protocols::moves Namespace Reference

Classes
class	ChangeFoldTreeMover
class	CompositionMover
class	CycleMover
	CycleMover iterates through its vector of Movers one at a time over many calls to apply(). More...
class	CyclicMover
	A simple class for cycling between movers in consecutive calls to apply() More...
class	DsspMover
class	DsspMoverCreator
class	DualMonteCarlo
class	EXCN_Converged
class	FastLinearFunc
class	FilterMover
class	FilterReportAsPoseExtraScoresMover
	This Mover runs a Filter and dumps the report_sm value to Pose's extra scores (for later JD reporting) To do the same for all filters, use WriteFiltersToPose. More...
class	FilterReportAsPoseExtraScoresMoverCreator
class	FilterReporterMover
	A FilterMover that also calls report() on apply() More...
class	GeometricFunc
	Ramps rapidly from the starting value to the final value. Not 1 at x=1. Doesn't really finish at (1,1). func(x) = 1 - exp( -1 * x * inv_xval_at_0p5 * 0.6931 );. More...
class	IfMover
class	IfMoverCreator
class	InvGeometricFunc
	Ramps slowly from the starting value to the final value Non-zero for x = 0. Doesn't really start at (0,0). func(x) = exp( -1 * ( 1 - x ) / ( 1 - xval_at_0p5 ) * 0.6931 );. More...
class	IteratedConvergenceMover
	A mover that repeatedly applies a sub-mover (up to a given maximum) until the given filter returns values within a certain delta for a given number of cycles. More...
class	IteratedConvergenceMoverCreator
class	JumpOutMover
class	LinearFunc
class	MCShowMover
class	MonteCarlo
	This object is responsible for all of the major functions needed in a Monte Carlo simulation. Its main purpose is to apply the Metropolis Criterion on a pose, based on a ScoreFunction, temperature, and the previously accepted pose. It stores the lowest-energy pose ecountered, the last-accepted pose in the simulation, and various other statistics. More...
class	MonteCarloExceptionConverge
class	MonteCarloUtil
	the MCResetMover applies a monte carlo reset More...
class	MoveMapMover
class	Mover
class	MoverApplyingMover
class	MoverContainer
class	MoverCreator
	Abstract base class for a Mover factory; the Creator class is responsible for creating a particular mover class. More...
class	MoverFactory
class	MoverForPoseList
class	MoverRegistrator
	This templated class will register an instance of an MoverCreator (class T) with the MoverFactory. It will ensure that no MoverCreator is registered twice, and, centralizes this registration logic so that thread safety issues can be handled in one place. More...
class	MoverStatistics
class	NullMover
class	PDBDumpMover
class	PoseCondition
class	ProfilerMover
class	PyMOLMover
	Special Mover designed to send Pose information into PyMOL instance running. More...
class	PyMOLMoverCreator
class	PyMOLObserver
	Special Observer which apply PyMOLMover if Pose is changed. More...
class	RampingFunc
class	RampingMover
class	RampingMoverCreator
class	RandomMover
	RandomMover picks a random move and applies it. More...
class	RandomMoverCreator
class	RepeatMover
	A Mover that repeats an input Mover a user-specified number of times. More...
class	ReplicaExchangeMC
class	ResId
class	SequenceMover
	A Mover that iterates through a vector of Movers, applying each one sequentially. More...
class	SimulatedTempering
class	StructureRestrictor
class	SwitchMover
	SwitchMover can hold multiple movers and execute only the requested one. More...
class	SwitchMoverCreator
class	TrialCounter
class	TrialMover
	A TrialMover applies a Mover and then accepts or rejects the move according to a MonteCarlo object. More...
class	UDPSocketClient
	PyMOLMover helper class. Handle low level UDP transactions stuff. This is a port of original Python version of UDP socket client written writen for PyRosetta. More...
class	VectorPoseMover
	Designates a mover that can be passed multiple poses by the VectorPoseJobDistributor Any movers deriving from this subclass can then act on all of the input poses simultaneously Only accessible through recon application. More...
class	WhileMover

Typedefs
typedef utility::pointer::shared_ptr < ChangeFoldTreeMover >	ChangeFoldTreeMoverOP
typedef utility::pointer::shared_ptr < ChangeFoldTreeMover const >	ChangeFoldTreeMoverCOP
typedef utility::pointer::shared_ptr < CompositionMover >	CompositionMoverOP
typedef utility::pointer::shared_ptr < CompositionMover const >	CompositionMoverCOP
typedef utility::pointer::shared_ptr < CyclicMover >	CyclicMoverOP
typedef utility::pointer::shared_ptr < CyclicMover const >	CyclicMoverCOP
typedef utility::pointer::shared_ptr < DsspMover >	DsspMoverOP
typedef utility::pointer::shared_ptr < DualMonteCarlo >	DualMonteCarloOP
typedef utility::pointer::shared_ptr < DualMonteCarlo const >	DualMonteCarloCOP
typedef utility::pointer::shared_ptr < FilterMover >	FilterMoverOP
typedef utility::pointer::shared_ptr < FilterReportAsPoseExtraScoresMover >	FilterReportAsPoseExtraScoresMoverOP
typedef utility::pointer::shared_ptr < FilterReportAsPoseExtraScoresMover const >	FilterReportAsPoseExtraScoresMoverCOP
typedef utility::pointer::shared_ptr < FilterReporterMover >	FilterReporterMoverOP
typedef utility::pointer::shared_ptr < FilterReporterMover const >	FilterReporterMoverCOP
typedef utility::pointer::shared_ptr < IteratedConvergenceMover >	IteratedConvergenceMoverOP
typedef utility::pointer::shared_ptr < IteratedConvergenceMover const >	IteratedConvergenceMoverCOP
typedef utility::pointer::shared_ptr < JumpOutMover >	JumpOutMoverOP
typedef utility::pointer::shared_ptr < JumpOutMover const >	JumpOutMoverCOP
typedef utility::pointer::shared_ptr < MonteCarlo >	MonteCarloOP
typedef utility::pointer::shared_ptr < MonteCarlo const >	MonteCarloCOP
typedef utility::pointer::shared_ptr < MonteCarloExceptionConverge >	MonteCarloExceptionConvergeOP
typedef utility::pointer::shared_ptr < MonteCarloExceptionConverge const >	MonteCarloExceptionConvergeCOP
typedef utility::pointer::shared_ptr < MoveMapMover >	MoveMapMoverOP
typedef utility::pointer::shared_ptr < MoveMapMover const >	MoveMapMoverCOP
typedef utility::pointer::shared_ptr < Mover >	MoverOP
typedef utility::pointer::shared_ptr < Mover const >	MoverCOP
typedef utility::pointer::weak_ptr < Mover >	MoverAP
typedef utility::pointer::weak_ptr < Mover const >	MoverCAP
typedef std::map< std::string const, MoverOP >	Movers_map
typedef utility::pointer::shared_ptr < Movers_map >	Movers_mapOP
typedef utility::pointer::shared_ptr < Movers_map const >	Movers_mapCOP
typedef std::map< std::string, std::string >	MoverCache
typedef utility::pointer::shared_ptr < MoverCache >	MoverCacheOP
typedef utility::pointer::shared_ptr < MoverApplyingMover >	MoverApplyingMoverOP
typedef utility::pointer::shared_ptr < MoverApplyingMover const >	MoverApplyingMoverCOP
typedef utility::pointer::shared_ptr < MoverContainer >	MoverContainerOP
typedef utility::pointer::shared_ptr < MoverContainer const >	MoverContainerCOP
typedef utility::pointer::shared_ptr < SequenceMover >	SequenceMoverOP
typedef utility::pointer::shared_ptr < SequenceMover const >	SequenceMoverCOP
typedef utility::pointer::shared_ptr < RandomMover >	RandomMoverOP
typedef utility::pointer::shared_ptr < RandomMover const >	RandomMoverCOP
typedef utility::pointer::shared_ptr < CycleMover >	CycleMoverOP
typedef utility::pointer::shared_ptr < CycleMover const >	CycleMoverCOP
typedef utility::pointer::shared_ptr < SwitchMover >	SwitchMoverOP
typedef utility::pointer::shared_ptr < SwitchMover const >	SwitchMoverCOP
typedef utility::pointer::shared_ptr < MoverCreator >	MoverCreatorOP
typedef utility::pointer::shared_ptr < MoverCreator const >	MoverCreatorCOP
typedef utility::pointer::shared_ptr < MoverFactory >	MoverFactoryOP
typedef utility::pointer::shared_ptr < MoverFactory const >	MoverFactoryCOP
typedef utility::pointer::shared_ptr < MoverForPoseList >	MoverForPoseListOP
typedef utility::pointer::shared_ptr < MoverForPoseList const >	MoverForPoseListCOP
using	Real = core::Real
typedef utility::pointer::shared_ptr < NullMover >	NullMoverOP
typedef utility::pointer::shared_ptr < NullMover const >	NullMoverCOP
typedef utility::pointer::shared_ptr < PDBDumpMover >	PDBDumpMoverOP
typedef utility::pointer::shared_ptr < PDBDumpMover const >	PDBDumpMoverCOP
typedef utility::pointer::shared_ptr < ProfilerMover >	ProfilerMoverOP
typedef utility::pointer::shared_ptr < ProfilerMover const >	ProfilerMoverCOP
typedef utility::pointer::shared_ptr < MCShowMover >	MCShowMoverOP
typedef utility::pointer::shared_ptr < MCShowMover const >	MCShowMoverCOP
typedef utility::pointer::shared_ptr < PyMOLMover >	PyMOLMoverOP
typedef utility::pointer::shared_ptr < PyMOLMover const >	PyMOLMoverCOP
typedef utility::pointer::shared_ptr < PyMOLObserver >	PyMOLObserverOP
typedef utility::pointer::shared_ptr < PyMOLObserver const >	PyMOLObserverCOP
typedef utility::pointer::shared_ptr < RampingMover >	RampingMoverOP
typedef utility::pointer::shared_ptr < RampingMover const >	RampingMoverCOP
typedef utility::pointer::shared_ptr < RampingFunc >	RampingFuncOP
typedef utility::pointer::shared_ptr < RampingFunc const >	RampingFuncCOP
typedef utility::pointer::shared_ptr < RepeatMover >	RepeatMoverOP
typedef utility::pointer::shared_ptr < RepeatMover const >	RepeatMoverCOP
typedef utility::pointer::shared_ptr < ReplicaExchangeMC >	ReplicaExchangeMC_OP
typedef utility::pointer::shared_ptr < ReplicaExchangeMC const >	ReplicaExchangeMC_COP
typedef utility::pointer::shared_ptr < ResId >	ResIdOP
typedef utility::pointer::shared_ptr < ResId const >	ResIdCOP
typedef utility::pointer::shared_ptr < SimulatedTempering >	SimulatedTemperingOP
typedef utility::pointer::shared_ptr < StructureRestrictor >	StructureRestrictorOP
typedef utility::pointer::shared_ptr < StructureRestrictor const >	StructureRestrictorCOP
typedef utility::pointer::shared_ptr < TrialCounter >	TrialCounterOP
typedef utility::pointer::shared_ptr < TrialCounter const >	TrialCounterCOP
typedef utility::pointer::shared_ptr < TrialMover >	TrialMoverOP
typedef utility::pointer::shared_ptr < TrialMover const >	TrialMoverCOP
typedef utility::pointer::shared_ptr < VectorPoseMover >	VectorPoseMoverOP
typedef utility::pointer::shared_ptr < VectorPoseMover const >	VectorPoseMoverCOP
typedef utility::pointer::shared_ptr < WhileMover >	WhileMoverOP
typedef utility::pointer::shared_ptr < WhileMover const >	WhileMoverCOP
typedef utility::pointer::shared_ptr < PoseCondition >	PoseConditionOP
typedef utility::pointer::shared_ptr < PoseCondition const >	PoseConditionCOP

