Rosetta 3.5: core::fragment::AnnotatedFragData Class Reference

FragData that contains additional information. More...

#include <FragData.hh>

Inheritance diagram for core::fragment::AnnotatedFragData:

Inheritance graph

Collaboration diagram for core::fragment::AnnotatedFragData:

Collaboration graph

Public Member Functions
	AnnotatedFragData (const std::string &pdb_id, Size start_pos, char chain='_')

	AnnotatedFragData (const std::string &pdb_id, Size start_pos, const FragData &frag, char chain='_')

virtual FragDataOP	clone () const

virtual std::string	pdbid () const
	Returns the PDB identifier if it has been specified, "no_pdb" otherwise. More...

virtual Size	pdbpos () const

virtual char	chain () const
	Returns the chain if it has been specified, '_' otherwise. More...

Public Member Functions inherited from core::fragment::FragData
	FragData ()

	FragData (SingleResidueFragDataOP, core::Size n)

virtual	~FragData ()

virtual Size	apply (kinematics::MoveMap const &, pose::Pose &, Size start, Size end) const

virtual Size	apply (kinematics::MoveMap const &, pose::Pose &, Frame const &) const

virtual Size	apply (pose::Pose &, Frame const &) const

virtual Size	apply (pose::Pose &, Size start, Size end) const

virtual Size	apply_ss (kinematics::MoveMap const &, std::string &ss, Frame const &) const

virtual Size	is_applicable (kinematics::MoveMap const &, Size start, Size end) const

virtual Size	is_applicable (kinematics::MoveMap const &, Frame const &) const

virtual bool	steal (pose::Pose const &, Size start, Size end)

virtual bool	steal (pose::Pose const &, Frame const &)

bool	is_compatible (FragData const &frag_data) const

bool	is_valid () const

Size	size () const

char	secstruct (Size const pos) const

char	sequence (Size const pos) const

std::string	secstruct () const

std::string	sequence () const

void	set_sequence (Size const pos, char const setting)

void	set_residue (Size pos, SingleResidueFragDataOP res)

void	add_residue (SingleResidueFragDataOP res)

SingleResidueFragDataCOP	get_residue (core::Size pos) const

FragDataOP	generate_sub_fragment (Size start, Size stop)

virtual void	show (std::ostream &out) const

virtual void	show (std::ostream &out, Frame const &) const

virtual void	show_classic (std::ostream &out) const

void	set_valid (bool setting=true)

void	set_score (Real score)
	Set a score value for this fragment. More...

Real	score ()
	Returns the score for this fragment. More...

Private Types
typedef FragData	Parent

Private Member Functions
void	initialize (const std::string &pdb_id, char chain, Size start_pos)
	common initialization routine More...

Private Attributes
std::string	pdbid_

char	chain_
	1-letter chain identifier or '' if it was not specified. More...

Size	startpos_

Additional Inherited Members
Protected Member Functions inherited from core::fragment::FragData
	FragData (Size nr_res)

Detailed Description

FragData that contains additional information.

Definition at line 190 of file FragData.hh.

Member Typedef Documentation

typedef FragData core::fragment::AnnotatedFragData::Parent

private

Definition at line 191 of file FragData.hh.

Constructor & Destructor Documentation

core::fragment::AnnotatedFragData::AnnotatedFragData	(	const std::string &	pdb_id,
		Size	start_pos,
		char	chain = `'_'`
	)

inline

Definition at line 194 of file FragData.hh.

References chain(), and initialize().

Referenced by clone().

core::fragment::AnnotatedFragData::AnnotatedFragData	(	const std::string &	pdb_id,
		Size	start_pos,
		const FragData &	frag,
		char	chain = `'_'`
	)

inline

Definition at line 199 of file FragData.hh.

References chain(), and initialize().

Member Function Documentation

virtual char core::fragment::AnnotatedFragData::chain ( ) const

inlinevirtual

Returns the chain if it has been specified, '_' otherwise.

Reimplemented from core::fragment::FragData.

Definition at line 214 of file FragData.hh.

References chain_.

Referenced by AnnotatedFragData(), and initialize().

FragDataOP core::fragment::AnnotatedFragData::clone ( ) const

virtual

Reimplemented from core::fragment::FragData.

Definition at line 259 of file FragData.cc.

References AnnotatedFragData(), core::fragment::FragData::clone(), pdbid_, and startpos_.

void core::fragment::AnnotatedFragData::initialize	(	const std::string &	pdb_id,
		char	chain,
		Size	start_pos
	)

inlineprivate

common initialization routine

Definition at line 220 of file FragData.hh.

References chain(), chain_, pdbid_, and startpos_.

Referenced by AnnotatedFragData().

virtual std::string core::fragment::AnnotatedFragData::pdbid ( ) const

inlinevirtual

Returns the PDB identifier if it has been specified, "no_pdb" otherwise.

Reimplemented from core::fragment::FragData.

Definition at line 206 of file FragData.hh.

References pdbid_.

virtual Size core::fragment::AnnotatedFragData::pdbpos ( ) const

inlinevirtual

Reimplemented from core::fragment::FragData.

Definition at line 210 of file FragData.hh.

References startpos_.

Member Data Documentation

char core::fragment::AnnotatedFragData::chain_

private

1-letter chain identifier or '' if it was not specified.

Definition at line 229 of file FragData.hh.

Referenced by chain(), and initialize().

std::string core::fragment::AnnotatedFragData::pdbid_

private

Definition at line 226 of file FragData.hh.

Referenced by clone(), initialize(), and pdbid().

Size core::fragment::AnnotatedFragData::startpos_

private

Definition at line 231 of file FragData.hh.

Referenced by clone(), initialize(), and pdbpos().

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

src/core/fragment/FragData.hh
src/core/fragment/FragData.cc