#include <ExtendedPoseMover.hh>

Public Member Functions
	ExtendedPoseMover (const string &sequence="", const string &residue_type_set_="centroid")

void	apply (core::pose::Pose &pose)
	Creates an extended, idealized pose from the sequence and residue type set specified in the constructor. More...

string	get_name () const
	Returns the name of this mover. More...

bool	valid () const
	Returns true if this instance is valid (i.e. contains a sequence). Since RosettaScripts mandates the existence of a no-argument constructor, we lose the ability to reason about the validity of a particular instance. More...

const string &	sequence () const
	Returns the sequence. More...

const string &	residue_type_set () const
	Returns the residue type set. More...

void	sequence (const string &sequence)
	Updates the sequence to be used in calls to apply() More...

void	residue_type_set (const string &residue_type_set)
	Updates the residue type set to be used in calls to apply() More...

protocols::moves::MoverOP	clone () const
	Creates a replica of this protocols::moves::Mover. More...

protocols::moves::MoverOP	fresh_instance () const
	Creates a new instance by calling the no-argument constructor. More...

void	parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &data, const protocols::filters::Filters_map &filters, const protocols::moves::Movers_map &movers, const core::pose::Pose &pose)
	protocols::moves::Mover-specific parsing required by RosettaScripts More...

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 Types
typedef std::string	string

Private Attributes
string	sequence_

string	residue_type_set_

Additional Inherited Members
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

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 std::string protocols::simple_moves::ExtendedPoseMover::string

private

Constructor & Destructor Documentation

protocols::simple_moves::ExtendedPoseMover::ExtendedPoseMover	(	const string &	sequence = `""`,
		const string &	residue_type_set_ = `"centroid"`
	)

Member Function Documentation

void protocols::simple_moves::ExtendedPoseMover::apply ( core::pose::Pose & pose )

virtual

Creates an extended, idealized pose from the sequence and residue type set specified in the constructor.

Implements protocols::moves::Mover.

References core::pose::Pose::clear(), loops, core::pose::make_pose_from_sequence(), residue_type_set_, sequence_, protocols::loops::set_extended_torsions_and_idealize_loops(), and valid().

Referenced by protocols::hybridization::FoldTreeHybridize::add_strand_pairing().

protocols::moves::MoverOP protocols::simple_moves::ExtendedPoseMover::clone ( ) const

virtual

Creates a replica of this protocols::moves::Mover.

Reimplemented from protocols::moves::Mover.

protocols::moves::MoverOP protocols::simple_moves::ExtendedPoseMover::fresh_instance ( ) const

virtual

Creates a new instance by calling the no-argument constructor.

Reimplemented from protocols::moves::Mover.

std::string protocols::simple_moves::ExtendedPoseMover::get_name ( ) const

virtual

Returns the name of this mover.

Implements protocols::moves::Mover.

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

virtual

protocols::moves::Mover-specific parsing required by RosettaScripts

Reimplemented from protocols::moves::Mover.

References basic::options::OptionKeys::in::file::fasta, basic::options::option, core::sequence::read_fasta_file_return_str(), residue_type_set(), and sequence().

const std::string & protocols::simple_moves::ExtendedPoseMover::residue_type_set ( ) const

Returns the residue type set.

References residue_type_set_.

Referenced by parse_my_tag(), and residue_type_set().

void protocols::simple_moves::ExtendedPoseMover::residue_type_set ( const string & residue_type_set )

Updates the residue type set to be used in calls to apply()

References residue_type_set(), and residue_type_set_.

const std::string & protocols::simple_moves::ExtendedPoseMover::sequence ( ) const

Returns the sequence.

References sequence_.

Referenced by parse_my_tag(), sequence(), and valid().

void protocols::simple_moves::ExtendedPoseMover::sequence ( const string & sequence )

Updates the sequence to be used in calls to apply()

References sequence(), and sequence_.

bool protocols::simple_moves::ExtendedPoseMover::valid ( ) const

Returns true if this instance is valid (i.e. contains a sequence). Since RosettaScripts mandates the existence of a no-argument constructor, we lose the ability to reason about the validity of a particular instance.

References sequence().

Referenced by apply().

Member Data Documentation

string protocols::simple_moves::ExtendedPoseMover::residue_type_set_

private

Referenced by apply(), and residue_type_set().

string protocols::simple_moves::ExtendedPoseMover::sequence_

private

Referenced by apply(), and sequence().

The documentation for this class was generated from the following files:

symlinks/rosetta/src/protocols/simple_moves/ExtendedPoseMover.hh
symlinks/rosetta/src/protocols/simple_moves/ExtendedPoseMover.cc

Public Member Functions

Private Types

Private Attributes

Additional Inherited Members

Member Typedef Documentation

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation