FloppyTail mover. More...

#include <TailSegmentMover.hh>

Inheritance diagram for protocols::splice::TailSegmentMover:

[legend]

Public Member Functions
	TailSegmentMover ()
	ctor with no arguments More...

	TailSegmentMover (TailSegmentMover const &rhs)
	copy ctor More...

TailSegmentMover &	operator= (TailSegmentMover const &rhs)
	assignment operator More...

	~TailSegmentMover () override

virtual void	set_movemap (core::kinematics::MoveMapOP const movemap)
	set the movemap instead of initializing it from cmd-line More...

virtual void	set_fa_scorefxn (core::scoring::ScoreFunctionOP const fa_scorefxn)

void	apply (core::pose::Pose &pose) override
	Main Method. More...

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

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

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

bool	reinitialize_for_new_input () const override
	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	temp_initial (core::Real value)

void	temp_final (core::Real value)

void	set_task_factory (core::pack::task::TaskFactoryCOP task_factory_in)

void	fullatom_scorefunction (core::scoring::ScoreFunctionOP SF_in)

void	parse_my_tag (TagCOP tag, basic::datacache::DataMap &data) override
	Called by MoverFactory when constructing new Movers. Takes care of the specific mover's parsing. More...

core::scoring::ScoreFunctionOP	get_scorefunction ()

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

virtual MoverOP	create ()

MoverCOP	get_self_ptr () const

MoverOP	get_self_ptr ()

MoverCAP	get_self_weak_ptr () const

MoverAP	get_self_weak_ptr ()

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

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...

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

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...

void	set_type (std::string const &setting)
	Set the 'type' string. More...

std::string	get_type () const

void	type (const std::string &type_in)
	Set the 'type' string. More...

std::string const &	type () const
	Get the set 'type' string. More...

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

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

jobdist::BasicJobCOP	get_current_job () const

virtual void	set_current_tag (std::string const &new_tag)

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...

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

virtual core::Real	last_proposal_density_ratio ()

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 void	provide_citation_info (basic::citation_manager::CitationCollectionList &) const
	Provide citations to the passed CitationCollectionList Subclasses should add the info for themselves and any other classes they use. More...

Static Public Member Functions
static void	provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd)

static std::string	mover_name ()

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...

Private Attributes
core::Size	start_

core::Size	stop_

bool	init_for_input_yet_

core::scoring::ScoreFunctionOP	centroid_scorefunction_

core::scoring::ScoreFunctionOP	fullatom_scorefunction_

core::pack::task::TaskFactoryOP	task_factory_

core::kinematics::MoveMapOP	movemap_

core::kinematics::MoveMapOP	movemap_lesstail_

core::kinematics::FoldTreeOP	foldtree_
	stored so that it can be generated in the init_on_new_input function More...

core::Real	temp_initial_

core::Real	temp_final_

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 std::list< std::string >	Strings

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...

Detailed Description

FloppyTail mover.

Constructor & Destructor Documentation

◆ TailSegmentMover() [1/2]

protocols::splice::TailSegmentMover::TailSegmentMover ( )

ctor with no arguments

References protocols::moves::Mover::type().

◆ TailSegmentMover() [2/2]

protocols::splice::TailSegmentMover::TailSegmentMover ( TailSegmentMover const & rhs )

copy ctor

◆ ~TailSegmentMover()

protocols::splice::TailSegmentMover::~TailSegmentMover ( )

overridedefault

Member Function Documentation

◆ apply()

void protocols::splice::TailSegmentMover::apply ( core::pose::Pose & )

overridevirtual

Main Method.

Implements protocols::moves::Mover.

References core::pose::Pose::fold_tree(), fullatom_scorefunction_, movemap_, protocols::moves::MS_SUCCESS, protocols::rosetta_scripts::residue_packer_states(), protocols::moves::Mover::set_last_move_status(), core::pose::Pose::size(), start_, stop_, task_factory_, temp_initial_, and protocols::splice::TR().

Referenced by protocols::splice::Splice::apply().

◆ fresh_instance()

protocols::moves::MoverOP protocols::splice::TailSegmentMover::fresh_instance ( ) const

inlineoverridevirtual

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.

◆ fullatom_scorefunction()

void protocols::splice::TailSegmentMover::fullatom_scorefunction ( core::scoring::ScoreFunctionOP SF_in )

inline

References fullatom_scorefunction_.

Referenced by parse_my_tag().

◆ get_name()

std::string protocols::splice::TailSegmentMover::get_name ( ) const

inlineoverridevirtual

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

Implements protocols::moves::Mover.

◆ get_scorefunction()

core::scoring::ScoreFunctionOP protocols::splice::TailSegmentMover::get_scorefunction ( )

inline

References fullatom_scorefunction_.

◆ mover_name()

std::string protocols::splice::TailSegmentMover::mover_name ( )

static

Referenced by provide_xml_schema().

◆ operator=()

TailSegmentMover & protocols::splice::TailSegmentMover::operator= ( TailSegmentMover const & rhs )

assignment operator

References centroid_scorefunction_, foldtree_, fullatom_scorefunction_, init_for_input_yet_, movemap_, movemap_lesstail_, start_, stop_, and task_factory_.

