Base class for SRFD classes Instances of SRFD classes contain information on specific dofs in a single residue or a jump connected to a residue The classes' apply method will now how to implement the specified dofs in the give pose at the given residue position. More...

#include <SingleResidueFragData.hh>

Inheritance diagram for core::fragment::SingleResidueFragData:

[legend]

Public Member Functions
	~SingleResidueFragData () override
	Automatically generated virtual destructor for class deriving directly from VirtualBase. More...

	SingleResidueFragData (char sequence)

	SingleResidueFragData ()

virtual SingleResidueFragDataOP	clone () const =0

virtual SingleResidueFragDataOP	create () const =0
	create a new instance of this object More...

virtual bool	apply (pose::Pose &, Size seq_pos) const =0
	insert fragment_data into pose at position seq_pos More...

virtual bool	apply (kinematics::MoveMap const &movemap, pose::Pose &pose, Size const seqpos) const =0
	insert fragment_data into pose at position seq_pos for dofs that are allowed to move in the movemap More...

virtual bool	apply_ss (std::string &, Size seq_pos) const =0
	insert fragment_data sec-struct into ss-string at position seq_pos More...

virtual bool	steal (pose::Pose const &, Size seq_pos)=0
	insert fragment_data into pose at position seq_pos More...

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_compatible (SingleResidueFragData const &) const =0
	check weather SRFD applies to same dofs and is of same type More...

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

virtual bool	is_applicable (kinematics::MoveMap const &, Size pos) const =0
	check whether dofs can be moved More...

void	set_sequence (char const sequence)

char	sequence () const

virtual char	secstruct () const

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

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

virtual std::string	type () const

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

Protected Attributes
char	sequence_

Detailed Description

Base class for SRFD classes Instances of SRFD classes contain information on specific dofs in a single residue or a jump connected to a residue The classes' apply method will now how to implement the specified dofs in the give pose at the given residue position.

TODO: change SRFD interface such that apply is called like this apply( pose, inframe_pos (1..length), Frame const& ) jumpFrags can then ask the Frame for their upstream residue and check that if they are at position 1 that they do nothgin... can have basic implementation that translates this apply into the old apply

Constructor & Destructor Documentation

core::fragment::SingleResidueFragData::~SingleResidueFragData ( )

overridedefault

Automatically generated virtual destructor for class deriving directly from VirtualBase.

Auto-generated virtual destructor

core::fragment::SingleResidueFragData::SingleResidueFragData ( char sequence )

inline

core::fragment::SingleResidueFragData::SingleResidueFragData ( )

inline

Member Function Documentation

std::string core::fragment::SingleResidueFragData::_static_type_name ( )

static

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

pure virtual

insert fragment_data into pose at position seq_pos

Implemented in core::fragment::DownJumpSRFD, core::fragment::BBTorsionSRFD, core::fragment::UpJumpSRFD, core::fragment::SecstructSRFD, and core::fragment::BBTorsionAndAnglesSRFD.

Referenced by apply().

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

pure virtual

insert fragment_data into pose at position seq_pos for dofs that are allowed to move in the movemap

Returns: True if operation succeeds, False otherwise.

Implemented in core::fragment::DownJumpSRFD, core::fragment::BBTorsionSRFD, core::fragment::IndependentBBTorsionSRFD, core::fragment::UpJumpSRFD, core::fragment::SecstructSRFD, and core::fragment::BBTorsionAndAnglesSRFD.

bool core::fragment::SingleResidueFragData::apply	(	pose::Pose &	pose,
		Size const	intra_frame_pos,
		Frame const &	frame
	)		const

virtual

insert fragment_data into pose at position given by Frame.seqpos( intra_frame_pos );

Reimplemented in core::fragment::DownJumpSRFD, and core::fragment::UpJumpSRFD.

References apply(), and core::fragment::Frame::seqpos().

bool core::fragment::SingleResidueFragData::apply	(	kinematics::MoveMap const &	movemap,
		pose::Pose &	pose,
		Size const	intra_frame_pos,
		Frame const &	frame
	)		const