edu.sdsc.mbt.viewers.GLViewerImpl
Class HelixGeometry

java.lang.Object
  edu.sdsc.mbt.viewers.GLViewerImpl.GeometryEntity
      edu.sdsc.mbt.viewers.GLViewerImpl.SsGeometry
          edu.sdsc.mbt.viewers.GLViewerImpl.HelixGeometry

public class HelixGeometry

extends SsGeometry

HelixGeometry is an SsGeometry container which, primarily, manages the geometry associated with an alpha-helix. No smoothing is done, the ribon is interpolated between original CA coordinates. As with all GeometryEntity objects, it can have other Geometry children.

The algorithm for the generation of the normals and binormals along the helix are borrowed from Molscript

Author:

Apostol Gramada

Field Summary

static int	CYLINDER
static int	RIBBON
static float[]	shininessTemp

Fields inherited from class edu.sdsc.mbt.viewers.GLViewerImpl.SsGeometry

colorCache, colorReference

Constructor Summary

HelixGeometry()
Constructs a HelixGeometry objects with default values for the number of facets, segments, and cross section style.

Method Summary

void	drawJoglGeometry(javax.media.opengl.GL gl, javax.media.opengl.glu.GLU glu, com.sun.opengl.util.GLUT glut) Return the BranchGroup object representing the geometrical shape contained by this GeometryEntity object.
int	getSsShape(int ssshape) Returns the general appearance of the helix shape, i.e.
void	setNormals(Vector3f[] normals) Sets the normals along the spine.
void	setSsShape(int ssshape) Sets the general appearance of the helix shape, i.e.
void	setTangents(Vector3f[] tangents) Sets the tangents along the spine.

Methods inherited from class edu.sdsc.mbt.viewers.GLViewerImpl.SsGeometry

drawSs, drawSs, drawSs, drawSs, getClosestResidueIndex, getColorMap, getHighlightState, getNextSs, getNextToFirstCa, getNextToFirstCaCoord, getPreviousSs, getPreviousToLastCa, getPreviousToLastCaCoord, getPriestleSteps, getUserData, getVisibilityMap, highlight, highlightClosestResidue, highlightResidue, highlightResidueRegion, isLeftExtended, isRightExtended, resetColor, resetGeometryColor, resetRibbonColor, setColorMap, setCoordinates, setCoordinates, setCrossSectionStyle, setCrossSectionType, setLeftExtended, setNextCaCoord, setNextCaCoord, setNextSs, setPreviousCaCoord, setPreviousCaCoord, setPreviousSs, setPriestleSteps, setRightExtended, setRoundedShape, setSegmentCount, setUserData, setVisibilityMap

Methods inherited from class edu.sdsc.mbt.viewers.GLViewerImpl.GeometryEntity

getQuality, setQuality

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

RIBBON

public static int RIBBON

CYLINDER

public static int CYLINDER

shininessTemp

public static final float[] shininessTemp

Constructor Detail

HelixGeometry

public HelixGeometry()

Constructs a HelixGeometry objects with default values for the number of facets, segments, and cross section style.

Method Detail

drawJoglGeometry

public void drawJoglGeometry(javax.media.opengl.GL gl,
                             javax.media.opengl.glu.GLU glu,
                             com.sun.opengl.util.GLUT glut)

Description copied from class: GeometryEntity

Return the BranchGroup object representing the geometrical shape contained by this GeometryEntity object. To be actually overridden in each subclass.

Overrides:

drawJoglGeometry in class GeometryEntity

setNormals

public void setNormals(Vector3f[] normals)

Sets the normals along the spine.

setSsShape

public void setSsShape(int ssshape)

Sets the general appearance of the helix shape, i.e. cylinder of ribbon.

getSsShape

public int getSsShape(int ssshape)

Returns the general appearance of the helix shape, i.e. cylinder of ribbon.

setTangents

public void setTangents(Vector3f[] tangents)

Sets the tangents along the spine.