#include <RNA_DeNovoMasterMover.hh>

Inheritance diagram for protocols::rna::denovo::movers::RNA_DeNovoMasterMover:

[legend]

Public Member Functions
	RNA_DeNovoMasterMover (core::import_pose::options::RNA_FragmentMonteCarloOptionsCOP options, core::pose::toolbox::AtomLevelDomainMapCOP atom_level_domain_map, core::import_pose::RNA_BasePairHandlerCOP rna_base_pair_handler, protocols::rna::movers::RNA_LoopCloserOP rna_loop_closer, core::import_pose::libraries::RNA_ChunkLibraryOP rna_chunk_library, core::scoring::ScoreFunctionOP sfxn)

	~RNA_DeNovoMasterMover () override

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...

void	apply (core::pose::Pose &pose, core::Size const &cycle_number)

void	setup_rnp_fold_tree (core::pose::Pose &pose, bool const &refine_pose, bool const &randomize)

void	setup_rigid_body_mover (core::pose::Pose const &pose, core::Real const &rot_mag, core::Real const &trans_mag)

void	setup_dock_into_density_mover (core::pose::Pose const &pose, core::Real const &rot_mag, core::Real const &trans_mag)
	Only used for legacy RNP setup, will remove once all testing is complete. More...

void	setup_rna_protein_docking_mover (core::pose::Pose const &pose, core::Real const &rot_mag, core::Real const &trans_mag)

movers::RNA_FragmentMoverOP	rna_fragment_mover ()

core::import_pose::RNA_JumpMoverOP	rna_jump_mover ()

void	do_random_moves (core::pose::Pose &pose, core::Size const &monte_carlo_cycles, bool const &check_num_rna_res=false)

void	set_close_loops (bool const &setting)

bool	close_loops () const

void	set_frag_size (core::Size const &setting)

core::Size	frag_size () const

std::string	move_type () const

bool	success () const

void	search_rigid_body_orientation (core::pose::Pose &pose)

void	set_rna_helix_mover (movers::RNA_HelixMoverOP const rna_helix_mover)

movers::RNA_HelixMoverOP	rna_helix_mover ()

void	set_helix_mover_magnitude (core::Real const &rot_mag, core::Real const &trans_mag)

void	set_sfxn (core::scoring::ScoreFunctionOP const &sfxn)

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...

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...

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

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

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...

Private Member Functions
void	do_move_trial (core::Size const &i, core::pose::Pose &pose)

void	RNA_move_trial (core::pose::Pose &pose)

void	dock_into_density_trial (core::pose::Pose &pose)

void	random_jump_trial (core::pose::Pose &pose)

void	rnp_docking_trial (core::pose::Pose &pose)

void	random_fragment_trial (core::pose::Pose &pose)

bool	random_chunk_trial (core::pose::Pose &pose)

void	randomize_rigid_body_orientations (core::pose::Pose &pose)

void	randomize_rnp_rigid_body_orientations (core::pose::Pose &pose)

Private Attributes
core::import_pose::options::RNA_FragmentMonteCarloOptionsCOP	options_

core::Size	frag_size_

core::Real	jump_change_frequency_

core::Real	dock_into_density_freq_

bool	close_loops_

bool	do_rnp_docking_

std::string	move_type_

movers::RNA_FragmentMoverOP	rna_fragment_mover_

core::import_pose::RNA_JumpMoverOP	rna_jump_mover_

core::import_pose::libraries::RNA_ChunkLibraryOP	rna_chunk_library_

protocols::rna::movers::RNA_LoopCloserOP	rna_loop_closer_

protocols::rigid::RigidBodyPerturbMoverOP	rigid_body_mover_

protocols::rigid::RigidBodyPerturbMoverOP	rnp_docking_mover_

protocols::rigid::RigidBodyPerturbMoverOP	dock_into_density_mover_

core::kinematics::FoldTree	rnp_docking_ft_

movers::RNA_HelixMoverOP	rna_helix_mover_

core::scoring::ScoreFunctionOP	sfxn_

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

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...

Constructor & Destructor Documentation

◆ RNA_DeNovoMasterMover()

protocols::rna::denovo::movers::RNA_DeNovoMasterMover::RNA_DeNovoMasterMover	(	core::import_pose::options::RNA_FragmentMonteCarloOptionsCOP	options,
		core::pose::toolbox::AtomLevelDomainMapCOP	atom_level_domain_map,
		core::import_pose::RNA_BasePairHandlerCOP	rna_base_pair_handler,
		protocols::rna::movers::RNA_LoopCloserOP	rna_loop_closer,
		core::import_pose::libraries::RNA_ChunkLibraryOP	rna_chunk_library,
		core::scoring::ScoreFunctionOP	sfxn
	)

References jump_change_frequency_, options_, rna_fragment_mover_, rna_jump_mover_, and sfxn_.

◆ ~RNA_DeNovoMasterMover()

protocols::rna::denovo::movers::RNA_DeNovoMasterMover::~RNA_DeNovoMasterMover ( )

overridedefault

Member Function Documentation

◆ apply() [1/2]

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::apply ( core::pose::Pose & )

overridevirtual

Main Method.

Implements protocols::moves::Mover.

◆ apply() [2/2]

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::apply	(	core::pose::Pose &	pose,
		core::Size const &	cycle_number
	)

References do_move_trial().

◆ close_loops()

bool protocols::rna::denovo::movers::RNA_DeNovoMasterMover::close_loops ( ) const

inline

References close_loops_.

◆ do_move_trial()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::do_move_trial	(	core::Size const &	i,
		core::pose::Pose &	pose
	)

private

Do a move. RNA moves are fragment/jump/chunks. Every 10th iteration, try a RNA/protein docking move (K. Kappel)

References do_rnp_docking_, move_type_, options_, RNA_move_trial(), and rnp_docking_trial().

Referenced by apply().

◆ do_random_moves()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::do_random_moves	(	core::pose::Pose &	pose,
		core::Size const &	monte_carlo_cycles,
		bool const &	check_num_rna_res = `false`
	)

Initial 'heating' of model when starting from scratch – a bunch of fragment insertions, jumps, chunks, etc. with no energy function checks.

References core::pose::Pose::dump_pdb(), core::conformation::Residue::is_RNA(), protocols::mean_field::min(), options_, randomize_rigid_body_orientations(), core::pose::Pose::residue(), rna_chunk_library_, rna_fragment_mover_, core::pose::Pose::size(), protocols::rna::denovo::TR(), and protocols::rna::denovo::translate_virtual_anchor_to_first_rigid_body().

◆ dock_into_density_trial()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::dock_into_density_trial ( core::pose::Pose & pose )

private

References dock_into_density_mover_, move_type(), and move_type_.

Referenced by RNA_move_trial().

◆ frag_size()

core::Size protocols::rna::denovo::movers::RNA_DeNovoMasterMover::frag_size ( ) const

inline

References frag_size_.

◆ get_name()

std::string protocols::rna::denovo::movers::RNA_DeNovoMasterMover::get_name ( ) const

inlineoverridevirtual

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

Implements protocols::moves::Mover.

◆ move_type()

std::string protocols::rna::denovo::movers::RNA_DeNovoMasterMover::move_type ( ) const

inline

References move_type_.

Referenced by dock_into_density_trial(), random_jump_trial(), and rnp_docking_trial().

◆ random_chunk_trial()

bool protocols::rna::denovo::movers::RNA_DeNovoMasterMover::random_chunk_trial ( core::pose::Pose & pose )

private

References close_loops_, move_type_, rna_chunk_library_, and rna_loop_closer_.

Referenced by RNA_move_trial().

◆ random_fragment_trial()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::random_fragment_trial ( core::pose::Pose & pose )

private

References close_loops_, frag_size_, move_type_, rna_fragment_mover_, and rna_loop_closer_.

Referenced by RNA_move_trial().

◆ random_jump_trial()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::random_jump_trial ( core::pose::Pose & pose )

private

References close_loops_, move_type(), move_type_, options_, core::scoring::rg, rigid_body_mover_, rna_helix_mover_, rna_jump_mover_, rna_loop_closer_, and success().

Referenced by RNA_move_trial().