Enumerations
enum	MCA { MCA_accepted_score_beat_low =3, MCA_accepted_score_beat_last =2, MCA_accepted_thermally =1, MCA_rejected =0 }
enum	MoverStatus {   MS_SUCCESS = 0, FAIL_RETRY, FAIL_DO_NOT_RETRY, FAIL_BAD_INPUT,   FAIL, MS_FAIL_RETRY = FAIL_RETRY, MS_FAIL_DO_NOT_RETRY = FAIL_DO_NOT_RETRY, MS_FAIL_BAD_INPUT = FAIL_BAD_INPUT,   MS_FAIL = FAIL }
	return status for movers - mover was successful, failed but can be retried, etc; used mostly by job dist. More...
enum	X11Colors {   XC_first_color = 0, XC_black = XC_first_color, XC_AntiqueWhite = 1, XC_BlanchedAlmond = 2,   XC_BlueViolet = 3, XC_CadetBlue = 4, XC_CornflowerBlue = 5, XC_DarkBlue = 6,   XC_DarkCyan = 7, XC_DarkGoldenrod = 8, XC_DarkGray = 9, XC_DarkGreen = 10,   XC_DarkGrey = 11, XC_DarkKhaki = 12, XC_DarkMagenta = 13, XC_DarkOliveGreen = 14,   XC_DarkOrange = 15, XC_DarkOrchid = 16, XC_DarkRed = 17, XC_DarkSalmon = 18,   XC_DarkSeaGreen = 19, XC_DarkSlateBlue = 20, XC_DarkSlateGray = 21, XC_DarkSlateGrey = 22,   XC_DarkTurquoise = 23, XC_DarkViolet = 24, XC_DebianRed = 25, XC_DeepPink = 26,   XC_DeepSkyBlue = 27, XC_DimGray = 28, XC_DimGrey = 29, XC_DodgerBlue = 30,   XC_FloralWhite = 31, XC_ForestGreen = 32, XC_GhostWhite = 33, XC_GreenYellow = 34,   XC_HotPink = 35, XC_IndianRed = 36, XC_LavenderBlush = 37, XC_LawnGreen = 38,   XC_LemonChiffon = 39, XC_LightBlue = 40, XC_LightCoral = 41, XC_LightCyan = 42,   XC_LightGoldenrod = 43, XC_LightGoldenrodYellow = 44, XC_LightGray = 45, XC_LightGreen = 46,   XC_LightGrey = 47, XC_LightPink = 48, XC_LightSalmon = 49, XC_LightSeaGreen = 50,   XC_LightSkyBlue = 51, XC_LightSlateBlue = 52, XC_LightSlateGray = 53, XC_LightSlateGrey = 54,   XC_LightSteelBlue = 55, XC_LightYellow = 56, XC_LimeGreen = 57, XC_MediumAquamarine = 58,   XC_MediumBlue = 59, XC_MediumOrchid = 60, XC_MediumPurple = 61, XC_MediumSeaGreen = 62,   XC_MediumSlateBlue = 63, XC_MediumSpringGreen = 64, XC_MediumTurquoise = 65, XC_MediumVioletRed = 66,   XC_MidnightBlue = 67, XC_MintCream = 68, XC_MistyRose = 69, XC_NavajoWhite = 70,   XC_NavyBlue = 71, XC_OldLace = 72, XC_OliveDrab = 73, XC_OrangeRed = 74,   XC_PaleGoldenrod = 75, XC_PaleGreen = 76, XC_PaleTurquoise = 77, XC_PaleVioletRed = 78,   XC_PapayaWhip = 79, XC_PeachPuff = 80, XC_PowderBlue = 81, XC_RosyBrown = 82,   XC_RoyalBlue = 83, XC_SaddleBrown = 84, XC_SandyBrown = 85, XC_SeaGreen = 86,   XC_SkyBlue = 87, XC_SlateBlue = 88, XC_SlateGray = 89, XC_SlateGrey = 90,   XC_SpringGreen = 91, XC_SteelBlue = 92, XC_VioletRed = 93, XC_WhiteSmoke = 94,   XC_YellowGreen = 95, XC_aquamarine = 96, XC_azure = 97, XC_beige = 98,   XC_bisque = 99, XC_AliceBlue = 100, XC_blue = 101, XC_blue1 = 102,   XC_blue2 = 103, XC_blue3 = 104, XC_blue4 = 105, XC_brown = 106,   XC_burlywood = 107, XC_chartreuse = 108, XC_chocolate = 109, XC_coral = 110,   XC_cornsilk = 111, XC_cyan = 112, XC_firebrick = 113, XC_gainsboro = 114,   XC_gold = 115, XC_goldenrod = 116, XC_gray = 117, XC_gray0 = 118,   XC_gray10 = 119, XC_gray100 = 120, XC_gray20 = 121, XC_gray30 = 122,   XC_gray40 = 123, XC_gray50 = 124, XC_gray60 = 125, XC_gray70 = 126,   XC_gray80 = 127, XC_gray90 = 128, XC_green = 129, XC_green1 = 130,   XC_green2 = 131, XC_green3 = 132, XC_green4 = 133, XC_honeydew = 134,   XC_ivory = 135, XC_khaki = 136, XC_lavender = 137, XC_linen = 138,   XC_magenta = 139, XC_maroon = 140, XC_moccasin = 141, XC_navy = 142,   XC_orange = 143, XC_orchid = 144, XC_peru = 145, XC_pink = 146,   XC_plum = 147, XC_purple = 148, XC_red = 149, XC_red1 = 150,   XC_red2 = 151, XC_red3 = 152, XC_red4 = 153, XC_salmon = 154,   XC_seashell = 155, XC_sienna = 156, XC_snow = 157, XC_snow1 = 158,   XC_snow2 = 159, XC_snow3 = 160, XC_snow4 = 161, XC_tan = 162,   XC_thistle = 163, XC_tomato = 164, XC_turquoise = 165, XC_violet = 166,   XC_wheat = 167, XC_white = 168, XC_yellow = 169, XC_last_color }
enum	StatsType { all_stats = 1, accept_reject, no_stats }
	A TrialMover applies a Mover and then accepts or rejects the move according to a MonteCarlo object. More...

Functions
std::ostream &	operator<< (std::ostream &os, FilterReportAsPoseExtraScoresMover const &mover)
static basic::Tracer	TR ("protocols.moves.IfMover")
static basic::Tracer	TR ("protocols.moves.IteratedConvergenceMover")
std::ostream &	operator<< (std::ostream &os, MonteCarlo const &mc)
std::string	to_string (MCA const &mc_accepted)
static basic::Tracer	TR ("protocols.moves.Mover")
std::string	complex_type_name_for_mover (std::string const &mover_name)
void	xsd_type_definition_w_attributes (utility::tag::XMLSchemaDefinition &xsd, std::string const &mover_type, std::string const &description, utility::tag::AttributeList const &attributes)
	Define the XML schema definition for a Mover that contains no subtags but may contain any number of attributes (aka options). More...
void	xsd_type_definition_w_attributes_and_repeatable_subelements (utility::tag::XMLSchemaDefinition &xsd, std::string const &mover_type, std::string const &description, utility::tag::AttributeList const &attributes, utility::tag::XMLSchemaSimpleSubelementList const &subelements)
	Define the XML schema definition for a Mover that contains subtags attributes (aka options). More...
std::ostream &	operator<< (std::ostream &os, MoverContainer const &mover)
static basic::Tracer	TR ("protocols.moves.MoverFactory")
MoverStatus	mstype_from_name (std::string const &name)
static basic::Tracer	TR ("protocols.moves.PyMOLMover")
numeric::random::uniform_RG_OP	getRG ()
std::ostream &	operator<< (std::ostream &output, UDPSocketClient const &client)
utility::vector1< numeric::Real >	get_energies (core::pose::Pose const &pose, core::scoring::ScoreType energy_type)
	Returns a list of energies of type energy_type from the pose. More...
std::ostream &	operator<< (std::ostream &output, PyMOLMover const &mover)
	End Xiyao's Code. More...
PyMOLObserverOP	get_pymol_observer (core::pose::Pose &pose)
	(Internal) helper function to create a PyMOLObserver and add it to the given pose NOTE: You NEED to adjust the observer type and call attach() on the return - by default a new PyMOLObserver isn't attached/observing. More...
PyMOLObserverOP	AddPyMOLObserver (core::pose::Pose &p, bool keep_history=false, core::Real update_interval=0)
	Helper function that create PyMOLObserver Object and add it to the give Pose. This is the most likely the only function that you need to call... More...
PyMOLObserverOP	AddPyMOLObserver_to_energies (core::pose::Pose &p, bool keep_history=false, core::Real update_interval=0)
	Helper function that create PyMOLObserver Object and add it to the give Pose energies object so pymol only updates on energy changes. More...
PyMOLObserverOP	AddPyMOLObserver_to_conformation (core::pose::Pose &p, bool keep_history=false, core::Real update_interval=0)
	Helper function that create PyMOLObserver Object and add it to the give Pose conformation object so pymol only updates on conformation changes. More...
PyMOLObserver::ObserverType	operator| (PyMOLObserver::ObserverType &l, PyMOLObserver::ObserverType &r)
static basic::Tracer	TR ("protocols.moves.RampingMover")
std::ostream &	operator<< (std::ostream &os, RepeatMover const &mover)
void	modify_ResId_based_object (utility::pointer::ReferenceCountOP const obj, core::Size const resid)
	Checks whether a referencecount object is a derived from ResId and if so, sets its resid. More...
void	modify_ResId_based_object (utility::pointer::ReferenceCountOP const obj, core::pose::ResidueIndexDescriptionCOP r)
	Checks whether a referencecount object is a derived from ResId and if so, sets its resid. More...
static basic::Tracer	tr ("protocols.TrialMover")
std::ostream &	operator<< (std::ostream &os, TrialMover const &mover)
protocols::moves::MoverOP	find_mover_or_die (const std::string &mover_name, utility::tag::TagCOP tag, const protocols::moves::Movers_map &movers)
	Searches <movers> for the named mover, returning it if it exists, otherwise halts execution with an error message. More...
protocols::filters::FilterOP	find_filter_or_die (const std::string &filter_name, utility::tag::TagCOP tag, const protocols::filters::Filters_map &filters)
	Searches <filters> for the named filter, returning it if it exists, otherwise halts execution with an error message. More...

