Backrub::tr(), protocols::loops::loop_mover::refine::LoopMover_Refine_KIC::tr(), and protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::tr().

static basic::Tracer protocols::loops::loop_mover::refine::TR ( "protocols.loops.loop_mover.refine.LoopMover_Refine_CCD"  )

static

static basic::Tracer protocols::loops::loop_mover::refine::TR ( "protocols.loops.loop_mover.refine.LoopMover_Refine_KIC"  )

static

Variable Documentation

Real const protocols::loops::loop_mover::refine::CHAINBREAK_SCORE_RAMP_FACTOR = 10./3.

Referenced by protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::apply(), and protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::increase_chainbreak_weight_and_update_monte_carlo().