#include <BBTorsionSRFD.hh>

Inheritance diagram for core::fragment::BBTorsionSRFD:

Collaboration diagram for core::fragment::BBTorsionSRFD:

Public Member Functions
	BBTorsionSRFD (Size const nbb_in=3, char secstruct= 'X', char sequence= 'X')
	constructor More...

BBTorsionSRFD &	operator= (BBTorsionSRFD const &rval)
	copy assignment More...

virtual SingleResidueFragDataOP	clone () const
	clone this object More...

virtual SingleResidueFragDataOP	create () const
	create a new instance of this object More...

Size	nbb () const
	number of backbone torsions described by this fragment More...

void	set_torsion (Size const tor, Real const setting)
	set value for specific torsion in this piece of fragment. More...

Real	torsion (Size const torsion_number) const
	get the value for a specific torsion in this fragment More...

bool	has_coordinates () const
	Returns true if this instance contains cartesian coordinates, false otherwise. Coordinates are available if the <write_ca_coords> option is enabled in the new fragment picker and rosetta++ fragments are used. More...

Real	x () const
	Returns the x coordinate of this residue's CA. More...

Real	y () const
	Returns the y coordinate of this residue's CA. More...

Real	z () const
	Returns the z coordinate of this residue's CA. More...

void	set_coordinates (Real x, Real y, Real z)
	Convenience method for setting this residue's CA coordinates all at once. More...

virtual bool	apply (pose::Pose &, Size seq_pos) const
	insert all backbone torsions into pose at position seq_pos More...

virtual bool	apply (kinematics::MoveMap const &movemap, pose::Pose &pose, Size const seqpos) const
	insert all backbone torsions into pose at position seq_pos More...

virtual bool	steal (pose::Pose const &, Size seq_pos)
	insert fragment_data into pose at position seq_pos More...

virtual bool	is_compatible (SingleResidueFragData const &) const
	check weather SRFD applies to same dofs and is of same type More...

virtual bool	is_applicable (kinematics::MoveMap const &, Size seq_pos) const
	check if all backbone torsions at the sequence position moveable in the MoveMap More...

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

virtual void	read_data (std::istream &in)
	Default implementation: noop. More...

virtual std::string	type () const

Public Member Functions inherited from core::fragment::SecstructSRFD
	SecstructSRFD (char secstruct= 'X', char sequence= 'X')

SingleResidueFragDataOP	clone () const

virtual char	secstruct () const
	get secstruct for this position More...

void	set_secstruct (char const ss)

virtual bool	apply_ss (std::string &, Size seq_pos) const
	insert fragment_data sec-struct into ss-string at position seq_pos More...

Public Member Functions inherited from core::fragment::SingleResidueFragData
virtual	~SingleResidueFragData ()
	Automatically generated virtual destructor for class deriving directly from ReferenceCount. More...

	SingleResidueFragData (char sequence)

	SingleResidueFragData ()

virtual bool	apply (pose::Pose &, Size const intra_frame_pos, Frame const &) const
	insert fragment_data into pose at position given by Frame.seqpos( intra_frame_pos ); More...

virtual bool	apply (kinematics::MoveMap const &movemap, pose::Pose &pose, Size const intra_frame_pos, Frame const &frame) const
	insert fragment_data into pose at position given by Frame.seqpos( intra_frame_pos ) for dofs that are allowed to move in the MoveMap More...

virtual bool	apply_ss (std::string &, Size intra_frame_pos, Frame const &) const
	insert fragment_data sec-struct into ss-string at position seq_pos More...

virtual bool	steal (pose::Pose const &, Size intra_frame_pos, Frame const &)
	insert fragment_data into pose at position seq_pos More...

virtual bool	is_applicable (kinematics::MoveMap const &, Size intra_frame_pos, Frame const &) const
	check weather dofs can be moved More...

void	set_sequence (char const sequence)

char	sequence () const

Static Public Member Functions
static std::string	_static_type_name ()

Static Public Member Functions inherited from core::fragment::SecstructSRFD
static std::string	_static_type_name ()

Static Public Member Functions inherited from core::fragment::SingleResidueFragData
static std::string	_static_type_name ()

Private Types
typedef SecstructSRFD	Parent

Private Attributes
utility::vector1< Real >	torsions_

utility::vector1< Real >	coords_
	Cartesian coordinates for CA. More...

bool	has_coords_
	Indicates whether this object contains cartesian coordinates. More...

Additional Inherited Members
Protected Attributes inherited from core::fragment::SingleResidueFragData
char	sequence_

Detailed Description

Definition at line 44 of file BBTorsionSRFD.hh.

Member Typedef Documentation

typedef SecstructSRFD core::fragment::BBTorsionSRFD::Parent

private

Definition at line 45 of file BBTorsionSRFD.hh.

Constructor & Destructor Documentation

core::fragment::BBTorsionSRFD::BBTorsionSRFD	(	Size const	nbb_in = `3`,
		char	secstruct = `'X'`,
		char	sequence = `'X'`
	)

inline

constructor

Definition at line 49 of file BBTorsionSRFD.hh.

Referenced by clone(), and create().

Member Function Documentation

static std::string core::fragment::BBTorsionSRFD::_static_type_name ( )

inlinestatic

Definition at line 153 of file BBTorsionSRFD.hh.

Referenced by core::fragment::FragFactory::FragFactory(), and type().

bool core::fragment::BBTorsionSRFD::apply	(	pose::Pose &	pose,
		Size	seq_pos
	)		const

virtual

insert all backbone torsions into pose at position seq_pos

Reimplemented from core::fragment::SecstructSRFD.

Reimplemented in core::fragment::BBTorsionAndAnglesSRFD.

Definition at line 50 of file BBTorsionSRFD.cc.

References core::fragment::SecstructSRFD::apply(), core::id::BB, nbb(), core::pose::Pose::set_torsion(), and torsions_.

Referenced by core::fragment::BBTorsionAndAnglesSRFD::apply().

bool core::fragment::BBTorsionSRFD::apply	(	kinematics::MoveMap const &	movemap,
		pose::Pose &	pose,
		Size const	seqpos
	)		const

virtual

insert all backbone torsions into pose at position seq_pos

Parameters

[in]	movemap	This MoveMap will be ignored at the BBTorsionSRFD level, but will be passed to any superclass `apply()`.
[in,out]	pose	The pose to modify.
[in]	seqpos	Sequence position to modify.

Returns: True if apply() successful, False otherwise.

Warning: MoveMap settings at the BBTorsionSRFD level are ignored. For speed, does not check to see whether or not all backbone torsions are moveable in MoveMap – use is_applicable() for this purpose prior to calling apply().

Reimplemented from core::fragment::SecstructSRFD.

Reimplemented in core::fragment::IndependentBBTorsionSRFD, and core::fragment::BBTorsionAndAnglesSRFD.

Definition at line 72 of file BBTorsionSRFD.cc.

References core::fragment::SecstructSRFD::apply(), core::id::BB, nbb(), core::pose::Pose::set_torsion(), and torsions_.

virtual SingleResidueFragDataOP core::fragment::BBTorsionSRFD::clone ( ) const

inlinevirtual

clone this object

Implements core::fragment::SingleResidueFragData.

Reimplemented in core::fragment::IndependentBBTorsionSRFD, and core::fragment::BBTorsionAndAnglesSRFD.

Definition at line 56 of file BBTorsionSRFD.hh.

References BBTorsionSRFD().

virtual SingleResidueFragDataOP core::fragment::BBTorsionSRFD::create ( ) const

inlinevirtual

create a new instance of this object

Reimplemented from core::fragment::SecstructSRFD.

Reimplemented in core::fragment::IndependentBBTorsionSRFD, and core::fragment::BBTorsionAndAnglesSRFD.

Definition at line 61 of file BBTorsionSRFD.hh.

References BBTorsionSRFD().

Referenced by core::fragment::picking_old::vall::VallResidue::bbtorsion_srfd().

bool core::fragment::BBTorsionSRFD::has_coordinates ( ) const

inline

Returns true if this instance contains cartesian coordinates, false otherwise. Coordinates are available if the <write_ca_coords> option is enabled in the new fragment picker and rosetta++ fragments are used.

Definition at line 84 of file BBTorsionSRFD.hh.

References has_coords_.

Referenced by show().