Typedef Documentation

typedef utility::pointer::shared_ptr< ChangeFoldTreeMover const > protocols::moves::ChangeFoldTreeMoverCOP

typedef utility::pointer::shared_ptr< ChangeFoldTreeMover > protocols::moves::ChangeFoldTreeMoverOP

typedef utility::pointer::shared_ptr< CompositionMover const > protocols::moves::CompositionMoverCOP

typedef utility::pointer::shared_ptr< CompositionMover > protocols::moves::CompositionMoverOP

typedef utility::pointer::shared_ptr< CycleMover const > protocols::moves::CycleMoverCOP

typedef utility::pointer::shared_ptr< CycleMover > protocols::moves::CycleMoverOP

typedef utility::pointer::shared_ptr<CyclicMover const> protocols::moves::CyclicMoverCOP

typedef utility::pointer::shared_ptr<CyclicMover> protocols::moves::CyclicMoverOP

typedef utility::pointer::shared_ptr< DsspMover > protocols::moves::DsspMoverOP

typedef utility::pointer::shared_ptr< DualMonteCarlo const > protocols::moves::DualMonteCarloCOP

typedef utility::pointer::shared_ptr< DualMonteCarlo > protocols::moves::DualMonteCarloOP

typedef utility::pointer::shared_ptr< FilterMover > protocols::moves::FilterMoverOP

typedef utility::pointer::shared_ptr< FilterReportAsPoseExtraScoresMover const > protocols::moves::FilterReportAsPoseExtraScoresMoverCOP

typedef utility::pointer::shared_ptr< FilterReportAsPoseExtraScoresMover > protocols::moves::FilterReportAsPoseExtraScoresMoverOP

typedef utility::pointer::shared_ptr<FilterReporterMover const> protocols::moves::FilterReporterMoverCOP

typedef utility::pointer::shared_ptr<FilterReporterMover> protocols::moves::FilterReporterMoverOP

typedef utility::pointer::shared_ptr< IteratedConvergenceMover const > protocols::moves::IteratedConvergenceMoverCOP

typedef utility::pointer::shared_ptr< IteratedConvergenceMover > protocols::moves::IteratedConvergenceMoverOP

typedef utility::pointer::shared_ptr< JumpOutMover const > protocols::moves::JumpOutMoverCOP

typedef utility::pointer::shared_ptr< JumpOutMover > protocols::moves::JumpOutMoverOP

typedef utility::pointer::shared_ptr< MCShowMover const > protocols::moves::MCShowMoverCOP

typedef utility::pointer::shared_ptr< MCShowMover > protocols::moves::MCShowMoverOP

typedef utility::pointer::shared_ptr< MonteCarlo const > protocols::moves::MonteCarloCOP

typedef utility::pointer::shared_ptr< MonteCarloExceptionConverge const > protocols::moves::MonteCarloExceptionConvergeCOP

typedef utility::pointer::shared_ptr< MonteCarloExceptionConverge > protocols::moves::MonteCarloExceptionConvergeOP

typedef utility::pointer::shared_ptr< MonteCarlo > protocols::moves::MonteCarloOP

typedef utility::pointer::shared_ptr< MoveMapMover const > protocols::moves::MoveMapMoverCOP

typedef utility::pointer::shared_ptr< MoveMapMover > protocols::moves::MoveMapMoverOP

typedef utility::pointer::weak_ptr< Mover > protocols::moves::MoverAP

typedef utility::pointer::shared_ptr< MoverApplyingMover const > protocols::moves::MoverApplyingMoverCOP

typedef utility::pointer::shared_ptr< MoverApplyingMover > protocols::moves::MoverApplyingMoverOP

typedef std::map< std::string, std::string > protocols::moves::MoverCache

typedef utility::pointer::shared_ptr< MoverCache > protocols::moves::MoverCacheOP

typedef utility::pointer::weak_ptr< Mover const > protocols::moves::MoverCAP

typedef utility::pointer::shared_ptr< MoverContainer const > protocols::moves::MoverContainerCOP

typedef utility::pointer::shared_ptr< MoverContainer > protocols::moves::MoverContainerOP

typedef utility::pointer::shared_ptr< Mover const > protocols::moves::MoverCOP

typedef utility::pointer::shared_ptr< MoverCreator const > protocols::moves::MoverCreatorCOP

typedef utility::pointer::shared_ptr< MoverCreator > protocols::moves::MoverCreatorOP

typedef utility::pointer::shared_ptr< MoverFactory const > protocols::moves::MoverFactoryCOP

typedef utility::pointer::shared_ptr< MoverFactory > protocols::moves::MoverFactoryOP

typedef utility::pointer::shared_ptr< MoverForPoseList const > protocols::moves::MoverForPoseListCOP

typedef utility::pointer::shared_ptr< MoverForPoseList > protocols::moves::MoverForPoseListOP

typedef utility::pointer::shared_ptr< Mover > protocols::moves::MoverOP

typedef std::map< std::string const, MoverOP > protocols::moves::Movers_map

typedef utility::pointer::shared_ptr< Movers_map const > protocols::moves::Movers_mapCOP

typedef utility::pointer::shared_ptr< Movers_map > protocols::moves::Movers_mapOP

typedef utility::pointer::shared_ptr< NullMover const > protocols::moves::NullMoverCOP

typedef utility::pointer::shared_ptr< NullMover > protocols::moves::NullMoverOP

typedef utility::pointer::shared_ptr< PDBDumpMover const > protocols::moves::PDBDumpMoverCOP

typedef utility::pointer::shared_ptr< PDBDumpMover > protocols::moves::PDBDumpMoverOP

typedef utility::pointer::shared_ptr< PoseCondition const > protocols::moves::PoseConditionCOP

typedef utility::pointer::shared_ptr< PoseCondition > protocols::moves::PoseConditionOP

typedef utility::pointer::shared_ptr< ProfilerMover const > protocols::moves::ProfilerMoverCOP

typedef utility::pointer::shared_ptr< ProfilerMover > protocols::moves::ProfilerMoverOP

typedef utility::pointer::shared_ptr< PyMOLMover const > protocols::moves::PyMOLMoverCOP

typedef utility::pointer::shared_ptr< PyMOLMover > protocols::moves::PyMOLMoverOP

typedef utility::pointer::shared_ptr< PyMOLObserver const > protocols::moves::PyMOLObserverCOP

typedef utility::pointer::shared_ptr< PyMOLObserver > protocols::moves::PyMOLObserverOP

typedef utility::pointer::shared_ptr< RampingFunc const > protocols::moves::RampingFuncCOP

typedef utility::pointer::shared_ptr< RampingFunc > protocols::moves::RampingFuncOP

typedef utility::pointer::shared_ptr< RampingMover const > protocols::moves::RampingMoverCOP

typedef utility::pointer::shared_ptr< RampingMover > protocols::moves::RampingMoverOP

typedef utility::pointer::shared_ptr< RandomMover const > protocols::moves::RandomMoverCOP

typedef utility::pointer::shared_ptr< RandomMover > protocols::moves::RandomMoverOP

using protocols::moves::Real = typedef core::Real

typedef utility::pointer::shared_ptr< RepeatMover const > protocols::moves::RepeatMoverCOP

typedef utility::pointer::shared_ptr< RepeatMover > protocols::moves::RepeatMoverOP

typedef utility::pointer::shared_ptr< ReplicaExchangeMC const > protocols::moves::ReplicaExchangeMC_COP

typedef utility::pointer::shared_ptr< ReplicaExchangeMC > protocols::moves::ReplicaExchangeMC_OP

typedef utility::pointer::shared_ptr< ResId const > protocols::moves::ResIdCOP

typedef utility::pointer::shared_ptr< ResId > protocols::moves::ResIdOP

typedef utility::pointer::shared_ptr< SequenceMover const > protocols::moves::SequenceMoverCOP

typedef utility::pointer::shared_ptr< SequenceMover > protocols::moves::SequenceMoverOP

typedef utility::pointer::shared_ptr<SimulatedTempering> protocols::moves::SimulatedTemperingOP

typedef utility::pointer::shared_ptr< StructureRestrictor const > protocols::moves::StructureRestrictorCOP

typedef utility::pointer::shared_ptr< StructureRestrictor > protocols::moves::StructureRestrictorOP

typedef utility::pointer::shared_ptr< SwitchMover const > protocols::moves::SwitchMoverCOP

typedef utility::pointer::shared_ptr< SwitchMover > protocols::moves::SwitchMoverOP

typedef utility::pointer::shared_ptr< TrialCounter const > protocols::moves::TrialCounterCOP

typedef utility::pointer::shared_ptr< TrialCounter > protocols::moves::TrialCounterOP

typedef utility::pointer::shared_ptr< TrialMover const > protocols::moves::TrialMoverCOP

typedef utility::pointer::shared_ptr< TrialMover > protocols::moves::TrialMoverOP

typedef utility::pointer::shared_ptr<VectorPoseMover const> protocols::moves::VectorPoseMoverCOP

typedef utility::pointer::shared_ptr<VectorPoseMover> protocols::moves::VectorPoseMoverOP

typedef utility::pointer::shared_ptr< WhileMover const > protocols::moves::WhileMoverCOP

typedef utility::pointer::shared_ptr< WhileMover > protocols::moves::WhileMoverOP

Enumeration Type Documentation

enum protocols::moves::MCA

Enumerator
MCA_accepted_score_beat_low
MCA_accepted_score_beat_last
MCA_accepted_thermally
MCA_rejected

enum protocols::moves::MoverStatus

return status for movers - mover was successful, failed but can be retried, etc; used mostly by job dist.

Documention for individual codes from SML, and reflects the original intent behind them (more than current usage)

Enumerator
MS_SUCCESS	MS_SUCCESS: job succeeds.
FAIL_RETRY	FAIL_RETRY: The job failed in a "science-y" way (rather than a "programmatic" way). E.g. this particular docking run failed an RMSD filter, but there's no reason to believe it's not just trapped in a bad region of conformational space due to the stochasticity of Monte Carlo.
FAIL_DO_NOT_RETRY	FAIL_DO_NOT_RETRY: This particular job should not be re-attempted, but there wasn't anything structurally wrong with it - it was a valid job, but its output is uninteresting, so toss it and move on.
FAIL_BAD_INPUT	FAIL_BAD_INPUT: This job has something structurally wrong with it/its input and can never be completed. Other jobs of the same input (same InnerJob / stuff that differs only by its nstruct index) will by definition fail in the same fashion, so short-circuit those failures and pre-emptively cancel those jobs when possible. This probably means there is a user input problem.
FAIL	FAIL: ??? Unknown usage (not obeyed by JD2).
MS_FAIL_RETRY
MS_FAIL_DO_NOT_RETRY
MS_FAIL_BAD_INPUT
MS_FAIL

enum protocols::moves::StatsType

A TrialMover applies a Mover and then accepts or rejects the move according to a MonteCarlo object.

: Each derived class should define its own apply() statement the apply (mc) which requires a monte carlo object and only keeps the move if the monte carlo test allows it

Author

Monica Berrondo

Enumerator
all_stats
accept_reject
no_stats

enum protocols::moves::X11Colors

Enumerator
XC_first_color
XC_black
XC_AntiqueWhite
XC_BlanchedAlmond
XC_BlueViolet
XC_CadetBlue
XC_CornflowerBlue
XC_DarkBlue
XC_DarkCyan
XC_DarkGoldenrod
XC_DarkGray
XC_DarkGreen
XC_DarkGrey
XC_DarkKhaki
XC_DarkMagenta
XC_DarkOliveGreen
XC_DarkOrange
XC_DarkOrchid
XC_DarkRed
XC_DarkSalmon
XC_DarkSeaGreen
XC_DarkSlateBlue
XC_DarkSlateGray
XC_DarkSlateGrey
XC_DarkTurquoise
XC_DarkViolet
XC_DebianRed
XC_DeepPink
XC_DeepSkyBlue
XC_DimGray
XC_DimGrey
XC_DodgerBlue
XC_FloralWhite
XC_ForestGreen
XC_GhostWhite
XC_GreenYellow
XC_HotPink
XC_IndianRed
XC_LavenderBlush
XC_LawnGreen
XC_LemonChiffon
XC_LightBlue
XC_LightCoral
XC_LightCyan
XC_LightGoldenrod
XC_LightGoldenrodYellow
XC_LightGray
XC_LightGreen
XC_LightGrey
XC_LightPink
XC_LightSalmon
XC_LightSeaGreen
XC_LightSkyBlue
XC_LightSlateBlue
XC_LightSlateGray
XC_LightSlateGrey
XC_LightSteelBlue
XC_LightYellow
XC_LimeGreen
XC_MediumAquamarine
XC_MediumBlue
XC_MediumOrchid
XC_MediumPurple
XC_MediumSeaGreen
XC_MediumSlateBlue
XC_MediumSpringGreen
XC_MediumTurquoise
XC_MediumVioletRed
XC_MidnightBlue
XC_MintCream
XC_MistyRose
XC_NavajoWhite
XC_NavyBlue
XC_OldLace
XC_OliveDrab
XC_OrangeRed
XC_PaleGoldenrod
XC_PaleGreen
XC_PaleTurquoise
XC_PaleVioletRed
XC_PapayaWhip
XC_PeachPuff
XC_PowderBlue
XC_RosyBrown
XC_RoyalBlue
XC_SaddleBrown
XC_SandyBrown
XC_SeaGreen
XC_SkyBlue
XC_SlateBlue
XC_SlateGray
XC_SlateGrey
XC_SpringGreen
XC_SteelBlue
XC_VioletRed
XC_WhiteSmoke
XC_YellowGreen
XC_aquamarine
XC_azure
XC_beige
XC_bisque
XC_AliceBlue
XC_blue
XC_blue1
XC_blue2
XC_blue3
XC_blue4
XC_brown
XC_burlywood
XC_chartreuse
XC_chocolate
XC_coral
XC_cornsilk
XC_cyan
XC_firebrick
XC_gainsboro
XC_gold
XC_goldenrod
XC_gray
XC_gray0
XC_gray10
XC_gray100
XC_gray20
XC_gray30
XC_gray40
XC_gray50
XC_gray60
XC_gray70
XC_gray80
XC_gray90
XC_green
XC_green1
XC_green2
XC_green3
XC_green4
XC_honeydew
XC_ivory
XC_khaki
XC_lavender
XC_linen
XC_magenta
XC_maroon
XC_moccasin
XC_navy
XC_orange
XC_orchid
XC_peru
XC_pink
XC_plum
XC_purple
XC_red
XC_red1
XC_red2
XC_red3
XC_red4
XC_salmon
XC_seashell
XC_sienna
XC_snow
XC_snow1
XC_snow2
XC_snow3
XC_snow4
XC_tan
XC_thistle
XC_tomato
XC_turquoise
XC_violet
XC_wheat
XC_white
XC_yellow
XC_last_color

Function Documentation

PyMOLObserverOP protocols::moves::AddPyMOLObserver	(	core::pose::Pose &	p,
		bool	keep_history,
		core::Real	update_interval
	)

Helper function that create PyMOLObserver Object and add it to the give Pose. This is the most likely the only function that you need to call...

References protocols::moves::PyMOLObserver::general_observer, and get_pymol_observer().

Referenced by protocols::abinitio::AbrelaxMover::apply(), protocols::floppy_tail::FloppyTailMover::apply(), protocols::ncbb::NcbbDockDesignProtocol::apply(), protocols::ncbb::oop::OopDockDesignProtocol::apply(), protocols::abinitio::AbrelaxApplication::fold(), protocols::fold_from_loops::NubInitioMover::refold_pose(), and protocols::jd2::JobDistributor::setup_pymol_observer().

PyMOLObserverOP protocols::moves::AddPyMOLObserver_to_conformation	(	core::pose::Pose &	p,
		bool	keep_history,
		core::Real	update_interval
	)

Helper function that create PyMOLObserver Object and add it to the give Pose conformation object so pymol only updates on conformation changes.

References protocols::moves::PyMOLObserver::conformation_observer, and get_pymol_observer().

Referenced by protocols::jd2::JobDistributor::setup_pymol_observer().

PyMOLObserverOP protocols::moves::AddPyMOLObserver_to_energies	(	core::pose::Pose &	p,
		bool	keep_history,
		core::Real	update_interval
	)

Helper function that create PyMOLObserver Object and add it to the give Pose energies object so pymol only updates on energy changes.

References protocols::moves::PyMOLObserver::energy_observer, and get_pymol_observer().

Referenced by protocols::jd2::JobDistributor::setup_pymol_observer().

std::string protocols::moves::complex_type_name_for_mover

(

std::string const &

mover_name

)

Referenced by protocols::multistage_rosetta_scripts::MRSJobQueen::append_common_tag_subelements(), protocols::rigid::UniformRigidBodyMover::complex_type_gen(), protocols::grafting::AnchoredGraftMover::complex_type_generator_for_anchored_graft_mover(), protocols::simple_moves::BackboneMover::complex_type_generator_for_backbone_mover(), protocols::relax::FastRelax::complex_type_generator_for_fast_relax(), protocols::minimization_packing::MinMover::complex_type_generator_for_min_mover(), protocols::minimization_packing::PackRotamersMover::complex_type_generator_for_pack_rotamers_mover(), protocols::minimization_packing::RotamerTrialsMover::complex_type_generator_for_rotamer_trials_mover(), protocols::legacy_sewing::LegacyAssemblyMover::define_assembly_mover_ct_gen(), protocols::loop_modeling::LoopMover::define_composition_schema(), protocols::monte_carlo::GenericMonteCarloMover::define_composition_schema(), protocols::simple_ddg::ddG::define_ddG_schema(), protocols::simple_moves::ExplicitWaterMover::define_explicit_water_mover_schema(), protocols::moves::MoverFactory::define_mover_xml_schema(), protocols::calc_taskop_movers::DesignRepackMover::get_xsd_complex_type(), protocols::protein_interface_design::movers::HotspotHasherMover::provide_xml_schema(), protocols::enzymatic_movers::KinaseMover::provide_xml_schema(), protocols::enzymatic_movers::GlycosyltransferaseMover::provide_xml_schema(), protocols::enzymatic_movers::NTerminalAcetyltransferaseMover::provide_xml_schema(), protocols::enzymatic_movers::DNAMethyltransferaseMover::provide_xml_schema(), protocols::simple_moves::SetupMetalsMover::provide_xml_schema(), protocols::ligand_docking::ComputeLigandRDF::provide_xml_schema(), protocols::rosetta_scripts::MultipleOutputWrapper::provide_xml_schema(), protocols::rosetta_scripts::MultiplePoseMover::provide_xml_schema(), protocols::grafting::CCDEndsGraftMover::provide_xml_schema(), protocols::protein_interface_design::movers::PlaceSimultaneouslyMover::provide_xml_schema(), protocols::pose_creation::SliceToMiniProteinMover::provide_xml_schema(), protocols::sewing::movers::AppendAssemblyMover::provide_xml_schema(), protocols::protein_interface_design::movers::PlaceStubMover::provide_xml_schema(), protocols::denovo_design::movers::BuildDeNovoBackboneMover::provide_xml_schema(), protocols::sewing::movers::LigandBindingAssemblyMover::provide_xml_schema(), protocols::sewing::hashing::AlignmentFileGeneratorMover::provide_xml_schema(), protocols::sewing::movers::AssemblyMover::provide_xml_schema(), protocols::grafting::AnchoredGraftMover::provide_xml_schema(), protocols::canonical_sampling::MetricRecorder::provide_xml_schema(), protocols::fold_from_loops::NubInitioMover::provide_xml_schema(), protocols::canonical_sampling::MetropolisHastingsMover::provide_xml_schema(), protocols::simple_moves::SmallMover::provide_xml_schema(), protocols::simple_moves::ShearMover::provide_xml_schema(), protocols::generalized_kinematic_closure::GeneralizedKIC::provide_xml_schema(), protocols::design_opt::GreedyOptMutationMover::root_node_for_greedy_opt(), protocols::rosetta_scripts::RosettaScriptsParser::write_ROSETTASCRIPTS_complex_type(), protocols::enzymatic_movers::EnzymaticMover::xml_schema_complex_type_generator(), xsd_type_definition_w_attributes(), and xsd_type_definition_w_attributes_and_repeatable_subelements().

protocols::filters::FilterOP protocols::moves::find_filter_or_die	(	const std::string &	filter_name,
		const utility::tag::TagCOP	,
		const protocols::filters::Filters_map &	filters
	)

Searches <filters> for the named filter, returning it if it exists, otherwise halts execution with an error message.

Referenced by protocols::moves::IfMover::parse_my_tag().

protocols::moves::MoverOP protocols::moves::find_mover_or_die	(	const std::string &	mover_name,
		const utility::tag::TagCOP	,
		const protocols::moves::Movers_map &	movers
	)

Searches <movers> for the named mover, returning it if it exists, otherwise halts execution with an error message.

Referenced by protocols::moves::IfMover::parse_my_tag(), protocols::moves::RandomMover::parse_my_tag(), and protocols::moves::SwitchMover::parse_my_tag().

utility::vector1< numeric::Real > protocols::moves::get_energies	(	core::pose::Pose const &	pose,
		core::scoring::ScoreType	energy_type
	)

Returns a list of energies of type energy_type from the pose.

