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

HelixNCapperMover() [1/2]

protocols::helix_capper::HelixNCapperMover::HelixNCapperMover

(

)

HelixNCapperMover() [2/2]

protocols::helix_capper::HelixNCapperMover::HelixNCapperMover

(

core::pose::Pose

start_pose

)

~HelixNCapperMover()

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

virtualdefault

Member Function Documentation

apply()

void protocols::helix_capper::HelixNCapperMover::apply

(

)

dump_pdb_to_file()

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

References core::pose::Pose::dump_pdb(), and protocols::abinitio::filename().

get_Ncap_scores()

void protocols::helix_capper::HelixNCapperMover::get_Ncap_scores

(

)

References core::scoring::EMapVector::clear(), core::scoring::ScoreFunctionFactory::create_score_function(), core::pose::Pose::energies(), core::scoring::Energies::energies_updated(), core::scoring::Energies::energy_graph(), core::scoring::fa_atr, core::scoring::fa_dun, core::scoring::fa_elec_bb_bb, core::scoring::fa_elec_bb_sc, core::scoring::fa_elec_sc_sc, core::scoring::fa_rep, core::scoring::fa_sol, core::scoring::hbond, core::scoring::p_aa_pp, core::pose::Pose::residue(), core::scoring::hbonds::HBondSet::setup_for_residue_pair_energies(), and core::conformation::TR().

get_start_positions()

void protocols::helix_capper::HelixNCapperMover::get_start_positions

(

)

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

ncap_prob_from_svm()

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

(

utility::vector1< core::Real > &

features

)

set_excluded_positions()

void protocols::helix_capper::HelixNCapperMover::set_excluded_positions

(

)

References core::conformation::TR().

setup_svm()

void protocols::helix_capper::HelixNCapperMover::setup_svm

(

)

Member Data Documentation

excluded_positions_

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

private

helix_start_positions_

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

private

ncap_model_

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

private

ncap_scores_

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

private

start_pose_

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