Package org.jmol.renderbio

Class TraceRenderer

java.lang.Object
org.jmol.render.ShapeRenderer
org.jmol.renderbio.StrandsRenderer
org.jmol.renderbio.TraceRenderer
public class TraceRenderer extends StrandsRenderer

  • Field Details

    • cartoonsFancy

      protected boolean cartoonsFancy

    • monomerCount

      protected int monomerCount

    • monomers

      protected Monomer[] monomers

    • isNucleic

      protected boolean isNucleic

    • isPhosphorusOnly

      protected boolean isPhosphorusOnly

    • isCarbohydrate

      protected boolean isCarbohydrate

    • bsVisible

      protected BS bsVisible

    • ribbonTopScreens

      protected P3[] ribbonTopScreens

    • ribbonBottomScreens

      protected P3[] ribbonBottomScreens

    • controlPoints

      protected P3[] controlPoints

    • controlPointScreens

      protected P3[] controlPointScreens

    • leadAtomIndices

      protected int[] leadAtomIndices

    • wingVectors

      protected V3[] wingVectors

    • mads

      protected short[] mads

    • colixes

      protected short[] colixes

    • colixesBack

      protected short[] colixesBack

    • structureTypes

      protected STR[] structureTypes

    • wireframeOnly

      protected boolean wireframeOnly

    • renderStruts

      protected boolean renderStruts

  • Constructor Details

    • TraceRenderer

      public TraceRenderer()

  • Method Details

    • renderBioShape

      protected void renderBioShape(BioShape bioShape)
      Overrides:
      renderBioShape in class StrandsRenderer

    • renderTrace

      protected void renderTrace()

    • render

      protected boolean render()
      Specified by:
      render in class ShapeRenderer

    • setBioColix

      protected boolean setBioColix(short colix)

    • calcScreenControlPoints

      protected void calcScreenControlPoints()

    • calcScreens

      protected P3[] calcScreens(float offsetFraction, short[] mads)
      calculate screen points based on control points and wing positions (cartoon, strand, meshRibbon, and ribbon)
      Parameters:
      offsetFraction -
      mads -
      Returns:
      Point3i array THAT MUST BE LATER FREED

    • getLeadColix

      protected short getLeadColix(int i)

    • getLeadColixBack

      protected short getLeadColixBack(int i)

    • setColix

      protected boolean setColix(short colix)

    • renderHermiteCylinder

      protected void renderHermiteCylinder(P3[] screens, int i)

    • renderHermiteConic

      protected void renderHermiteConic(int i, boolean thisTypeOnly, int tension)

    • renderHermiteRibbon

      protected void renderHermiteRibbon(boolean doFill, int i, boolean thisTypeOnly)
      Parameters:
      doFill -
      i -
      thisTypeOnly - true for Cartoon but not MeshRibbon

    • renderHermiteArrowHead

      protected void renderHermiteArrowHead(int i)

    • drawSegmentAB

      protected void drawSegmentAB(Atom atomA, Atom atomB, short colixA, short colixB, float max)

    • getStrutPointIfNeeded

      protected Point3fi getStrutPointIfNeeded(Atom a)
      Get strut point for trace, rocket, strand
      Parameters:
      a - control atom
      Returns:
      point only if not null and not already set

    • setStrutPoint

      protected void setStrutPoint(Atom a, Point3fi newPt)