protocols::fldsgn::potentials::SetSecStructEnergies Class Reference

#include <SetSecStructEnergies.hh>

Inheritance diagram for protocols::fldsgn::potentials::SetSecStructEnergies:

Collaboration diagram for protocols::fldsgn::potentials::SetSecStructEnergies:

List of all members.

Public Types
typedef std::string	String
typedef core::Real	Real
typedef core::Size	Size
typedef core::pose::Pose	Pose
typedef core::pose::PoseOP	PoseOP
typedef core::scoring::ScoreFunction	ScoreFunction
typedef core::scoring::ScoreFunctionOP	ScoreFunctionOP
typedef protocols::moves::MoverOP	MoverOP
typedef protocols::jd2::parser::BluePrint	BluePrint
typedef protocols::jd2::parser::BluePrintOP	BluePrintOP
typedef core::conformation::symmetry::SymmetryInfoOP	SymmetryInfoOP
typedef protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential	NatbiasHelixPairPotential
typedef protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotentialOP	NatbiasHelixPairPotentialOP
typedef protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential	NatbiasHelicesSheetPotential
typedef protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotentialOP	NatbiasHelicesSheetPotentialOP
typedef utility::tag::TagPtr	TagPtr
typedef protocols::filters::Filters_map	Filters_map
typedef protocols::moves::DataMap	DataMap
typedef protocols::moves::Movers_map	Movers_map
Public Member Functions
	SetSecStructEnergies ()
	default constructor
	SetSecStructEnergies (ScoreFunctionOP const sfx, String const &filename, bool const ss_from_blueprint=true)
	value constructor
	SetSecStructEnergies (ScoreFunctionOP const sfx, BluePrintOP const blueprintOP, bool const ss_from_blueprint=true)
	value constructor
	SetSecStructEnergies (SetSecStructEnergies const &rval)
	copy constructor
virtual	~SetSecStructEnergies ()
	default destructor
virtual MoverOP	clone () const
	clone this object
virtual MoverOP	fresh_instance () const
	create this type of object
void	ss_from_blueprint (bool const flag)
	define secondary structrue by blueprint
void	scorefunction (ScoreFunction const &sfx)
	set the centroid level score function
void	scorefunction (ScoreFunctionOP sfx)
	set the centroid level score function
void	set_blueprint (String const &filename)
	set blueprint file by filename
void	set_blueprint (BluePrintOP const blp)
	set blueprint file
virtual void	apply (Pose &pose)
	apply defined moves to given Pose
virtual std::string	get_name () const
	Each derived class must specify its name. The class name.
void	parse_my_tag (TagPtr const tag, DataMap &data, Filters_map const &, Movers_map const &, Pose const &)
	parse xml file

---

Member Typedef Documentation

typedef protocols::jd2::parser::BluePrint protocols::fldsgn::potentials::SetSecStructEnergies::BluePrint

typedef protocols::jd2::parser::BluePrintOP protocols::fldsgn::potentials::SetSecStructEnergies::BluePrintOP

typedef protocols::moves::DataMap protocols::fldsgn::potentials::SetSecStructEnergies::DataMap

typedef protocols::filters::Filters_map protocols::fldsgn::potentials::SetSecStructEnergies::Filters_map

Reimplemented from protocols::moves::Mover.

typedef protocols::moves::MoverOP protocols::fldsgn::potentials::SetSecStructEnergies::MoverOP

typedef protocols::moves::Movers_map protocols::fldsgn::potentials::SetSecStructEnergies::Movers_map

typedef protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential protocols::fldsgn::potentials::SetSecStructEnergies::NatbiasHelicesSheetPotential

typedef protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotentialOP protocols::fldsgn::potentials::SetSecStructEnergies::NatbiasHelicesSheetPotentialOP

typedef protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential protocols::fldsgn::potentials::SetSecStructEnergies::NatbiasHelixPairPotential

typedef protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotentialOP protocols::fldsgn::potentials::SetSecStructEnergies::NatbiasHelixPairPotentialOP

typedef core::pose::Pose protocols::fldsgn::potentials::SetSecStructEnergies::Pose

Reimplemented from protocols::moves::Mover.

typedef core::pose::PoseOP protocols::fldsgn::potentials::SetSecStructEnergies::PoseOP

typedef core::Real protocols::fldsgn::potentials::SetSecStructEnergies::Real

typedef core::scoring::ScoreFunction protocols::fldsgn::potentials::SetSecStructEnergies::ScoreFunction

typedef core::scoring::ScoreFunctionOP protocols::fldsgn::potentials::SetSecStructEnergies::ScoreFunctionOP

typedef core::Size protocols::fldsgn::potentials::SetSecStructEnergies::Size

typedef std::string protocols::fldsgn::potentials::SetSecStructEnergies::String

typedef core::conformation::symmetry::SymmetryInfoOP protocols::fldsgn::potentials::SetSecStructEnergies::SymmetryInfoOP

typedef utility::tag::TagPtr protocols::fldsgn::potentials::SetSecStructEnergies::TagPtr

Reimplemented from protocols::moves::Mover.

