protocols::loops::loop_mover::perturb Namespace Reference

Classes
class	LoopMover_Perturb_CCD
class	LoopMover_Perturb_CCDCreator
	creator for the LoopMover_Perturb_CCDCreator class More...
class	LoopMover_Perturb_KIC
class	LoopMover_Perturb_KICCreator
	creator for the LoopMover_Perturb_KICCreator class More...
class	LoopMover_Perturb_QuickCCD
	LoopMover utilizing fragment insertion, ccd loop closure, and minimization. More...
class	LoopMover_Perturb_QuickCCD_Moves
class	LoopMover_Perturb_QuickCCD_MovesCreator
	creator for the LoopMover_Perturb_QuickCCD_MovesCreator class More...
class	LoopMover_Perturb_QuickCCDCreator
	creator for the LoopMover_Perturb_QuickCCDCreator class More...

Typedefs
typedef utility::pointer::shared_ptr< LoopMover_Perturb_CCD >	LoopMover_Perturb_CCDOP
typedef utility::pointer::shared_ptr< LoopMover_Perturb_CCD const >	LoopMover_Perturb_CCDCOP
typedef utility::pointer::shared_ptr< LoopMover_Perturb_KIC >	LoopMover_Perturb_KICOP
typedef utility::pointer::shared_ptr< LoopMover_Perturb_KIC const >	LoopMover_Perturb_KICCOP
typedef utility::pointer::shared_ptr< LoopMover_Perturb_QuickCCD >	LoopMover_Perturb_QuickCCDOP
typedef utility::pointer::shared_ptr< LoopMover_Perturb_QuickCCD const >	LoopMover_Perturb_QuickCCDCOP
typedef utility::pointer::shared_ptr< LoopMover_Perturb_QuickCCD_Moves >	LoopMover_Perturb_QuickCCD_MovesOP
typedef utility::pointer::shared_ptr< LoopMover_Perturb_QuickCCD_Moves const >	LoopMover_Perturb_QuickCCD_MovesCOP

Functions
static basic::Tracer	TR ("protocols.loops.loop_mover.perturb.LoopMover_Perturb_CCD")
std::ostream &	operator<< (std::ostream &os, LoopMover_Perturb_CCD const &mover)
static basic::Tracer	TR ("protocols.loops.loop_mover.perturb.LoopMover_Perturb_KIC")
std::ostream &	operator<< (std::ostream &os, LoopMover_Perturb_KIC const &mover)
static basic::Tracer	TR ("protocols.loops.loop_mover.perturb.LoopMover_Perturb_QuickCCD")
void	fast_ccd_close_loops (core::pose::Pose &pose, Loop const &loop, kinematics::MoveMap &mm)
static basic::Tracer	TR ("protocols.loops.loop_mover.perturb.LoopMover_Perturb_QuickCCD_Moves")

Typedef Documentation

LoopMover_Perturb_CCDCOP

typedef utility::pointer::shared_ptr< LoopMover_Perturb_CCD const > protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCDCOP

LoopMover_Perturb_CCDOP

typedef utility::pointer::shared_ptr< LoopMover_Perturb_CCD > protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCDOP

LoopMover_Perturb_KICCOP

typedef utility::pointer::shared_ptr< LoopMover_Perturb_KIC const > protocols::loops::loop_mover::perturb::LoopMover_Perturb_KICCOP

LoopMover_Perturb_KICOP

typedef utility::pointer::shared_ptr< LoopMover_Perturb_KIC > protocols::loops::loop_mover::perturb::LoopMover_Perturb_KICOP

LoopMover_Perturb_QuickCCD_MovesCOP

typedef utility::pointer::shared_ptr< LoopMover_Perturb_QuickCCD_Moves const > protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD_MovesCOP

LoopMover_Perturb_QuickCCD_MovesOP

typedef utility::pointer::shared_ptr< LoopMover_Perturb_QuickCCD_Moves > protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD_MovesOP

LoopMover_Perturb_QuickCCDCOP

typedef utility::pointer::shared_ptr< LoopMover_Perturb_QuickCCD const > protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCDCOP

LoopMover_Perturb_QuickCCDOP

typedef utility::pointer::shared_ptr< LoopMover_Perturb_QuickCCD > protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCDOP

Function Documentation

fast_ccd_close_loops()

void protocols::loops::loop_mover::perturb::fast_ccd_close_loops	(	core::pose::Pose &	pose,
		Loop const &	loop,
		kinematics::MoveMap &	mm
	)

CCD close the loop [loop_begin,loop_end]. Wraps protocols::loops::loop_closure::ccd::CCDLoopClosureMover.apply() using most of its default options. rama scores are not checked, however, and the secondary structure is "fixed" afterward.

Remarks

This is a misnomer; it actually closes a single loop only. ~Labonte

References protocols::loops::loop_closure::ccd::CCDLoopClosureMover::apply(), protocols::loops::loop_closure::ccd::CCDLoopClosureMover::check_rama_scores(), core::pose::Pose::conformation(), core::conformation::Conformation::secstruct(), core::pose::Pose::set_secstruct(), protocols::loops::Loop::start(), and protocols::loops::Loop::stop().

Referenced by protocols::seeded_abinitio::CloseFold::fast_loopclose(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD::model_loop(), and protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD_Moves::model_loop().

operator<<() [1/2]

std::ostream & protocols::loops::loop_mover::perturb::operator<<	(	std::ostream &	os,
		LoopMover_Perturb_CCD const &	mover
	)

References protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCD::show().

operator<<() [2/2]

std::ostream & protocols::loops::loop_mover::perturb::operator<<	(	std::ostream &	os,
		LoopMover_Perturb_KIC const &	mover
	)

References protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC::show().

TR() [1/4]

static basic::Tracer protocols::loops::loop_mover::perturb::TR ( "protocols.loops.loop_mover.perturb.LoopMover_Perturb_CCD"  )

static

Referenced by protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCD::tr(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC::tr(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD::tr(), and protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD_Moves::tr().

TR() [2/4]

static basic::Tracer protocols::loops::loop_mover::perturb::TR ( "protocols.loops.loop_mover.perturb.LoopMover_Perturb_KIC"  )

static

TR() [3/4]

static basic::Tracer protocols::loops::loop_mover::perturb::TR ( "protocols.loops.loop_mover.perturb.LoopMover_Perturb_QuickCCD"  )

static

TR() [4/4]

static basic::Tracer protocols::loops::loop_mover::perturb::TR ( "protocols.loops.loop_mover.perturb.LoopMover_Perturb_QuickCCD_Moves"  )

static