References core::pose::Pose::energies(), core::scoring::Energies::energies_updated(), protocols::moves::PyMOLMover::energy_type(), core::scoring::Energies::residue_total_energies(), and core::pose::Pose::size().

PyMOLObserverOP protocols::moves::get_pymol_observer

(

core::pose::Pose &

pose

)

(Internal) helper function to create a PyMOLObserver and add it to the given pose NOTE: You NEED to adjust the observer type and call attach() on the return - by default a new PyMOLObserver isn't attached/observing.

References core::pose::Pose::observer_cache(), core::pose::datacache::PYMOL_OBSERVER, and core::pose::datacache::ObserverCache::set().

Referenced by AddPyMOLObserver(), AddPyMOLObserver_to_conformation(), and AddPyMOLObserver_to_energies().

numeric::random::uniform_RG_OP protocols::moves::getRG

(

)

We using independent numeric::random::rg() which is not connected to RNG system because we do not want PyMOL to interfere with other Rosetta systems. I.e creating and using PyMOL mover should not change any trajectories of the running program even in production mode.

References RG().

Referenced by protocols::moves::UDPSocketClient::UDPSocketClient().

void protocols::moves::modify_ResId_based_object	(	utility::pointer::ReferenceCountOP const	obj,
		core::Size const	resid
	)

Checks whether a referencecount object is a derived from ResId and if so, sets its resid.

a recursive function that sets the resid of obj to the resid parameter. If the type of obj is a CompoundFilter or a DockDesignMover then each of the members of these containers are probed to see whether they are ResId types. Recursion ensures that any nesting structure would be supported. Non-ResId objects will pass through this function without being changed.

Referenced by protocols::protein_interface_design::movers::PlaceStubMover::apply(), protocols::protein_interface_design::movers::PlaceSimultaneouslyMover::pair_sets_with_positions(), protocols::rosetta_scripts::ParsedProtocol::set_resid(), and protocols::filters::CompoundFilter::set_resid().

void protocols::moves::modify_ResId_based_object	(	utility::pointer::ReferenceCountOP const	obj,
		core::pose::ResidueIndexDescriptionCOP	r
	)

Checks whether a referencecount object is a derived from ResId and if so, sets its resid.

MoverStatus protocols::moves::mstype_from_name

(

std::string const &

name

)

References FAIL_BAD_INPUT, FAIL_DO_NOT_RETRY, FAIL_RETRY, and MS_SUCCESS.

Referenced by protocols::protein_interface_design::movers::LoopOver::parse_my_tag().

std::ostream & protocols::moves::operator<<	(	std::ostream &	os,
		RepeatMover const &	mover
	)

References protocols::moves::Mover::get_current_tag(), protocols::moves::RepeatMover::get_mover(), protocols::moves::RepeatMover::get_name(), protocols::moves::RepeatMover::get_nmoves(), and protocols::moves::Mover::get_type().

std::ostream & protocols::moves::operator<<	(	std::ostream &	os,
		FilterReportAsPoseExtraScoresMover const &	mover
	)

References protocols::moves::FilterReportAsPoseExtraScoresMover::show().

std::ostream & protocols::moves::operator<<	(	std::ostream &	output,
		UDPSocketClient const &	client
	)

References protocols::moves::UDPSocketClient::show().

std::ostream& protocols::moves::operator<<	(	std::ostream &	os,
		TrialMover const &	mover
	)

References protocols::moves::MoverStatistics::acceptance_rate(), protocols::moves::Mover::get_current_tag(), protocols::moves::TrialMover::get_name(), protocols::moves::Mover::get_type(), protocols::moves::TrialMover::mc_, protocols::moves::TrialMover::mover(), protocols::moves::TrialMover::num_accepts(), and protocols::moves::TrialMover::stats_.

std::ostream& protocols::moves::operator<<	(	std::ostream &	os,
		MoverContainer const &	mover
	)

References protocols::moves::Mover::get_current_tag(), protocols::moves::MoverContainer::get_mover(), protocols::moves::Mover::get_name(), protocols::moves::Mover::get_type(), and protocols::moves::MoverContainer::size().

std::ostream & protocols::moves::operator<<	(	std::ostream &	os,
		MonteCarlo const &	mc
	)

References protocols::moves::MonteCarlo::last_accepted_score(), protocols::moves::MonteCarlo::lowest_score(), protocols::moves::MonteCarlo::temperature(), and protocols::moves::MonteCarlo::total_trials().

std::ostream & protocols::moves::operator<<	(	std::ostream &	output,
		PyMOLMover const &	mover
	)

End Xiyao's Code.

References protocols::moves::PyMOLMover::show().

PyMOLObserver::ObserverType protocols::moves::operator| ( PyMOLObserver::ObserverType &  l, PyMOLObserver::ObserverType &  r  )

inline

std::string protocols::moves::to_string

(

MCA const &

mc_accepted

)

References core::init::init(), MCA_accepted_score_beat_last, MCA_accepted_score_beat_low, MCA_accepted_thermally, and MCA_rejected.

Referenced by protocols::moves::MonteCarlo::mc_accepted_string(), and protocols::moves::MonteCarlo::show_state().

static basic::Tracer protocols::moves::TR ( "protocols.moves.IteratedConvergenceMover"  )

static

static basic::Tracer protocols::moves::tr ( "protocols.TrialMover"  )

static

Referenced by protocols::moves::TrialMover::acceptance_rate(), and protocols::moves::TrialCounter::show().

static basic::Tracer protocols::moves::TR ( "protocols.moves.MoverFactory"  )

static

static basic::Tracer protocols::moves::TR ( "protocols.moves.IfMover"  )

static

Referenced by protocols::moves::MoverContainer::add_mover(), protocols::loophash::Mover_LoopHashRefine::apply(), protocols::moves::IteratedConvergenceMover::apply(), protocols::moves::FilterMover::apply(), protocols::moves::DsspMover::apply(), protocols::moves::SequenceMover::apply(), protocols::moves::RandomMover::apply(), protocols::moves::SwitchMover::apply(), protocols::moves::MonteCarlo::autotemp_accept(), protocols::moves::MonteCarlo::autotemp_reject(), protocols::moves::ReplicaExchangeMC::build_temperature_list(), protocols::loophash::get_rt_over_leap(), protocols::loophash::get_rt_over_leap_fast(), protocols::moves::ReplicaExchangeMC::init(), protocols::loophash::LoopHashMap::lookup(), protocols::loophash::LoopHashMap::mem_foot_print(), protocols::moves::MoverFactory::newMover(), protocols::moves::IteratedConvergenceMover::parse_my_tag(), protocols::moves::DsspMover::parse_my_tag(), protocols::moves::IfMover::parse_my_tag(), protocols::moves::FilterReportAsPoseExtraScoresMover::parse_my_tag(), protocols::moves::RampingMover::parse_my_tag(), protocols::moves::Mover::parse_my_tag(), protocols::moves::MoverFactory::provide_xml_schema(), protocols::loophash::LoopHashMap::read_db(), protocols::loophash::LoopHashMap::read_legacydb(), protocols::moves::MonteCarlo::score_function(), protocols::loophash::LoopHashMap::setup(), protocols::moves::DualMonteCarlo::show_scores(), protocols::moves::MonteCarlo::show_scores(), and protocols::moves::MonteCarlo::show_state().

static basic::Tracer protocols::moves::TR ( "protocols.moves.RampingMover"  )

static

static basic::Tracer protocols::moves::TR ( "protocols.moves.Mover"  )

static

static basic::Tracer protocols::moves::TR ( "protocols.moves.PyMOLMover"  )

static

void protocols::moves::xsd_type_definition_w_attributes	(	utility::tag::XMLSchemaDefinition &	xsd,
		std::string const &	mover_type,
		std::string const &	description,
		utility::tag::AttributeList const &	attributes
	)

Define the XML schema definition for a Mover that contains no subtags but may contain any number of attributes (aka options).

References complex_type_name_for_mover().

Referenced by protocols::simple_moves::AddResidueLabelMoverCreator::provide_xml_schema(), protocols::constraint_movers::ClearConstraintsMover::provide_xml_schema(), protocols::loop_modeling::utilities::PrepareForCentroid::provide_xml_schema(), protocols::vardist_solaccess::LoadVarSolDistSasaCalculatorMover::provide_xml_schema(), protocols::simple_moves::SaveSequenceToCommentsMover::provide_xml_schema(), protocols::simple_moves::ResetFoldTree::provide_xml_schema(), protocols::simple_moves::RepeatPropagationMover::provide_xml_schema(), protocols::simple_moves::FavorSymmetricSequence::provide_xml_schema(), protocols::ligand_docking::WriteLigandMolFile::provide_xml_schema(), protocols::protein_interface_design::movers::DockAndRetrieveSidechains::provide_xml_schema(), protocols::simple_moves::AddPDBInfoMover::provide_xml_schema(), protocols::simple_moves::ReportXYZ::provide_xml_schema(), protocols::protein_interface_design::movers::PatchdockTransform::provide_xml_schema(), protocols::protein_interface_design::movers::PeptideStapleDesignMover::provide_xml_schema(), protocols::ligand_docking::RandomConformers::provide_xml_schema(), protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle::provide_xml_schema(), protocols::protein_interface_design::movers::ShoveResidueMover::provide_xml_schema(), protocols::protein_interface_design::movers::SubroutineMover::provide_xml_schema(), protocols::protein_interface_design::movers::TopologyBrokerMover::provide_xml_schema(), protocols::simple_moves::AddJobPairData::provide_xml_schema(), protocols::electron_density::ScaleMapIntensities::provide_xml_schema(), protocols::symmetry::DetectSymmetry::provide_xml_schema(), protocols::monte_carlo::ResetBaselineMover::provide_xml_schema(), protocols::protein_interface_design::movers::BuildAlaPose::provide_xml_schema(), protocols::protein_interface_design::movers::SetTemperatureFactor::provide_xml_schema(), protocols::protein_interface_design::movers::TaskAwareCsts::provide_xml_schema(), protocols::electron_density::ReportFSC::provide_xml_schema(), protocols::simple_moves::SequenceProfileMover::provide_xml_schema(), protocols::simple_moves::VirtualRootMover::provide_xml_schema(), protocols::cutoutdomain::CutOutDomain::provide_xml_schema(), protocols::protein_interface_design::movers::FavorNativeResiduePreCycle::provide_xml_schema(), protocols::rbsegment_relax::MakeStarTopologyMover::provide_xml_schema(), protocols::simple_moves::PDBReloadMover::provide_xml_schema(), protocols::cyclic_peptide::DeclareBond::provide_xml_schema(), protocols::relax::RepeatProteinRelax::provide_xml_schema(), protocols::simple_moves::DeleteChainMover::provide_xml_schema(), protocols::loop_build::LoopmodelWrapper::provide_xml_schema(), protocols::fldsgn::SheetRemodelConstraintGenerator::provide_xml_schema(), protocols::protein_interface_design::movers::LoopOver::provide_xml_schema(), protocols::recon_design::FindConsensusSequence::provide_xml_schema(), protocols::simple_moves::LoadUnboundRotMover::provide_xml_schema(), protocols::symmetric_docking::SymFoldandDockMoveRbJumpMover::provide_xml_schema(), protocols::pose_length_moves::FixAllLoopsMover::provide_xml_schema(), protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::provide_xml_schema(), protocols::protein_interface_design::movers::InterfaceRecapitulationMover::provide_xml_schema(), protocols::protein_interface_design::movers::RandomMutation::provide_xml_schema(), protocols::simple_moves::PSSM2BfactorMover::provide_xml_schema(), protocols::loops::FoldTreeFromLoops::provide_xml_schema(), protocols::simple_moves::WriteSSEMover::provide_xml_schema(), protocols::task_operations::StoreTaskMover::provide_xml_schema(), protocols::pose_creation::MergePDBatOverlapMover::provide_xml_schema(), protocols::protein_interface_design::movers::BestHotspotCstMover::provide_xml_schema(), protocols::protein_interface_design::movers::SpinMover::provide_xml_schema(), protocols::simple_moves::FavorSequenceProfile::provide_xml_schema(), protocols::matdes::SchemePlaceMotifsMover::provide_xml_schema(), protocols::simple_moves::DumpPdb::provide_xml_schema(), protocols::task_operations::StoreCombinedStoredTasksMover::provide_xml_schema(), protocols::protein_interface_design::movers::AddChainBreak::provide_xml_schema(), protocols::abinitio::DomainAssembly::provide_xml_schema(), protocols::ligand_docking::Rotates::provide_xml_schema(), protocols::stepwise::monte_carlo::mover::FromScratchMover::provide_xml_schema(), protocols::simple_moves::LoadPDBMover::provide_xml_schema(), protocols::protein_interface_design::movers::PlaceOnLoop::provide_xml_schema(), protocols::residue_selectors::StoreResidueSubsetMover::provide_xml_schema(), protocols::rosetta_scripts::SavePoseMover::provide_xml_schema(), protocols::simple_moves::AlignChainMover::provide_xml_schema(), protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockMoveRbJumpMover::provide_xml_schema(), protocols::simple_moves::SuperimposeMover::provide_xml_schema(), protocols::splice::RotLibOut::provide_xml_schema(), protocols::stepwise::monte_carlo::mover::ResampleMover::provide_xml_schema(), protocols::symmetric_docking::SymFoldandDockSlideTrialMover::provide_xml_schema(), protocols::pose_creation::MakeJunctionsMover::provide_xml_schema(), protocols::pose_length_moves::InsertResMover::provide_xml_schema(), protocols::protein_interface_design::movers::SetupHotspotConstraintsMover::provide_xml_schema(), protocols::recon_design::MSDMover::provide_xml_schema(), protocols::ligand_docking::AddHydrogens::provide_xml_schema(), protocols::legacy_sewing::LegacyAddStartnodeFragments::provide_xml_schema(), protocols::ligand_docking::LigandDesign::provide_xml_schema(), protocols::simple_moves::SwitchChainOrderMover::provide_xml_schema(), protocols::carbohydrates::IdealizeAnomericHydrogens::provide_xml_schema(), protocols::calc_taskop_movers::ForceDisulfidesMover::provide_xml_schema(), protocols::cyclic_peptide::FlipChiralityMover::provide_xml_schema(), protocols::ligand_docking::GrowLigand::provide_xml_schema(), protocols::simple_moves::ModifyVariantTypeMover::provide_xml_schema(), protocols::matdes::ExtractSubposeMover::provide_xml_schema(), protocols::features::InterfaceDdGMover::provide_xml_schema(), protocols::relax::AcceptToBestMover::provide_xml_schema(), protocols::simple_moves::ContingentAcceptMover::provide_xml_schema(), protocols::ligand_docking::SlideTogether::provide_xml_schema(), protocols::symmetry::SetupForSequenceSymmetryMover::provide_xml_schema(), protocols::motifs::MotifDnaPacker::provide_xml_schema(), protocols::protein_interface_design::movers::DesignMinimizeHbonds::provide_xml_schema(), protocols::protein_interface_design::movers::LoopLengthChange::provide_xml_schema(), protocols::struct_fragment::StructFragmentMover::provide_xml_schema(), protocols::enzdes::BackboneSampler::provide_xml_schema(), protocols::cryst::ReportGradientsMover::provide_xml_schema(), protocols::fold_from_loops::movers::SavePDBInfoMover::provide_xml_schema(), protocols::dna::DnaInterfaceMinMover::provide_xml_schema(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD_Moves::provide_xml_schema(), protocols::electron_density::SetupForDensityScoringMover::provide_xml_schema(), protocols::fold_from_loops::movers::LabelPoseFromResidueSelectorMover::provide_xml_schema(), protocols::fold_from_loops::movers::MoveMapFactoryToNamedMoveMapMover::provide_xml_schema(), protocols::pose_length_moves::AnalyzeLoopModeling::provide_xml_schema(), protocols::protein_interface_design::movers::LoopFinder::provide_xml_schema(), protocols::rbsegment_relax::OptimizeThreadingMover::provide_xml_schema(), protocols::stepwise::monte_carlo::mover::DeleteMover::provide_xml_schema(), protocols::minimization_packing::SaneMinMover::provide_xml_schema(), protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::provide_xml_schema(), protocols::protein_interface_design::movers::SetAtomTree::provide_xml_schema(), protocols::ligand_docking::FinalMinimizer::provide_xml_schema(), protocols::dna::DesignProteinBackboneAroundDNA::provide_xml_schema(), protocols::dna::SeparateDnaFromNonDna::provide_xml_schema(), protocols::simple_moves::StructProfileMover::provide_xml_schema(), protocols::loops::loop_mover::LoopCM::provide_xml_schema(), protocols::stepwise::monte_carlo::mover::AddMover::provide_xml_schema(), protocols::constraint_movers::ResidueTypeConstraintMover::provide_xml_schema(), protocols::qsar::RenderGridsToKinemage::provide_xml_schema(), protocols::splice::RBOutMover::provide_xml_schema(), protocols::docking::DockingPrepackProtocol::provide_xml_schema(), protocols::moves::DsspMover::provide_xml_schema(), protocols::moves::IfMover::provide_xml_schema(), protocols::fold_from_loops::movers::ResidueLabelsToPymolSelectionMover::provide_xml_schema(), protocols::dna::DnaInterfaceMultiStateDesign::provide_xml_schema(), protocols::simple_moves::sidechain_moves::SetChiMover::provide_xml_schema(), protocols::simple_moves::SwitchResidueTypeSetMover::provide_xml_schema(), protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockRbTrialMover::provide_xml_schema(), protocols::protein_interface_design::movers::SaveAndRetrieveSidechains::provide_xml_schema(), protocols::constraint_movers::ConstraintSetMover::provide_xml_schema(), protocols::minimization_packing::symmetry::TaskAwareSymMinMover::provide_xml_schema(), protocols::pose_length_moves::ConnectChainsMover::provide_xml_schema(), protocols::forge::constraints::NtoCConstraintGenerator::provide_xml_schema(), protocols::simple_moves::AddChainMover::provide_xml_schema(), protocols::loops::loop_mover::refine::LoopMover_Refine_Backrub::provide_xml_schema(), protocols::membrane::OptimizeProteinEmbeddingMover::provide_xml_schema(), protocols::pose_creation::MakePolyXMover::provide_xml_schema(), protocols::simple_moves::MembraneTopology::provide_xml_schema(), protocols::protein_interface_design::movers::LoopMoverFromCommandLine::provide_xml_schema(), protocols::membrane::benchmark::MakeCanonicalHelix::provide_xml_schema(), protocols::fold_from_loops::movers::AlignByResidueSelectorMover::provide_xml_schema(), protocols::fold_from_loops::movers::ReleaseConstraintFromResidueMover::provide_xml_schema(), protocols::splice::TailSegmentMover::provide_xml_schema(), protocols::abinitio::abscript::StructPerturberCM::provide_xml_schema(), protocols::protein_interface_design::movers::LoopRemodel::provide_xml_schema(), protocols::ligand_docking::MinimizeBackbone::provide_xml_schema(), protocols::symmetric_docking::SymFoldandDockRbTrialMover::provide_xml_schema(), protocols::splice::SpliceOutAntibody::provide_xml_schema(), protocols::grafting::simple_movers::InsertPoseIntoPoseMover::provide_xml_schema(), protocols::ligand_docking::InterfaceScoreCalculator::provide_xml_schema(), protocols::constraint_generator::RemoveConstraints::provide_xml_schema(), protocols::aa_composition::ClearCompositionConstraintsMover::provide_xml_schema(), protocols::grafting::simple_movers::DeleteRegionMover::provide_xml_schema(), protocols::electron_density::VoxelSpacingRefinementMover::provide_xml_schema(), protocols::flexpep_docking::FlexPepDockingProtocol::provide_xml_schema(), protocols::forge::constraints::RemoveRemodelCsts::provide_xml_schema(), protocols::splice::RBInMover::provide_xml_schema(), protocols::ligand_docking::Transform::provide_xml_schema(), protocols::loops::loop_mover::refine::RepackTrial::provide_xml_schema(), protocols::denovo_design::movers::SetResidueAliasMover::provide_xml_schema(), protocols::abinitio::abscript::FragmentCM::provide_xml_schema(), protocols::constraint_movers::AddConstraintsToCurrentConformationMover::provide_xml_schema(), protocols::denovo_design::movers::AddSegmentDataMover::provide_xml_schema(), protocols::denovo_design::movers::MakeAsymmetricStructureDataMover::provide_xml_schema(), protocols::abinitio::abscript::FragmentJumpCM::provide_xml_schema(), protocols::abinitio::abscript::AbscriptLoopCloserCM::provide_xml_schema(), protocols::enzdes::AddOrRemoveMatchCsts::provide_xml_schema(), protocols::relax::membrane::MPRangeRelaxMover::provide_xml_schema(), protocols::simple_moves::WriteFiltersToPose::provide_xml_schema(), protocols::docking::DockMinMover::provide_xml_schema(), protocols::simple_moves::Tumble::provide_xml_schema(), protocols::hotspot_hashing::movers::PlaceSurfaceProbe::provide_xml_schema(), protocols::membrane::OptimizeMembranePositionMover::provide_xml_schema(), protocols::nmr::ParaNMRScoreMover::provide_xml_schema(), protocols::mean_field::GenMeanFieldMover::provide_xml_schema(), protocols::coupled_moves::CoupledMovesProtocol::provide_xml_schema(), protocols::loops::loop_mover::refine::ShearMinCCDTrial::provide_xml_schema(), protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer::provide_xml_schema(), protocols::moves::IteratedConvergenceMover::provide_xml_schema(), protocols::symmetry::SetupForSymmetryMover::provide_xml_schema(), protocols::matdes::SymDofMover::provide_xml_schema(), protocols::ligand_docking::HighResDocker::provide_xml_schema(), protocols::docking::ConformerSwitchMover::provide_xml_schema(), protocols::splice::AlignEndsMover::provide_xml_schema(), protocols::environment::CoMTrackerCM::provide_xml_schema(), protocols::canonical_sampling::SilentTrajectoryRecorder::provide_xml_schema(), protocols::splice::SpliceInAntibody::provide_xml_schema(), protocols::protein_interface_design::movers::TryRotamers::provide_xml_schema(