---

Constructor & Destructor Documentation

protocols::fldsgn::potentials::SetSecStructEnergies::SetSecStructEnergies

(

)

default constructor

Referenced by clone(), and fresh_instance().

protocols::fldsgn::potentials::SetSecStructEnergies::SetSecStructEnergies	(	ScoreFunctionOP const	sfx,
		String const &	filename,
		bool const	ss_from_blueprint = true
	)

value constructor

References set_blueprint().

protocols::fldsgn::potentials::SetSecStructEnergies::SetSecStructEnergies	(	ScoreFunctionOP const	sfx,
		BluePrintOP const	blueprintOP,
		bool const	ss_from_blueprint = true
	)

value constructor

protocols::fldsgn::potentials::SetSecStructEnergies::SetSecStructEnergies

(

SetSecStructEnergies const &

rval

)

copy constructor

copy constructor

protocols::fldsgn::potentials::SetSecStructEnergies::~SetSecStructEnergies

(

)

[virtual]

default destructor

---

Member Function Documentation

void protocols::fldsgn::potentials::SetSecStructEnergies::apply

(

Pose &

pose

)

[virtual]

apply defined moves to given Pose

Implements protocols::moves::Mover.

References core::pose::Pose::conformation(), core::scoring::hs_pair, core::conformation::symmetry::is_symmetric(), core::scoring::natbias_hh, core::scoring::natbias_hs, core::scoring::natbias_ss, core::scoring::natbias_stwist, core::scoring::rsigma, core::scoring::SCORE12_PATCH, core::scoring::ss_pair, core::scoring::STANDARD_WTS, and protocols::fldsgn::potentials::TR().

SetSecStructEnergies::MoverOP protocols::fldsgn::potentials::SetSecStructEnergies::clone

(

)

const [virtual]

clone this object

Reimplemented from protocols::moves::Mover.

References SetSecStructEnergies().

SetSecStructEnergies::MoverOP protocols::fldsgn::potentials::SetSecStructEnergies::fresh_instance

(

)

const [virtual]

create this type of object

Reimplemented from protocols::moves::Mover.

References SetSecStructEnergies().

std::string protocols::fldsgn::potentials::SetSecStructEnergies::get_name

(

)

const [virtual]

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

Implements protocols::moves::Mover.

References protocols::fldsgn::potentials::SetSecStructEnergiesCreator::mover_name().

void protocols::fldsgn::potentials::SetSecStructEnergies::parse_my_tag	(	TagPtr const	tag,
		DataMap &	data,
		Filters_map const &	,
		Movers_map const &	,
		Pose const &
	)		[virtual]

parse xml file

parse xml

Reimplemented from protocols::moves::Mover.

References protocols::moves::DataMap::get(), set_blueprint(), ss_from_blueprint(), and protocols::fldsgn::potentials::TR().

void protocols::fldsgn::potentials::SetSecStructEnergies::scorefunction

(

ScoreFunctionOP

sfx

)

set the centroid level score function

void protocols::fldsgn::potentials::SetSecStructEnergies::scorefunction

(

ScoreFunction const &

sfx

)

set the centroid level score function

References core::scoring::ScoreFunction::clone().

void protocols::fldsgn::potentials::SetSecStructEnergies::set_blueprint

(

BluePrintOP const

blp

)

set blueprint file

use blueprint

void protocols::fldsgn::potentials::SetSecStructEnergies::set_blueprint

(

String const &

filename

)

set blueprint file by filename

use blueprint

Referenced by parse_my_tag(), and SetSecStructEnergies().

void protocols::fldsgn::potentials::SetSecStructEnergies::ss_from_blueprint

(

bool const

flag

)

[inline]

define secondary structrue by blueprint

Referenced by parse_my_tag().

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

• src/protocols/fldsgn/potentials/SetSecStructEnergies.hh
• src/protocols/fldsgn/potentials/SetSecStructEnergies.cc