◆ parse_my_tag()

void protocols::splice::TailSegmentMover::parse_my_tag	(	TagCOP	tag,
		basic::datacache::DataMap &	data
	)

overridevirtual

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 force people to reimplement this method. However, we should be chatty about the fact that someone is using a RosettaScripts interface to a mover which didn't define parse_my_tag()

Reimplemented from protocols::moves::Mover.

References fullatom_scorefunction(), core::scoring::parse_score_function(), core::pack::task::parse_task_operations(), and set_task_factory().

◆ provide_xml_schema()

void protocols::splice::TailSegmentMover::provide_xml_schema ( utility::tag::XMLSchemaDefinition & xsd )

static

References core::scoring::attributes_for_parse_score_function(), core::pack::task::attributes_for_parse_task_operations(), mover_name(), and protocols::moves::xsd_type_definition_w_attributes().

Referenced by protocols::splice::TailSegmentMoverCreator::provide_xml_schema().

◆ reinitialize_for_each_job()

bool protocols::splice::TailSegmentMover::reinitialize_for_each_job ( ) const

inlineoverridevirtual

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

Movers default to not regenerating

Reimplemented from protocols::moves::Mover.

◆ reinitialize_for_new_input()

bool protocols::splice::TailSegmentMover::reinitialize_for_new_input ( ) const

inlineoverridevirtual

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).

Movers default to not regenerating

Reimplemented from protocols::moves::Mover.

◆ set_fa_scorefxn()

void protocols::splice::TailSegmentMover::set_fa_scorefxn ( core::scoring::ScoreFunctionOP const fa_scorefxn )

virtual

References fullatom_scorefunction_.

Referenced by protocols::splice::Splice::apply().

◆ set_movemap()

void protocols::splice::TailSegmentMover::set_movemap ( core::kinematics::MoveMapOP const movemap )

virtual

set the movemap instead of initializing it from cmd-line

References movemap_.

Referenced by protocols::splice::Splice::apply().

◆ set_task_factory()

void protocols::splice::TailSegmentMover::set_task_factory ( core::pack::task::TaskFactoryCOP task_factory_in )

References task_factory_.

Referenced by protocols::splice::Splice::apply(), and parse_my_tag().

◆ temp_final()

void protocols::splice::TailSegmentMover::temp_final ( core::Real value )

inline

References temp_final_.

◆ temp_initial()

void protocols::splice::TailSegmentMover::temp_initial ( core::Real value )

inline

References temp_initial_.

Referenced by protocols::splice::Splice::apply().

Member Data Documentation

◆ centroid_scorefunction_

core::scoring::ScoreFunctionOP protocols::splice::TailSegmentMover::centroid_scorefunction_

private

Referenced by operator=().

◆ foldtree_

core::kinematics::FoldTreeOP protocols::splice::TailSegmentMover::foldtree_

private

stored so that it can be generated in the init_on_new_input function

Referenced by operator=().

◆ fullatom_scorefunction_

core::scoring::ScoreFunctionOP protocols::splice::TailSegmentMover::fullatom_scorefunction_

private

Referenced by apply(), fullatom_scorefunction(), get_scorefunction(), operator=(), and set_fa_scorefxn().

◆ init_for_input_yet_

bool protocols::splice::TailSegmentMover::init_for_input_yet_

private

Referenced by operator=().

◆ movemap_

core::kinematics::MoveMapOP protocols::splice::TailSegmentMover::movemap_

private

Referenced by apply(), operator=(), and set_movemap().

◆ movemap_lesstail_

core::kinematics::MoveMapOP protocols::splice::TailSegmentMover::movemap_lesstail_

private

Referenced by operator=().

◆ start_

core::Size protocols::splice::TailSegmentMover::start_

private

Referenced by apply(), and operator=().

◆ stop_

core::Size protocols::splice::TailSegmentMover::stop_

private

Referenced by apply(), and operator=().

◆ task_factory_

core::pack::task::TaskFactoryOP protocols::splice::TailSegmentMover::task_factory_

private

Referenced by apply(), operator=(), and set_task_factory().

◆ temp_final_

core::Real protocols::splice::TailSegmentMover::temp_final_

private

Referenced by temp_final().

◆ temp_initial_

core::Real protocols::splice::TailSegmentMover::temp_initial_

private

Referenced by apply(), and temp_initial().

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

src/protocols/splice/TailSegmentMover.hh
src/protocols/splice/TailSegmentMover.cc

Public Member Functions

Static Public Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ TailSegmentMover() [1/2]

◆ TailSegmentMover() [2/2]

◆ ~TailSegmentMover()

Member Function Documentation

◆ apply()

◆ fresh_instance()

◆ fullatom_scorefunction()

◆ get_name()

◆ get_scorefunction()

◆ mover_name()

◆ operator=()

◆ parse_my_tag()

◆ provide_xml_schema()

◆ reinitialize_for_each_job()

◆ reinitialize_for_new_input()

◆ set_fa_scorefxn()

◆ set_movemap()

◆ set_task_factory()

◆ temp_final()

◆ temp_initial()

Member Data Documentation

◆ centroid_scorefunction_

◆ foldtree_

◆ fullatom_scorefunction_

◆ init_for_input_yet_

◆ movemap_

◆ movemap_lesstail_

◆ start_

◆ stop_

◆ task_factory_

◆ temp_final_

◆ temp_initial_