◆ randomize_rigid_body_orientations()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::randomize_rigid_body_orientations ( core::pose::Pose & pose )

private

References protocols::rigid::RigidBodyPerturbMover::apply(), protocols::rigid::RigidBodyRandomizeMover::apply(), core::pose::rna::get_rigid_body_jumps(), core::kinematics::Jump::get_translation(), core::pose::Pose::jump(), protocols::rigid::partner_upstream, core::pose::Pose::set_jump(), and core::kinematics::Jump::set_translation().

Referenced by do_random_moves().

◆ randomize_rnp_rigid_body_orientations()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::randomize_rnp_rigid_body_orientations ( core::pose::Pose & pose )

private

Kalli – this copies code from randomize_rigid_body_orientations – can we unify? – rhiju, 2017 yes, unified! but still need to keep this here for legacy RNP setup. will remove later once all testing is complete - Kalli, late 2017

References protocols::rigid::RigidBodyRandomizeMover::apply(), core::kinematics::FoldTree::downstream_jump_residue(), core::conformation::Residue::is_protein(), core::conformation::Residue::is_RNA(), core::kinematics::FoldTree::num_jump(), protocols::rigid::partner_upstream, core::pose::Pose::residue(), rnp_docking_ft_, and core::kinematics::FoldTree::upstream_jump_residue().

Referenced by setup_rnp_fold_tree().

◆ rna_fragment_mover()

movers::RNA_FragmentMoverOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rna_fragment_mover ( )

inline

References rna_fragment_mover_.

◆ rna_helix_mover()

movers::RNA_HelixMoverOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rna_helix_mover ( )

inline

References rna_helix_mover_.

Referenced by set_rna_helix_mover().

◆ rna_jump_mover()

core::import_pose::RNA_JumpMoverOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rna_jump_mover ( )

inline

References rna_jump_mover_.

◆ RNA_move_trial()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::RNA_move_trial ( core::pose::Pose & pose )

private

There are three kinds of insertions – (1) fragment insertions for, e.g., contiguous 3-mers (2) jump changes (tweaking base pairs) and (3) "chunk insertions", which change out whole loops, motifs, or junctions based on previous models stored in silent files

References dock_into_density_freq_, dock_into_density_trial(), jump_change_frequency_, options_, random_chunk_trial(), random_fragment_trial(), random_jump_trial(), core::scoring::rg, and rna_chunk_library_.

Referenced by do_move_trial().

◆ rnp_docking_trial()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rnp_docking_trial ( core::pose::Pose & pose )

private

References core::scoring::Energies::clear(), core::pose::Pose::energies(), core::pose::Pose::fold_tree(), move_type(), move_type_, rnp_docking_ft_, and rnp_docking_mover_.

Referenced by do_move_trial().

◆ search_rigid_body_orientation()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::search_rigid_body_orientation ( core::pose::Pose & pose )

References protocols::rigid::RigidBodyRandomizeMover::apply(), core::scoring::Energies::clear(), core::scoring::ScoreFunctionFactory::create_score_function(), core::kinematics::FoldTree::downstream_jump_residue(), core::scoring::elec_dens_fast, core::pose::Pose::energies(), core::pose::Pose::fold_tree(), core::conformation::Residue::is_protein(), core::conformation::Residue::is_RNA(), core::kinematics::FoldTree::num_jump(), options_, protocols::rigid::partner_downstream, protocols::rigid::partner_upstream, core::pose::Pose::residue(), rnp_docking_ft_, core::kinematics::MoveMap::set_jump(), and core::kinematics::FoldTree::upstream_jump_residue().

◆ set_close_loops()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::set_close_loops ( bool const & setting )

inline

References close_loops_.

◆ set_frag_size()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::set_frag_size ( core::Size const & setting )

inline

References frag_size_.

◆ set_helix_mover_magnitude()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::set_helix_mover_magnitude	(	core::Real const &	rot_mag,
		core::Real const &	trans_mag
	)

References rna_helix_mover_.

◆ set_rna_helix_mover()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::set_rna_helix_mover ( movers::RNA_HelixMoverOP const rna_helix_mover )

inline

References rna_helix_mover(), and rna_helix_mover_.

◆ set_sfxn()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::set_sfxn ( core::scoring::ScoreFunctionOP const & sfxn )

inline

References sfxn_.

◆ setup_dock_into_density_mover()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::setup_dock_into_density_mover	(	core::pose::Pose const &	pose,
		core::Real const &	rot_mag,
		core::Real const &	trans_mag
	)

Only used for legacy RNP setup, will remove once all testing is complete.

