protocols::dna::DnaInterfaceMultiStateDesign Class Reference

wraps DNA-interface specific considerations around the general multistate design / genetic algorithm framework More...

#include <DnaInterfaceMultiStateDesign.hh>

Inheritance diagram for protocols::dna::DnaInterfaceMultiStateDesign:

Collaboration diagram for protocols::dna::DnaInterfaceMultiStateDesign:

List of all members.

Public Types
typedef multistate_design::PosType	PosType
typedef core::pack::task::PackerTaskCOP	PackerTaskCOP
typedef genetic_algorithm::GeneticAlgorithmOP	GeneticAlgorithmOP
Public Member Functions
	DnaInterfaceMultiStateDesign ()
virtual	~DnaInterfaceMultiStateDesign ()
virtual void	apply (Pose &)
	Performs side-chain packing based on the input PackerTask using the input ScoreFunction.
virtual std::string	get_name () const
	Each derived class must specify its name. The class name.
void	copy_dna_chains (DnaChainsOP)
void	copy_targeted_dna (DnaDesignDefOPs const &)
void	output_results (Pose &)
virtual void	parse_my_tag (TagPtr const, moves::DataMap &, protocols::filters::Filters_map const &, moves::Movers_map const &, Pose const &)
	parse XML (specifically in the context of the parser/scripting scheme)
virtual moves::MoverOP	fresh_instance () const
	required in the context of the parser/scripting scheme
virtual moves::MoverOP	clone () const
	required in the context of the parser/scripting scheme

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Detailed Description

wraps DNA-interface specific considerations around the general multistate design / genetic algorithm framework

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Member Typedef Documentation

typedef genetic_algorithm::GeneticAlgorithmOP protocols::dna::DnaInterfaceMultiStateDesign::GeneticAlgorithmOP

typedef core::pack::task::PackerTaskCOP protocols::dna::DnaInterfaceMultiStateDesign::PackerTaskCOP

Reimplemented from protocols::simple_moves::PackRotamersMover.

typedef multistate_design::PosType protocols::dna::DnaInterfaceMultiStateDesign::PosType

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Constructor & Destructor Documentation

protocols::dna::DnaInterfaceMultiStateDesign::DnaInterfaceMultiStateDesign

(

)

Referenced by clone(), and fresh_instance().

protocols::dna::DnaInterfaceMultiStateDesign::~DnaInterfaceMultiStateDesign

(

)

[virtual]

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Member Function Documentation

void protocols::dna::DnaInterfaceMultiStateDesign::apply

(

Pose &

pose

)

[virtual]

Performs side-chain packing based on the input PackerTask using the input ScoreFunction.

example(s): packmover.apply(pose) See Also: PackerTask ScoreFunction

Reimplemented from protocols::simple_moves::PackRotamersMover.

References output_results().

moves::MoverOP protocols::dna::DnaInterfaceMultiStateDesign::clone

(

)

const [virtual]

required in the context of the parser/scripting scheme

Reimplemented from protocols::simple_moves::PackRotamersMover.

References DnaInterfaceMultiStateDesign().

void protocols::dna::DnaInterfaceMultiStateDesign::copy_dna_chains

(

DnaChainsOP

dna_chains

)

void protocols::dna::DnaInterfaceMultiStateDesign::copy_targeted_dna

(

DnaDesignDefOPs const &

defs

)

moves::MoverOP protocols::dna::DnaInterfaceMultiStateDesign::fresh_instance

(

)

const [virtual]

required in the context of the parser/scripting scheme

Reimplemented from protocols::simple_moves::PackRotamersMover.

References DnaInterfaceMultiStateDesign().

std::string protocols::dna::DnaInterfaceMultiStateDesign::get_name

(

)

const [virtual]

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

Reimplemented from protocols::simple_moves::PackRotamersMover.

References protocols::dna::DnaInterfaceMultiStateDesignCreator::mover_name().

void protocols::dna::DnaInterfaceMultiStateDesign::output_results

(

Pose &

pose

)

References core::sequence::end, protocols::genetic_algorithm::Entity::fitness(), protocols::moves::Mover::info(), protocols::dna::TR(), and protocols::genetic_algorithm::Entity::traits().

Referenced by apply().

void protocols::dna::DnaInterfaceMultiStateDesign::parse_my_tag	(	TagPtr const	tag,
		moves::DataMap &	datamap,
		protocols::filters::Filters_map const &	filters,
		moves::Movers_map const &	movers,
		Pose const &	pose
	)		[virtual]

parse XML (specifically in the context of the parser/scripting scheme)

parse "XML" Tag (specifically in the context of the parser/scripting scheme)

Reimplemented from protocols::simple_moves::PackRotamersMover.

References protocols::simple_moves::PackRotamersMover::parse_score_function(), and protocols::simple_moves::PackRotamersMover::parse_task_operations().

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

• src/protocols/dna/DnaInterfaceMultiStateDesign.hh
• src/protocols/dna/DnaInterfaceMultiStateDesign.cc