protocols::helix_capper::HelixNCapperMover Class Reference

#include <HelixNCapperMover.hh>

Public Member Functions
	HelixNCapperMover ()
	HelixNCapperMover (core::pose::Pose start_pose)
virtual	~HelixNCapperMover ()
void	dump_pdb_to_file (core::pose::Pose &, std::string)
void	set_excluded_positions ()
void	setup_svm ()
void	get_start_positions ()
void	get_Ncap_scores ()
core::Real	ncap_prob_from_svm (utility::vector1< core::Real > &)
void	apply ()

Private Attributes
core::pose::Pose	start_pose_
utility::libsvm::Svm_rosettaOP	ncap_model_
utility::vector1< core::Size >	excluded_positions_
utility::vector1< core::Size >	helix_start_positions_
utility::vector1< core::Real >	ncap_scores_

Constructor & Destructor Documentation

protocols::helix_capper::HelixNCapperMover::HelixNCapperMover

(

)

protocols::helix_capper::HelixNCapperMover::HelixNCapperMover

(

core::pose::Pose

start_pose

)

protocols::helix_capper::HelixNCapperMover::~HelixNCapperMover ( )

virtual

Member Function Documentation

void protocols::helix_capper::HelixNCapperMover::apply

(

)

void protocols::helix_capper::HelixNCapperMover::dump_pdb_to_file	(	core::pose::Pose &	posey,
		std::string	filename
	)

References core::pose::Pose::dump_pdb().

void protocols::helix_capper::HelixNCapperMover::get_Ncap_scores

(

)

References core::scoring::EMapVector::clear(), core::graph::Node::const_upper_edge_list_end(), core::scoring::ScoreFunctionFactory::create_score_function(), core::pose::Pose::energies(), fa_atr, fa_dun, fa_elec_bb_bb, fa_elec_bb_sc, fa_elec_sc_sc, fa_rep, fa_sol, core::graph::Edge::get_node(), hbond, p_aa_pp, core::pose::Pose::residue(), and core::scoring::hbonds::HBondSet::setup_for_residue_pair_energies().

void protocols::helix_capper::HelixNCapperMover::get_start_positions

(

)

References core::scoring::dssp::Dssp::get_dssp_secstruct().

core::Real protocols::helix_capper::HelixNCapperMover::ncap_prob_from_svm

(

utility::vector1< core::Real > &

features

)

void protocols::helix_capper::HelixNCapperMover::set_excluded_positions

(

)

References cp::exclude_file, and option.

void protocols::helix_capper::HelixNCapperMover::setup_svm

(

)

References basic::database::full_name(), utility::io::izstream::good(), and utility_exit_with_message.

Member Data Documentation

utility::vector1<core::Size> protocols::helix_capper::HelixNCapperMover::excluded_positions_

private

utility::vector1<core::Size> protocols::helix_capper::HelixNCapperMover::helix_start_positions_

private

utility::libsvm::Svm_rosettaOP protocols::helix_capper::HelixNCapperMover::ncap_model_

private

utility::vector1<core::Real> protocols::helix_capper::HelixNCapperMover::ncap_scores_

private

core::pose::Pose protocols::helix_capper::HelixNCapperMover::start_pose_

private

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

• src/protocols/helix_capper/HelixNCapperMover.hh
• src/protocols/helix_capper/HelixNCapperMover.cc