protocols::rbsegment_relax::RBSegmentRelax Class Reference

#include <RBSegmentRelax.hh>

Inheritance diagram for protocols::rbsegment_relax::RBSegmentRelax:

Collaboration diagram for protocols::rbsegment_relax::RBSegmentRelax:

List of all members.

Public Member Functions
	RBSegmentRelax ()
	RBSegmentRelax (core::scoring::ScoreFunctionOP scorefxn, utility::vector1< RBSegment > const &RBSegment_input, protocols::loops::Loops const &Loops_input)
	~RBSegmentRelax ()
void	initialize (utility::vector1< core::fragment::FragSetOP > const &frag_libs, core::Real rnd=0.0)
	setup_RBSegmentRelax; initialize movesets to defaults
void	apply (core::pose::Pose &pose)
	apply method
virtual std::string	get_name () const
	Each derived class must specify its name. The class name.
void	add_helixMover (RBSegmentMoverOP newMover)
void	add_strandMover (RBSegmentMoverOP newMover)
void	add_genericRBMover (RBSegmentMoverOP newMover)
void	add_compositeSegmentMover (RBSegmentMoverOP newMover)
void	add_wholeStructureMover (protocols::moves::MoverOP newMover)
void	clear_movesets ()
void	set_temperature (core::Real start, core::Real final)
void	set_helicalMoveStepsize (core::Real onAxisTrans, core::Real onAxisRot, core::Real offAxisTrans, core::Real offAxisRot)
void	set_genericRBMoveStepsize (core::Real trans, core::Real rot)
void	set_ncycles (int ncycles)
void	set_cst_weight (core::Real wt)
void	set_cst_width (core::Real width)
void	set_randomize (core::Size rand)
void	set_bootstrap (bool boot)
void	set_skip_lr (bool skip)
void	set_fix_ligands (bool fix)

---

Constructor & Destructor Documentation

protocols::rbsegment_relax::RBSegmentRelax::RBSegmentRelax

(

)

protocols::rbsegment_relax::RBSegmentRelax::RBSegmentRelax	(	core::scoring::ScoreFunctionOP	scorefxn,
		utility::vector1< RBSegment > const &	RBSegment_input,
		protocols::loops::Loops const &	Loops_input
	)

protocols::rbsegment_relax::RBSegmentRelax::~RBSegmentRelax

(

)

---

Member Function Documentation

void protocols::rbsegment_relax::RBSegmentRelax::add_compositeSegmentMover

(

RBSegmentMoverOP

newMover

)

void protocols::rbsegment_relax::RBSegmentRelax::add_genericRBMover

(

RBSegmentMoverOP

newMover

)

void protocols::rbsegment_relax::RBSegmentRelax::add_helixMover

(

RBSegmentMoverOP

newMover

)

void protocols::rbsegment_relax::RBSegmentRelax::add_strandMover

(

RBSegmentMoverOP

newMover

)

void protocols::rbsegment_relax::RBSegmentRelax::add_wholeStructureMover

(

protocols::moves::MoverOP

newMover

)

void protocols::rbsegment_relax::RBSegmentRelax::apply

(

core::pose::Pose &

pose

)

[virtual]

apply method

Implements protocols::moves::Mover.

References protocols::viewer::add_conformation_viewer(), core::scoring::electron_density::add_dens_scores_from_cmdline_to_scorefxn(), protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::simple_moves::PackRotamersMover::apply(), protocols::moves::Mover::clone(), protocols::comparative_modeling::LoopRelaxMover::cmd_line_csts(), core::scoring::coordinate_constraint, core::pack::task::TaskFactory::create_packer_task(), make_table_of_pilot_apps::f, protocols::comparative_modeling::LoopRelaxMover::fa_scorefxn(), core::pose::Pose::fold_tree(), protocols::forge::methods::fold_tree_from_loops(), protocols::comparative_modeling::LoopRelaxMover::frag_libs(), core::scoring::getScoreFunction(), protocols::loops::idealize_loop(), protocols::comparative_modeling::LoopRelaxMover::intermedrelax(), core::kinematics::FoldTree::is_cutpoint(), core::pose::Pose::is_fullatom(), core::conformation::Residue::is_ligand(), protocols::comparative_modeling::LoopRelaxMover::loops(), protocols::comparative_modeling::LoopRelaxMover::refine(), protocols::comparative_modeling::LoopRelaxMover::relax(), protocols::rbsegment_relax::remap_rb_segments(), protocols::comparative_modeling::LoopRelaxMover::remodel(), core::pose::Pose::residue(), protocols::rbsegment_relax::restore_pose_from_rbsegs(), protocols::rbsegment_relax::set_constraints(), core::pose::Pose::set_omega(), core::pose::Pose::set_phi(), core::pose::Pose::set_psi(), protocols::rbsegment_relax::set_rb_constraints(), protocols::rbsegment_relax::setup_pose_from_rbsegs(), core::pose::Pose::total_residue(), and protocols::rbsegment_relax::TS().

void protocols::rbsegment_relax::RBSegmentRelax::clear_movesets

(

)

std::string protocols::rbsegment_relax::RBSegmentRelax::get_name

(

)

const [virtual]

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

Implements protocols::moves::Mover.

void protocols::rbsegment_relax::RBSegmentRelax::initialize	(	utility::vector1< core::fragment::FragSetOP > const &	frag_libs,
		core::Real	rnd = 0.0
	)

setup_RBSegmentRelax; initialize movesets to defaults

void protocols::rbsegment_relax::RBSegmentRelax::set_bootstrap

(

bool

boot

)

[inline]

void protocols::rbsegment_relax::RBSegmentRelax::set_cst_weight

(

core::Real

wt

)

void protocols::rbsegment_relax::RBSegmentRelax::set_cst_width

(

core::Real

width

)

void protocols::rbsegment_relax::RBSegmentRelax::set_fix_ligands

(

bool

fix

)

[inline]

void protocols::rbsegment_relax::RBSegmentRelax::set_genericRBMoveStepsize	(	core::Real	trans,
		core::Real	rot
	)

References rot(), and trans().

void protocols::rbsegment_relax::RBSegmentRelax::set_helicalMoveStepsize	(	core::Real	onAxisTrans,
		core::Real	onAxisRot,
		core::Real	offAxisTrans,
		core::Real	offAxisRot
	)

void protocols::rbsegment_relax::RBSegmentRelax::set_ncycles

(

int

ncycles

)

void protocols::rbsegment_relax::RBSegmentRelax::set_randomize

(

core::Size

rand

)

[inline]

void protocols::rbsegment_relax::RBSegmentRelax::set_skip_lr

(

bool

skip

)

[inline]

void protocols::rbsegment_relax::RBSegmentRelax::set_temperature	(	core::Real	start,
		core::Real	final
	)

---

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

• src/protocols/rbsegment_relax/RBSegmentRelax.hh
• src/protocols/rbsegment_relax/RBSegmentRelax.cc