VIEW::AddBackboneModel Class Reference
[Model Processors]

AddBackboneModel class. More...

#include <backboneModel.h>

Inheritance diagram for VIEW::AddBackboneModel:

List of all members.

Public Member Functions
	AddBackboneModel () throw ()
	Default Constructor.
	AddBackboneModel (const AddBackboneModel &add_Backbone_model) throw ()
	Copy constructor.
virtual	~AddBackboneModel () throw ()
	Destructor.
virtual void	clear () throw ()
	Explicit default initialization.
virtual bool	start () throw ()
	start method
virtual Processor::Result	operator() (Composite &composite)
	Operator method.
virtual void	dump (std::ostream &s=std::cout, Size depth=0) const throw ()
	Internal value dump.
void	setTubeRadius (float radius) throw ()
float	getTubeRadius () const throw ()
virtual bool	createGeometricObjects () throw ()
	Method to create geometric objects.
void	setRibbonMode (bool state) throw ()
bool	ribbonModeEnabled () const throw ()
Protected Types
enum	ModelTypes { TUBE, RIBBON, NUCLEIC_ACID }
Protected Member Functions
virtual void	calculateModelParts (Protein &protein)
virtual bool	collectPositions (vector< Residue * > residues)
virtual void	calculateGuidePoints_ ()
virtual void	assignModelType (ModelPart &part)
virtual void	createModel_ (Position set_pos, Position model_pos)
virtual void	createTube_ (Position set_pos, Position model_pos)
virtual void	createRibbon_ (Position set_pos, Position model_pos)
virtual void	refineGuidePoints_ ()
virtual void	interpolate_ ()
virtual void	refineModelParts_ ()
virtual void	clear_ ()
void	evaluateBSpline (const Vector3 &v1, const Vector3 &v2, const Vector3 &v3, float x, Vector3 &result)
bool	residuesAreConnected_ (Residue &residue1, Residue &residue2)
void	calculateTubePoints_ (Vector3 right, Vector3 dir, vector< Vector3 > &points)
void	calculateRibbonPoints_ (Vector3 xn, Vector3 dir, vector< Vector3 > &points)
void	calculateRibbonEllipse_ (float ribbon_width, float ribbon_height)
Protected Attributes
float	tube_radius_
Size	interpolation_steps_
Size	number_of_ribbons_
float	ribbon_width_
float	ribbon_height_
bool	care_for_SS_
bool	ribbon_mode_
vector< vector< vector< Vector3 > > >	guide_points_
vector< vector< vector< Vector3 > > >	interpolated_points_
vector< vector< Vector3 > >	backbone_
vector< vector< Vector3 > >	offsets_
vector< vector< ModelPart > >	model_parts_
Protein	dummy_protein_
Chain	dummy_chain_
SecondaryStructure	dummy_ss_
HashSet< Residue * >	residues_to_be_rendered_
Protein *	last_protein_
vector< vector< Index > >	ss_
Size	slides_
Position	middle_slide_
Position	middle_ribbon_
Angle	slides_angle_
Matrix4x4	temp_matrix_
vector< float >	xs_
vector< float >	ys_

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Detailed Description

AddBackboneModel class.

The class AddBackboneModel is a model processor that creates a backbone model through the CA-atoms of the processed Composite object. For information about the processor concept see Processor in the BALL documentation.

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Member Function Documentation

virtual void VIEW::AddBackboneModel::clear (   )  throw () [virtual]

Explicit default initialization. Calls ModelProcessor::clear. Reimplemented from VIEW::ModelProcessor.

virtual bool VIEW::AddBackboneModel::createGeometricObjects (   )  throw () [virtual]

Method to create geometric objects. This method is called in Representation::update() after all operator() was called for all Composites. To be overloaded in derived classes Reimplemented from VIEW::ModelProcessor.

virtual void VIEW::AddBackboneModel::dump (  std::ostream &  s = std::cout, Size  depth = 0 )  const throw () [virtual]

Internal value dump. Dump the current state to the output ostream s with dumping depth depth. Calls ModelProcessor::dump. Parameters: s  output stream where to output the state depth  the dumping depth Reimplemented from VIEW::ModelProcessor.

virtual Processor::Result VIEW::AddBackboneModel::operator() (  Composite &  composite  )  [virtual]

Operator method. This method iterates over each Composite object reachable in the Composite tree. If a Composite is of kind Atom and has the substring CA in its name (this method collects only CA-atoms) than that atom is stored for later processing in the finish method. Parameters: composite  the Composite object that will be processed Reimplemented from UnaryProcessor< Composite >.