References core::conformation::Residue::aa(), core::chemical::aa_vrt, dock_into_density_mover_, core::pose::Pose::fold_tree(), options_, protocols::rigid::partner_upstream, core::pose::Pose::residue(), core::kinematics::MoveMap::set_jump(), and core::kinematics::FoldTree::upstream_jump_residue().

◆ setup_rigid_body_mover()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::setup_rigid_body_mover	(	core::pose::Pose const &	pose,
		core::Real const &	rot_mag,
		core::Real const &	trans_mag
	)

References jump_change_frequency_, protocols::rna::denovo::let_rigid_body_jumps_move(), options_, protocols::rigid::partner_upstream, rigid_body_mover_, core::kinematics::MoveMap::set_jump(), and protocols::rna::denovo::TR().

◆ setup_rna_protein_docking_mover()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::setup_rna_protein_docking_mover	(	core::pose::Pose const &	pose,
		core::Real const &	rot_mag,
		core::Real const &	trans_mag
	)

Kalli – this copies code from setup_rigid_body_mover – can we unify? – rhiju, 2017 yes, unified! but still need to keep this here for legacy RNP setup. will remove later once all testing is complete - Kalli, late 2017

References do_rnp_docking_, core::kinematics::FoldTree::downstream_jump_residue(), core::conformation::Residue::is_protein(), core::conformation::Residue::is_RNA(), core::kinematics::FoldTree::num_jump(), protocols::rigid::partner_upstream, core::pose::Pose::residue(), rnp_docking_ft_, rnp_docking_mover_, core::kinematics::MoveMap::set_jump(), protocols::rna::denovo::TR(), and core::kinematics::FoldTree::upstream_jump_residue().

◆ setup_rnp_fold_tree()

void protocols::rna::denovo::movers::RNA_DeNovoMasterMover::setup_rnp_fold_tree	(	core::pose::Pose &	pose,
		bool const &	refine_pose,
		bool const &	randomize
	)

References core::scoring::Energies::clear(), core::pose::Pose::dump_pdb(), core::pose::Pose::energies(), core::pose::Pose::fold_tree(), protocols::rna::denovo::get_rnp_docking_fold_tree(), options_, randomize_rnp_rigid_body_orientations(), and rnp_docking_ft_.

◆ success()

bool protocols::rna::denovo::movers::RNA_DeNovoMasterMover::success ( ) const

inline

References move_type_.

Referenced by random_jump_trial().

Member Data Documentation

◆ close_loops_

bool protocols::rna::denovo::movers::RNA_DeNovoMasterMover::close_loops_

private

Referenced by close_loops(), random_chunk_trial(), random_fragment_trial(), random_jump_trial(), and set_close_loops().

◆ do_rnp_docking_

bool protocols::rna::denovo::movers::RNA_DeNovoMasterMover::do_rnp_docking_

private

Referenced by do_move_trial(), and setup_rna_protein_docking_mover().

◆ dock_into_density_freq_

core::Real protocols::rna::denovo::movers::RNA_DeNovoMasterMover::dock_into_density_freq_

private

Referenced by RNA_move_trial().

◆ dock_into_density_mover_

protocols::rigid::RigidBodyPerturbMoverOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::dock_into_density_mover_

private

Referenced by dock_into_density_trial(), and setup_dock_into_density_mover().

◆ frag_size_

core::Size protocols::rna::denovo::movers::RNA_DeNovoMasterMover::frag_size_

private

Referenced by frag_size(), random_fragment_trial(), and set_frag_size().

◆ jump_change_frequency_

core::Real protocols::rna::denovo::movers::RNA_DeNovoMasterMover::jump_change_frequency_

private

Referenced by RNA_DeNovoMasterMover(), RNA_move_trial(), and setup_rigid_body_mover().

◆ move_type_

std::string protocols::rna::denovo::movers::RNA_DeNovoMasterMover::move_type_

private

Referenced by do_move_trial(), dock_into_density_trial(), move_type(), random_chunk_trial(), random_fragment_trial(), random_jump_trial(), rnp_docking_trial(), and success().

