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::owning_ptr < LoopMover_Refine_Backrub >	LoopMover_Refine_BackrubOP
typedef utility::pointer::owning_ptr < LoopMover_Refine_Backrub const >	LoopMover_Refine_BackrubCOP
typedef utility::pointer::owning_ptr < LoopMover_Refine_CCD >	LoopMover_Refine_CCDOP
typedef utility::pointer::owning_ptr < LoopMover_Refine_CCD const >	LoopMover_Refine_CCDCOP
typedef utility::pointer::access_ptr < LoopMover_Refine_CCD >	LoopMover_Refine_CCDAP
typedef utility::pointer::access_ptr < LoopMover_Refine_CCD const >	LoopMover_Refine_CCDCAP
typedef utility::pointer::owning_ptr < LoopMover_Refine_KIC >	LoopMover_Refine_KICOP
typedef utility::pointer::owning_ptr < LoopMover_Refine_KIC const >	LoopMover_Refine_KICCOP
typedef utility::pointer::owning_ptr < LoopRefineInnerCycle >	LoopRefineInnerCycleOP
typedef utility::pointer::owning_ptr < LoopRefineInnerCycle const >	LoopRefineInnerCycleCOP
typedef utility::pointer::owning_ptr < LoopRefineInnerCycleContainer >	LoopRefineInnerCycleContainerOP
typedef utility::pointer::owning_ptr < LoopRefineInnerCycleContainer const >	LoopRefineInnerCycleContainerCOP
typedef utility::pointer::owning_ptr < RepackTrial >	RepackTrialOP
typedef utility::pointer::owning_ptr < RepackTrial const >	RepackTrialCOP
typedef utility::pointer::owning_ptr < ShearMinCCDTrial >	ShearMinCCDTrialOP
typedef utility::pointer::owning_ptr < ShearMinCCDTrial const >	ShearMinCCDTrialCOP
typedef utility::pointer::owning_ptr < SmallMinCCDTrial >	SmallMinCCDTrialOP
typedef utility::pointer::owning_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 numeric::random::RandomGenerator	RG (42678)
static basic::Tracer	TR ("protocols.loops..LoopMover_Refine_Backrub")
static numeric::random::RandomGenerator	RG (84846)
static basic::Tracer	TR ("protocols.loops.loop_mover.refine.LoopMover_Refine_CCD")
std::ostream &	operator<< (std::ostream &os, LoopMover_Refine_CCD const &mover)
static numeric::random::RandomGenerator	RG (84888)
static basic::Tracer	TR ("protocols.loops.loop_mover.refine.LoopMover_Refine_KIC")
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::owning_ptr< LoopMover_Refine_Backrub const > protocols::loops::loop_mover::refine::LoopMover_Refine_BackrubCOP

Definition at line 29 of file LoopMover_Backrub.fwd.hh.

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

Definition at line 26 of file LoopMover_Backrub.fwd.hh.

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

Definition at line 32 of file LoopMover_CCD.fwd.hh.

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

Definition at line 33 of file LoopMover_CCD.fwd.hh.

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

Definition at line 30 of file LoopMover_CCD.fwd.hh.

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

Definition at line 27 of file LoopMover_CCD.fwd.hh.

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

Definition at line 29 of file LoopMover_KIC.fwd.hh.

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

Definition at line 26 of file LoopMover_KIC.fwd.hh.

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

Definition at line 29 of file LoopRefineInnerCycleContainer.fwd.hh.

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

Definition at line 26 of file LoopRefineInnerCycleContainer.fwd.hh.

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

Definition at line 29 of file LoopRefineInnerCycle.fwd.hh.

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

Definition at line 26 of file LoopRefineInnerCycle.fwd.hh.

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

Definition at line 29 of file RepackTrial.fwd.hh.

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

Definition at line 26 of file RepackTrial.fwd.hh.

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

Definition at line 29 of file ShearMinCCDTrial.fwd.hh.

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

Definition at line 26 of file ShearMinCCDTrial.fwd.hh.

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

Definition at line 29 of file SmallMinCCDTrial.fwd.hh.

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

Definition at line 26 of file SmallMinCCDTrial.fwd.hh.

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

Definition at line 44 of file LoopRefineInnerCycleFactory.hh.

Function Documentation

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

Definition at line 190 of file RepackTrial.cc.

References protocols::loops::loop_mover::refine::RepackTrial::get_name().

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

Definition at line 192 of file LoopMover_CCD.cc.

References protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::get_loops(), protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::max_inner_cycles_, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::move_map(), protocols::moves::operator<<(), protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::outer_cycles_, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::repack_period_, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::set_fold_tree_from_loops_, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::temp_final_, and protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::temp_initial_.

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

Definition at line 207 of file ShearMinCCDTrial.cc.

References protocols::loops::loop_mover::refine::ShearMinCCDTrial::get_name().

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

Definition at line 220 of file LoopRefineInnerCycleContainer.cc.

References protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer::get_name(), and protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer::inner_cycle_list_.

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

Definition at line 251 of file LoopRefineInnerCycle.cc.

References protocols::loops::loop_mover::refine::LoopRefineInnerCycle::get_name().

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

Definition at line 276 of file SmallMinCCDTrial.cc.

References protocols::loops::loop_mover::refine::SmallMinCCDTrial::get_name().

static numeric::random::RandomGenerator protocols::loops::loop_mover::refine::RG ( 42678  )

static

Referenced by protocols::loops::loop_mover::refine::LoopMover_Refine_KIC::apply().

static numeric::random::RandomGenerator protocols::loops::loop_mover::refine::RG ( 84846  )

static

static numeric::random::RandomGenerator protocols::loops::loop_mover::refine::RG ( 84888  )

static

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.

Definition at line 92 of file LoopMover_CCD.cc.

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().