#include <FoldArchitectMover.hh>

Inheritance diagram for protocols::denovo_design::movers::BuildDeNovoBackboneMover:

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

Public Member Functions inherited from protocols::denovo_design::movers::FoldArchitectMover
	FoldArchitectMover ()

	~FoldArchitectMover () override

protocols::moves::MoverOP	fresh_instance () const override
	required in the context of the parser/scripting scheme More...

protocols::moves::MoverOP	clone () const override
	required in the context of the parser/scripting scheme More...

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

void	parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &data) override
	parse XML tag (to use this Mover in Rosetta Scripts) More...

std::string const &	id () const

void	set_id (std::string const &id_value)
	Sets the ID of this mover. More...

void	set_architect (architects::DeNovoArchitect const &architect)
	Sets the architect that will be used to build blueprints dynamically. More...

void	set_folder (components::PoseFolder const &folder)
	Sets the pose folder that will be used to sample conformations. More...

void	set_folder (components::PoseFolderOP folder)
	Sets the pose folder that will be used to sample conformations. More...

void	set_builder (components::PoseBuilder const &builder)
	Sets the pose builder that will be used to create the extended-chain pose. More...

void	set_builder (components::PoseBuilderOP builder)
	Sets the pose builder that will be used to create the extended-chain pose. More...

void	set_perturber (components::StructureDataPerturber const &perturber)
	Sets the perturber that will be used to change the plans of the architects. More...

void	set_perturber (components::StructureDataPerturberOP perturber)
	Sets the perturber that will be used to change the plans of the architects. More...

void	set_start_segments (std::string const &segments_csv)
	sets names of segments to be included in the starting build phase More...

void	set_start_segments (SegmentNameSet const &segments)
	sets names of segments to be included in the starting build phase More...

void	set_stop_segments (std::string const &segments_csv)
	sets names of segments to be included in the final build phase More...

void	set_stop_segments (SegmentNameSet const &segments)
	sets names of segments to be included in the final build phase More...

void	set_build_overlap (core::Size const overlap_val)
	Sets the number of residues of overlap to use between build phases. More...

void	set_score_filter (protocols::filters::Filter const &filter)
	Sets the filter that will be used to evaluate the generated conformations. Used to return a score, not to evaluate true/false. More...

void	setup_from_xml_file (std::string const &xml_file, basic::datacache::DataMap &data)
	Reads/parses an XML file and uses it to set up the mover. More...

void	setup_from_xml_string (std::string const &xml_string, basic::datacache::DataMap &data)
	Reads/parses an XML string and uses it to set up the mover. More...

void	setup_from_xml_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &data)
	Reads/parses a Tag object and uses it to set up the mover. More...

void	clear_prefold_movers ()
	Clears the list of prefold movers. More...

void	add_prefold_mover (protocols::moves::Mover const &mover)
	Adds a mover to the list of prefold movers. More...

void	clear_postfold_movers ()
	Clears the list of postfold movers. More...

void	add_postfold_mover (protocols::moves::Mover const &mover)
	Adds a mover to the list of postfold movers. More...

void	add_filter (protocols::filters::Filter const &filter)
	Adds a filter to the list of filters that indicate whether a given folding attempt is was successful or not. All filters must pass for a successful folding attempt. More...

void	clear_filters ()
	Clears the list of filters used to indicate whether a given folding attempt is successful. More...

void	set_dump_pdbs (bool const dump)
	If true, extra PDBs will be outputted for debugging purposes. Could be useful for figuring out why folding attempts are failing. If false, no extra files are outputted. More...

void	set_debug (bool const debug)
	The debug value of the poseBuilder will be set based on this. More...

void	set_iterations_per_phase (core::Size const niter)
	Sets the number of folding attempts for each build phase. More...

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 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...

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 std::string	mover_name ()

static void	provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd)

Static Public Member Functions inherited from protocols::denovo_design::movers::FoldArchitectMover
static std::string	mover_name ()

static void	provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd)

static void	provide_xml_schema_with_name (utility::tag::XMLSchemaDefinition &xsd, std::string const &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...

Additional Inherited Members
Public Types inherited from protocols::denovo_design::movers::FoldArchitectMover
typedef core::Real	FoldScore

typedef utility::vector1 < connection::ConnectionArchitectCOP >	ConnectionArchitectCOPs

typedef utility::vector1 < protocols::moves::MoverOP >	MoverOPs

typedef utility::vector1 < protocols::filters::FilterCOP >	FilterCOPs

typedef core::select::residue_selector::ResidueVector	ResidueVector

typedef protocols::constraint_generator::ConstraintGeneratorOP	ConstraintGeneratorOP

typedef protocols::constraint_generator::ConstraintGeneratorCOP	ConstraintGeneratorCOP

typedef protocols::constraint_generator::ConstraintGeneratorCOPs	ConstraintGeneratorCOPs

typedef components::RegisterShift	RegisterShift

typedef components::StrandOrientation	StrandOrientation

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...