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC::provide_xml_schema(), protocols::loophash::LoopHashMoverWrapper::provide_xml_schema(), protocols::simple_moves::ShortBackrubMover::provide_xml_schema(), protocols::canonical_sampling::PDBTrajectoryRecorder::provide_xml_schema(), protocols::evolution::NucleotideMutation::provide_xml_schema(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::provide_xml_schema(), protocols::indexed_structure_store::movers::DirectSegmentLookupMover::provide_xml_schema(), protocols::denovo_design::movers::ExtendChainMover::provide_xml_schema(), protocols::pose_creation::ExtendedPoseMover::provide_xml_schema(), protocols::protein_interface_design::movers::DisulfideMover::provide_xml_schema(), protocols::simple_moves::ScoreMover::provide_xml_schema(), protocols::denovo_design::movers::AlignResiduesMover::provide_xml_schema(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCD::provide_xml_schema(), protocols::aa_composition::AddNetChargeConstraintMover::provide_xml_schema(), protocols::membrane::AqueousPoreFinder::provide_xml_schema(), protocols::membrane::benchmark::SampleTiltAngles::provide_xml_schema(), protocols::monte_carlo::MonteCarloReset::provide_xml_schema(), protocols::abinitio::abscript::ConstraintPreparer::provide_xml_schema(), protocols::canonical_sampling::TrialCounterObserver::provide_xml_schema(), protocols::simple_moves::PoseFromPoseResourceMover::provide_xml_schema(), protocols::abinitio::abscript::RigidChunkCM::provide_xml_schema(), protocols::membrane::SpinAroundPartnerMover::provide_xml_schema(), protocols::monte_carlo::MonteCarloRecover::provide_xml_schema(), protocols::fold_from_loops::movers::DisplayPoseLabelsMover::provide_xml_schema(), protocols::aa_composition::AddHelixSequenceConstraintsMover::provide_xml_schema(), protocols::relax::LocalRelax::provide_xml_schema(), protocols::indexed_structure_store::movers::SegmentSequenceProfileMover::provide_xml_schema(), protocols::membrane::AddMembraneSpanTermZConstraint::provide_xml_schema(), protocols::membrane::AddMembraneSpanConstraint::provide_xml_schema(), protocols::membrane::visualize::VisualizeEmbeddingMover::provide_xml_schema(), protocols::minimization_packing::TaskAwareMinMover::provide_xml_schema(), protocols::quantum_annealing::ExternalPackerResultLoader::provide_xml_schema(), protocols::monte_carlo::MonteCarloTest::provide_xml_schema(), protocols::ncbb::NcbbDockDesignProtocol::provide_xml_schema(), protocols::ncbb::oop::OopDockDesignProtocol::provide_xml_schema(), protocols::cyclic_peptide::SymmetricCycpepAlign::provide_xml_schema(), protocols::grafting::simple_movers::ReplaceRegionMover::provide_xml_schema(), protocols::relax::AtomCoordinateCstMover::provide_xml_schema(), protocols::aa_composition::AddMHCEpitopeConstraintMover::provide_xml_schema(), protocols::membrane::TiltMover::provide_xml_schema(), protocols::simple_moves::DumpSingleResidueRotamers::provide_xml_schema(), protocols::denovo_design::movers::DeclareStructureDataCovalentBondMover::provide_xml_schema(), protocols::rna::movers::RNAIdealizeMover::provide_xml_schema(), protocols::ligand_docking::TransformEnsemble::provide_xml_schema(), protocols::backbone_moves::RandomizeBBByRamaPrePro::provide_xml_schema(), protocols::minimization_packing::DisulfideOptimizationMover::provide_xml_schema(), protocols::moves::FilterReportAsPoseExtraScoresMover::provide_xml_schema(), protocols::forge::constraints::InvrotTreeRCG::provide_xml_schema(), protocols::constraint_movers::CstInfoMover::provide_xml_schema(), protocols::docking::DockSetupMover::provide_xml_schema(), protocols::ligand_docking::Translate::provide_xml_schema(), protocols::simple_moves::ReportEffectivePKA::provide_xml_schema(), protocols::backbone_moves::local_backbone_mover::LocalBackboneMover::provide_xml_schema(), protocols::simple_moves::ResetFullModelInfoMover::provide_xml_schema(), protocols::membrane::MPLipidAccessibility::provide_xml_schema(), protocols::simple_moves::sidechain_moves::JumpRotamerSidechainMover::provide_xml_schema(), protocols::chemically_conjugated_docking::UBQ_GTPaseMover::provide_xml_schema(), protocols::grafting::simple_movers::KeepRegionMover::provide_xml_schema(), protocols::farnesyl::SampleFarnesylMover::provide_xml_schema(), protocols::docking::DockMCMProtocol::provide_xml_schema(), protocols::calc_taskop_movers::ConsensusDesignMover::provide_xml_schema(), protocols::antibody::snugdock::SnugDock::provide_xml_schema(), protocols::membrane::MembranePositionFromTopologyMover::provide_xml_schema(), protocols::enzdes::EnzRepackMinimize::provide_xml_schema(), protocols::cryst::UpdateCrystInfo::provide_xml_schema(), protocols::rna::movers::ERRASER2Protocol::provide_xml_schema(), protocols::simple_moves::ConvertVirtualToRealMover::provide_xml_schema(), protocols::pose_creation::MergePDBMover::provide_xml_schema(), protocols::ncbb::ResidueReplacementRebuildMover::provide_xml_schema(), protocols::hybridization::BackboneTorsionPerturbation::provide_xml_schema(), protocols::hybridization::BackboneTorsionSampler::provide_xml_schema(), protocols::simple_moves::DeleteChainsMover::provide_xml_schema(), protocols::simple_moves::ConvertRealToVirtualMover::provide_xml_schema(), protocols::membrane::SetMembranePositionMover::provide_xml_schema(), protocols::membrane_benchmark::MembraneEnergyLandscapeSampler::provide_xml_schema(), protocols::enzdes::PackRotamersMoverPartGreedy::provide_xml_schema(), protocols::farnesyl::InstallFarnesylMover::provide_xml_schema(), protocols::fold_from_loops::movers::NubInitioLoopClosureMover::provide_xml_schema(), protocols::membrane::FlipMover::provide_xml_schema(), protocols::electron_density::BfactorFittingMover::provide_xml_schema(), protocols::flxbb::InterlockAroma::provide_xml_schema(), protocols::loops::loop_mover::refine::LoopMover_Refine_KIC::provide_xml_schema(), protocols::relax::membrane::MPFastRelaxMover::provide_xml_schema(), protocols::membrane_benchmark::PeptideOrientationMover::provide_xml_schema(), protocols::simple_moves::StorePoseSnapshot::provide_xml_schema(), protocols::simple_moves::sidechain_moves::PerturbChiSidechainMover::provide_xml_schema(), protocols::ligand_docking::HighResEnsemble::provide_xml_schema(), protocols::ncbb::oop::OopCreatorMover::provide_xml_schema(), protocols::antibody::AntibodyNumberingConverterMover::provide_xml_schema(), protocols::cyclic_peptide::TryDisulfPermutations::provide_xml_schema(), protocols::simple_moves::ConcatenatePosesMover::provide_xml_schema(), protocols::recces::scratch::ThermalMinimizer::provide_xml_schema(), protocols::symmetric_docking::membrane::MPSymDockMover::provide_xml_schema(), protocols::analysis::GlycanInfoMover::provide_xml_schema(), protocols::simple_moves::bin_transitions::InitializeByBins::provide_xml_schema(), protocols::membrane::AddMPLigandMover::provide_xml_schema(), protocols::antibody::constraints::ParatopeSiteConstraintMover::provide_xml_schema(), protocols::minimization_packing::RotamerTrialsMinMover::provide_xml_schema(), protocols::ligand_docking::Rotate::provide_xml_schema(), protocols::simple_moves::SimpleThreadingMover::provide_xml_schema(), protocols::docking::DockingHighResLegacy::provide_xml_schema(), protocols::forge::constraints::InverseRotamersRCG::provide_xml_schema(), protocols::membrane::visualize::VisualizeMembraneMover::provide_xml_schema(), protocols::loop_build::LoopMover_SlidingWindow::provide_xml_schema(), protocols::md::CartesianMD::provide_xml_schema(), protocols::hbnet::HBNetStapleInterface::provide_xml_schema(), protocols::switches::GraftSwitchMover::provide_xml_schema(), protocols::kinematic_closure::KicMover::provide_xml_schema(), protocols::recces::scratch::ThermalSamplingMover::provide_xml_schema(), protocols::ligand_docking::ProtLigEnsemble::provide_xml_schema(), protocols::simple_moves::PeriodicBoxMover::provide_xml_schema(), protocols::docking::membrane::MPDockingSetupMover::provide_xml_schema(), protocols::ncbb::SecStructMinimizeMover::provide_xml_schema(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD::provide_xml_schema(), protocols::backrub::BackrubProtocol::provide_xml_schema(), protocols::contact_map::ContactMap::provide_xml_schema(), protocols::fldsgn::potentials::SetAACompositionPotential::provide_xml_schema(), protocols::simple_moves::MutateResidue::provide_xml_schema(), protocols::denovo_design::movers::BridgeChainsMover::provide_xml_schema(), protocols::fold_from_loops::movers::SplitAndMixPoseMover::provide_xml_schema(), protocols::rotamer_recovery::RotamerRecoveryMover::provide_xml_schema(), protocols::dna::DnaInterfacePacker::provide_xml_schema(), protocols::cyclic_peptide::CrosslinkerMover::provide_xml_schema(), protocols::helical_bundle::PerturbBundleHelix::provide_xml_schema(), protocols::simple_moves::sidechain_moves::PerturbRotamerSidechainMover::provide_xml_schema(), protocols::pose_creation::PoseFromSequenceMover::provide_xml_schema(), protocols::simple_moves::CopyRotamerMover::provide_xml_schema(), protocols::rna::movers::ErraserMinimizerMover::provide_xml_schema(), protocols::minimization_packing::BoltzmannRotamerMover::provide_xml_schema(), protocols::minimization_packing::MinPackMover::provide_xml_schema(), protocols::membrane::TransformIntoMembraneMover::provide_xml_schema(), protocols::canonical_sampling::SimulatedTempering::provide_xml_schema(), protocols::idealize::IdealizeMover::provide_xml_schema(), protocols::simple_moves::BBGaussianMover::provide_xml_schema(), protocols::antibody::constraints::ParatopeEpitopeSiteConstraintMover::provide_xml_schema(), protocols::loophash::LoopHashDiversifier::provide_xml_schema(), protocols::docking::membrane::MPDockingMover::provide_xml_schema(), protocols::docking::DockingInitialPerturbation::provide_xml_schema(), protocols::simple_moves::ChangeAndResetFoldTreeMover::provide_xml_schema(), protocols::pose_length_moves::NearNativeLoopCloser::provide_xml_schema(), protocols::cryst::CrystRMS::provide_xml_schema(), protocols::cryst::RecomputeDensityMapMover::provide_xml_schema(), protocols::antibody::constraints::CDRDihedralConstraintMover::provide_xml_schema(), protocols::simple_moves::bin_transitions::PerturbByBins::provide_xml_schema(), protocols::simple_moves::CoupledMover::provide_xml_schema(), protocols::canonical_sampling::ParallelTempering::provide_xml_schema(), protocols::fldsgn::CircularPermutation::provide_xml_schema(), protocols::legacy_sewing::LegacyAssemblyConstraintsMover::provide_xml_schema(), protocols::fldsgn::potentials::SetSecStructEnergies::provide_xml_schema(), protocols::symmetry::ExtractAsymmetricUnitMover::provide_xml_schema(), protocols::canonical_sampling::HamiltonianExchange::provide_xml_schema(), protocols::cryst::MakeLayerMover::provide_xml_schema(), protocols::carbohydrates::LinkageConformerMover::provide_xml_schema(), protocols::helical_bundle::MakeBundleHelix::provide_xml_schema(), protocols::symmetric_docking::SymDockProtocol::provide_xml_schema(), protocols::calc_taskop_movers::CreateSequenceMotifMover::provide_xml_schema(), protocols::helical_bundle::FitSimpleHelix::provide_xml_schema(), protocols::simple_moves::sidechain_moves::SidechainMCMover::provide_xml_schema(), protocols::moves::RampingMover::provide_xml_schema(), protocols::enzdes::PredesignPerturbMover::provide_xml_schema(), protocols::antibody::AntibodyCDRGrafter::provide_xml_schema(), protocols::carbohydrates::CreateGlycanSequonMover::provide_xml_schema(), protocols::comparative_modeling::LoopRelaxMover::provide_xml_schema(), protocols::symmetry::ExtractAsymmetricPoseMover::provide_xml_schema(), protocols::docking::DockingSlideIntoContact::provide_xml_schema(), protocols::cryst::LoadDensityMapMover::provide_xml_schema(), protocols::moves::RandomMover::provide_xml_schema(), protocols::docking::DockingProtocol::provide_xml_schema(), protocols::backrub::BackrubSidechainMover::provide_xml_schema(), protocols::cryst::DockLatticeMover::provide_xml_schema(), protocols::forge::remodel::ResidueVicinityRCG::provide_xml_schema(), protocols::denovo_design::DisulfidizeMover::provide_xml_schema(), protocols::nmr::pcs::PCSLigandTransformMover::provide_xml_schema(), protocols::cryst::FitBfactorsMover::provide_xml_schema(), protocols::fldsgn::BluePrintBDR::provide_xml_schema(), protocols::loops::loop_closure::ccd::CCDLoopClosureMover::provide_xml_schema(), protocols::antibody::design::AntibodyDesignMover::provide_xml_schema(), protocols::carbohydrates::GlycanTreeModeler::provide_xml_schema(), protocols::simple_moves::sidechain_moves::SidechainMover::provide_xml_schema(), protocols::cryst::UpdateSolventMover::provide_xml_schema(), protocols::rigid::RigidBodyPerturbNoCenterMover::provide_xml_schema(), protocols::enzdes::UpdateEnzdesHeaderMover::provide_xml_schema(), protocols::moves::SwitchMover::provide_xml_schema(), protocols::cryst::TagPoseWithRefinementStatsMover::provide_xml_schema(), protocols::cryst::SetRefinementOptionsMover::provide_xml_schema(), protocols::cryst::MakeLatticeMover::provide_xml_schema(), protocols::backrub::BackrubMover::provide_xml_schema(), protocols::moves::PyMOLMover::provide_xml_schema(), protocols::rigid::RigidBodyTiltMover::provide_xml_schema(), protocols::analysis::InterfaceAnalyzerMover::provide_xml_schema(), protocols::motif_grafting::movers::MotifGraftMover::provide_xml_schema(), protocols::rigid::RigidBodyTransMover::provide_xml_schema(), protocols::forge::remodel::RemodelMover::provide_xml_schema(), and protocols::hbnet::HBNet::provide_xml_schema().

