#include <AtomCoordinateCstMover.hh>

Public Types
typedef moves::Mover	parent

Public Types inherited from protocols::moves::Mover
typedef utility::tag::TagCOP	TagCOP

typedef core::pose::Pose	Pose

typedef core::pose::PoseCOP	PoseCOP

typedef protocols::filters::Filters_map	Filters_map

typedef std::list< std::string >	Strings

Public Member Functions
	AtomCoordinateCstMover ()

	AtomCoordinateCstMover (AtomCoordinateCstMover const &other)

	~AtomCoordinateCstMover ()

std::string	get_name () const
	Each derived class must specify its name. The class name. More...

virtual protocols::moves::MoverOP	fresh_instance () const
	Generates a new Mover object freshly created with the default ctor. More...

virtual protocols::moves::MoverOP	clone () const
	Return a clone of the Mover object. More...

virtual void	apply (core::pose::Pose &pose)

void	parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &data, protocols::filters::Filters_map const &, protocols::moves::Movers_map const &, core::pose::Pose const &)
	Called by MoverFactory when constructing new Movers. Takes care of the specific mover's parsing. More...

virtual void	set_refstruct (core::pose::PoseCOP ref)

void	cst_sd (core::Real sd)

core::Real	cst_sd () const

void	bounded (bool bound)

bool	bounded () const

void	cst_width (core::Real width)

core::Real	cst_width () const

void	cst_sidechain (bool sidechains)

bool	cst_sidechain () const

void	ambiguous_hnq (bool flip_hnq)

bool	ambiguous_hnq () const

void	set_loop_segments (protocols::loops::LoopsCOP loops)

void	set_task_segments (core::pack::task::TaskFactoryCOP taskfactory)

Public Member Functions inherited from protocols::moves::Mover
	Mover ()

virtual	~Mover ()

virtual MoverSP	create ()

virtual void	apply (core::io::serialization::PipeMap &pmap)

virtual void	parse_state (SerializableState const &state)

virtual void	parse_def (utility::lua::LuaObject const &def, utility::lua::LuaObject const &score_fxns, utility::lua::LuaObject const &tasks, MoverCacheSP cache)

virtual void	save_state (SerializableState &state)

	Mover (std::string const &type_name)
	sets the type for a mover; name_ has been removed (2010/05/14) More...

	Mover (Mover const &other)

Mover &	operator= (Mover const &other)
	assignment operator More...

virtual core::Real	last_proposal_density_ratio ()

std::string const &	type () const

std::string	get_current_tag () const
	A tag is a unique identifier used to identify structures produced by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor. More...

void	set_current_tag (std::string const &new_tag)

virtual void	set_input_pose (PoseCOP pose)
	setter for poses contained for rms More...

virtual void	set_native_pose (PoseCOP pose)
	setter for native poses contained for rms -— we should get rid of this method? it is widely used, but a bit unsafe More...

PoseCOP	get_input_pose () const

PoseCOP	get_native_pose () const

virtual void	test_move (Pose &pose)
	: Unit test support function. Apply one move to a given pose. Allows extra test specific functions to be called before applying More...

void	type (const std::string &type_in)

std::string	get_type () const

MoverStatus	get_last_move_status () const
	end parser interface, start Job Distributor interface///////////// More...

void	reset_status ()
	resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s. More...

virtual core::pose::PoseOP	get_additional_output ()
	Mechanism by which a mover may return multiple output poses from a single input pose. More...

virtual void	clear_info ()
	Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file. More...

virtual Strings &	info ()
	non-const accessor More...

virtual Strings const &	info () const
	const accessor More...

virtual bool	reinitialize_for_each_job () const
	Inform the Job Distributor (August '08 vintage) whether this object needs to be freshly regenerated on each use. More...

virtual bool	reinitialize_for_new_input () const
	Inform the Job Distributor (August '08 vintage) whether this object needs to be regenerated when the input pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose). More...

void	set_current_job (protocols::jobdist::BasicJobCOP job)

jobdist::BasicJobCOP	get_current_job () const

virtual void	show (std::ostream &output=std::cout) const
	Outputs details about the Mover, including current settings. More...

Private Attributes
core::pose::PoseCOP	refpose_
	If set, the pose to make the constraints to. More...

core::Real	cst_sd_
	The strenght (standard deviation) of the constraints. More...

bool	bounded_
	Use bounded constraints instead of harmonic. More...

core::Real	cst_width_
	The width for bounded constraints. More...

bool	cst_sidechain_
	Also constrain sidechains? More...

bool	amb_hnq_
	When making sidechain constraints, should we allow for flipping HNQ residue sidechains? More...

protocols::loops::LoopsCOP	loop_segments_
	A loop definition of constrained segments. More...

core::pack::task::TaskFactoryCOP	task_segments_
	A task definition of constrained segments. More...

Additional Inherited Members
Static Public Member Functions inherited from protocols::moves::Mover
static std::string	name ()

static void	register_options ()
	Overload this static method if you access options within the mover. More...

Protected Member Functions inherited from protocols::moves::Mover
void	set_last_move_status (MoverStatus status)
	nonvirtual setter for MoverStatus last_status_. Protected means that only the mover itself will be able to change its own status. The job distributor (august 08 vintage) is aware of status set with this function and will do what the MoverStatus says. More...

Member Typedef Documentation

typedef moves::Mover protocols::relax::AtomCoordinateCstMover::parent

Constructor & Destructor Documentation

protocols::relax::AtomCoordinateCstMover::AtomCoordinateCstMover ( )

Referenced by clone(), and fresh_instance().

protocols::relax::AtomCoordinateCstMover::AtomCoordinateCstMover ( AtomCoordinateCstMover const & other )

protocols::relax::AtomCoordinateCstMover::~AtomCoordinateCstMover ( )

Member Function Documentation

void protocols::relax::AtomCoordinateCstMover::ambiguous_hnq ( bool flip_hnq )

inline

References amb_hnq_.

Referenced by protocols::relax::RelaxProtocolBase::set_up_constraints().

bool protocols::relax::AtomCoordinateCstMover::ambiguous_hnq ( ) const

inline

References amb_hnq_.

Referenced by parse_my_tag().

void protocols::relax::AtomCoordinateCstMover::apply ( core::pose::Pose & pose )

virtual

void protocols::relax::AtomCoordinateCstMover::bounded ( bool bound )

inline

References bounded_.

Referenced by protocols::relax::RelaxProtocolBase::set_up_constraints().

bool protocols::relax::AtomCoordinateCstMover::bounded ( ) const

inline

References bounded_.

Referenced by parse_my_tag().

protocols::moves::MoverOP protocols::relax::AtomCoordinateCstMover::clone ( ) const

virtual

Return a clone of the Mover object.

clone is meant to return an OP'ed deep copy of this object. This really should be a pure virtual in the base class, but adding pure virtuals to Mover would massively disrupt the code. This default implementation crashes at runtime instead of compiletime if you try to call it. If this code is causing you problems, your Mover needs to override this function.

Reimplemented from protocols::moves::Mover.

References AtomCoordinateCstMover().

void protocols::relax::AtomCoordinateCstMover::cst_sd ( core::Real sd )

inline

References cst_sd_.

Referenced by protocols::relax::RelaxProtocolBase::set_up_constraints().

core::Real protocols::relax::AtomCoordinateCstMover::cst_sd ( ) const

inline

References cst_sd_.

Referenced by parse_my_tag().

void protocols::relax::AtomCoordinateCstMover::cst_sidechain ( bool sidechains )

inline

References cst_sidechain_.

Referenced by protocols::relax::RelaxProtocolBase::set_up_constraints().

bool protocols::relax::AtomCoordinateCstMover::cst_sidechain ( ) const

inline

References cst_sidechain_.

Referenced by parse_my_tag().

void protocols::relax::AtomCoordinateCstMover::cst_width ( core::Real width )

inline

References cst_width_.

Referenced by protocols::relax::RelaxProtocolBase::set_up_constraints().

core::Real protocols::relax::AtomCoordinateCstMover::cst_width ( ) const

inline

References cst_width_.

Referenced by parse_my_tag().

protocols::moves::MoverOP protocols::relax::AtomCoordinateCstMover::fresh_instance ( ) const

virtual

Generates a new Mover object freshly created with the default ctor.

fresh_instance is meant to return a new object of this class, created with the default constructor. This really should be a pure virtual in the base class, but adding pure virtuals to Mover would massively disrupt the code. This default implementation crashes at runtime instead of compiletime if you try to call it. If this code is causing you problems, your Mover needs to override this function. This is used by the August 08 job distributor.

Reimplemented from protocols::moves::Mover.

References AtomCoordinateCstMover().

std::string protocols::relax::AtomCoordinateCstMover::get_name ( ) const

inlinevirtual

Each derived class must specify its name. The class name.

Implements protocols::moves::Mover.

void protocols::relax::AtomCoordinateCstMover::parse_my_tag	(	utility::tag::TagCOP	tag,
		basic::datacache::DataMap &	data,
		protocols::filters::Filters_map const &	filters,
		protocols::moves::Movers_map const &	movers,
		core::pose::Pose const &	pose
	)

virtual

Called by MoverFactory when constructing new Movers. Takes care of the specific mover's parsing.

Some movers need not be parsed, so we shouldn't stop executions. This, however, calls attention to the lack of this method, which could be due to something as silly as a wrong parameters definition.

Reimplemented from protocols::moves::Mover.

References ambiguous_hnq(), bounded(), cst_sd(), cst_sidechain(), cst_width(), protocols::moves::Mover::get_native_pose(), protocols::rosetta_scripts::parse_task_operations(), refpose_, and set_task_segments().