◆ options_

core::import_pose::options::RNA_FragmentMonteCarloOptionsCOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::options_

private

Referenced by do_move_trial(), do_random_moves(), random_jump_trial(), RNA_DeNovoMasterMover(), RNA_move_trial(), search_rigid_body_orientation(), setup_dock_into_density_mover(), setup_rigid_body_mover(), and setup_rnp_fold_tree().

◆ rigid_body_mover_

protocols::rigid::RigidBodyPerturbMoverOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rigid_body_mover_

private

Referenced by random_jump_trial(), and setup_rigid_body_mover().

◆ rna_chunk_library_

core::import_pose::libraries::RNA_ChunkLibraryOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rna_chunk_library_

private

Referenced by do_random_moves(), random_chunk_trial(), and RNA_move_trial().

◆ rna_fragment_mover_

movers::RNA_FragmentMoverOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rna_fragment_mover_

private

Referenced by do_random_moves(), random_fragment_trial(), RNA_DeNovoMasterMover(), and rna_fragment_mover().

◆ rna_helix_mover_

movers::RNA_HelixMoverOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rna_helix_mover_

private

Referenced by random_jump_trial(), rna_helix_mover(), set_helix_mover_magnitude(), and set_rna_helix_mover().

◆ rna_jump_mover_

core::import_pose::RNA_JumpMoverOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rna_jump_mover_

private

Referenced by random_jump_trial(), RNA_DeNovoMasterMover(), and rna_jump_mover().

◆ rna_loop_closer_

protocols::rna::movers::RNA_LoopCloserOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rna_loop_closer_

private

Referenced by random_chunk_trial(), random_fragment_trial(), and random_jump_trial().

◆ rnp_docking_ft_

core::kinematics::FoldTree protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rnp_docking_ft_

private

Referenced by randomize_rnp_rigid_body_orientations(), rnp_docking_trial(), search_rigid_body_orientation(), setup_rna_protein_docking_mover(), and setup_rnp_fold_tree().

◆ rnp_docking_mover_

protocols::rigid::RigidBodyPerturbMoverOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::rnp_docking_mover_

private

Referenced by rnp_docking_trial(), and setup_rna_protein_docking_mover().

◆ sfxn_

core::scoring::ScoreFunctionOP protocols::rna::denovo::movers::RNA_DeNovoMasterMover::sfxn_

private

Referenced by RNA_DeNovoMasterMover(), and set_sfxn().

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

src/protocols/rna/denovo/movers/RNA_DeNovoMasterMover.hh
src/protocols/rna/denovo/movers/RNA_DeNovoMasterMover.cc

Public Member Functions

Private Member Functions

Private Attributes

Additional Inherited Members

Constructor & Destructor Documentation

◆ RNA_DeNovoMasterMover()

◆ ~RNA_DeNovoMasterMover()

Member Function Documentation

◆ apply() [1/2]

◆ apply() [2/2]

◆ close_loops()

◆ do_move_trial()

◆ do_random_moves()

◆ dock_into_density_trial()

◆ frag_size()

◆ get_name()

◆ move_type()

◆ random_chunk_trial()

◆ random_fragment_trial()

◆ random_jump_trial()

◆ randomize_rigid_body_orientations()

◆ randomize_rnp_rigid_body_orientations()

◆ rna_fragment_mover()

◆ rna_helix_mover()

◆ rna_jump_mover()

◆ RNA_move_trial()

◆ rnp_docking_trial()

◆ search_rigid_body_orientation()

◆ set_close_loops()

◆ set_frag_size()

◆ set_helix_mover_magnitude()

◆ set_rna_helix_mover()

◆ set_sfxn()

◆ setup_dock_into_density_mover()

◆ setup_rigid_body_mover()

◆ setup_rna_protein_docking_mover()

◆ setup_rnp_fold_tree()

◆ success()

Member Data Documentation

◆ close_loops_

◆ do_rnp_docking_

◆ dock_into_density_freq_

◆ dock_into_density_mover_

◆ frag_size_

◆ jump_change_frequency_

◆ move_type_

◆ options_

◆ rigid_body_mover_

◆ rna_chunk_library_

◆ rna_fragment_mover_

◆ rna_helix_mover_

◆ rna_jump_mover_

◆ rna_loop_closer_

◆ rnp_docking_ft_

◆ rnp_docking_mover_

◆ sfxn_