void protocols::moves::xsd_type_definition_w_attributes_and_repeatable_subelements	(	utility::tag::XMLSchemaDefinition &	xsd,
		std::string const &	mover_type,
		std::string const &	description,
		utility::tag::AttributeList const &	attributes,
		utility::tag::XMLSchemaSimpleSubelementList const &	subelements
	)

Define the XML schema definition for a Mover that contains subtags attributes (aka options).

References complex_type_name_for_mover().

Referenced by protocols::cyclic_peptide::CreateAngleConstraint::provide_xml_schema(), protocols::seeded_abinitio::DefineMovableLoops::provide_xml_schema(), protocols::ligand_docking::CompoundTranslate::provide_xml_schema(), protocols::seeded_abinitio::CoordinateCst::provide_xml_schema(), protocols::cyclic_peptide::CreateDistanceConstraint::provide_xml_schema(), protocols::seeded_abinitio::SwapSegment::provide_xml_schema(), protocols::protein_interface_design::movers::PrepackMover::provide_xml_schema(), protocols::seeded_abinitio::CAcstGenerator::provide_xml_schema(), protocols::cyclic_peptide::CreateTorsionConstraint::provide_xml_schema(), protocols::seeded_abinitio::CloseFold::provide_xml_schema(), protocols::seeded_abinitio::SeedSetupMover::provide_xml_schema(), protocols::rbsegment_relax::IdealizeHelicesMover::provide_xml_schema(), protocols::seeded_abinitio::GrowPeptides::provide_xml_schema(), protocols::simple_moves::RandomOmegaFlipMover::provide_xml_schema(), protocols::protein_interface_design::movers::BackrubDDMover::provide_xml_schema(), protocols::seeded_abinitio::SegmentHybridizer::provide_xml_schema(), protocols::simple_moves::RandomTorsionMover::provide_xml_schema(), protocols::splice::SpliceOutTail::provide_xml_schema(), protocols::environment::EnvMover::provide_xml_schema(), protocols::cyclic_peptide::PeptideCyclizeMover::provide_xml_schema(), protocols::splice::SpliceInTail::provide_xml_schema(), protocols::protein_interface_design::movers::MapHotspot::provide_xml_schema(), protocols::protein_interface_design::movers::PlacementMinimizationMover::provide_xml_schema(), protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover::provide_xml_schema(), protocols::protein_interface_design::movers::DockWithHotspotMover::provide_xml_schema(), protocols::protein_interface_design::movers::VLB::provide_xml_schema(), protocols::constraint_generator::AddConstraints::provide_xml_schema(), protocols::rigid::RollMover::provide_xml_schema(), protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover::provide_xml_schema(), protocols::seeded_abinitio::SeedFoldTree::provide_xml_schema(), protocols::loop_grower::FragmentExtension::provide_xml_schema(), protocols::simple_moves::RingConformationMover::provide_xml_schema(), protocols::splice::SpliceOut::provide_xml_schema(), protocols::splice::SpliceIn::provide_xml_schema(), protocols::carbohydrates::TautomerizeAnomerMover::provide_xml_schema(), protocols::carbohydrates::RingPlaneFlipMover::provide_xml_schema(), protocols::task_operations::StoreCompoundTaskMover::provide_xml_schema(), protocols::normalmode::NormalModeMinimizer::provide_xml_schema(), protocols::fldsgn::MatchResiduesMover::provide_xml_schema(), protocols::protein_interface_design::movers::PlacementAuctionMover::provide_xml_schema(), protocols::environment::ScriptCM::provide_xml_schema(), protocols::analysis::LoopAnalyzerMover::provide_xml_schema(), protocols::aa_composition::AddCompositionConstraintMover::provide_xml_schema(), protocols::ligand_docking::StartFrom::provide_xml_schema(), protocols::abinitio::abscript::AbscriptMover::provide_xml_schema(), protocols::minimization_packing::PertMinMover::provide_xml_schema(), protocols::cryst::SetCrystWeightMover::provide_xml_schema(), protocols::features::TrajectoryReportToDB::provide_xml_schema(), protocols::hybridization::CartesianSampler::provide_xml_schema(), protocols::simple_moves::DisulfideInsertionMover::provide_xml_schema(), protocols::analysis::simple_metrics::RunSimpleMetricsMover::provide_xml_schema(), protocols::match::MatcherMover::provide_xml_schema(), protocols::cyclic_peptide::PeptideStubMover::provide_xml_schema(), protocols::nonlocal::SingleFragmentMover::provide_xml_schema(), protocols::normalmode::NormalModeRelaxMover::provide_xml_schema(), protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::provide_xml_schema(), protocols::membrane::AddMembraneMover::provide_xml_schema(), protocols::membrane::symmetry::SymmetricAddMembraneMover::provide_xml_schema(), protocols::symmetry::SetupNCSMover::provide_xml_schema(), protocols::carbohydrates::GlycanTreeMinMover::provide_xml_schema(), protocols::rosetta_scripts::ParsedProtocol::provide_xml_schema(), protocols::simple_moves::SetTorsion::provide_xml_schema(), protocols::helical_bundle::PerturbBundle::provide_xml_schema(), protocols::loops::loop_closure::jacobi::JacobiLoopClosureMover::provide_xml_schema(), protocols::hybridization::HybridizeProtocol::provide_xml_schema(), protocols::ligand_docking::ga_ligand_dock::GALigandDock::provide_xml_schema(), protocols::carbohydrates::SimpleGlycosylateMover::provide_xml_schema(), protocols::carbohydrates::GlycanSampler::provide_xml_schema(), protocols::nmr::pre::PREMover::provide_xml_schema(), protocols::flxbb::FlxbbDesign::provide_xml_schema(), protocols::helical_bundle::MakeBundle::provide_xml_schema(), protocols::features::ReportToDB::provide_xml_schema(), protocols::splice::Splice::provide_xml_schema(), protocols::helical_bundle::BundleGridSampler::provide_xml_schema(), and protocols::helical_bundle::BackboneGridSampler::provide_xml_schema().