Class Shape

java.lang.Object
org.jmol.shape.Shape
Direct Known Subclasses:
AtomShape, BioShapeCollection, Dipoles, FontLineShape, Frank, MeshCollection, Sticks, TextShape
public abstract class Shape extends Object
Shape now encompasses: AtomShape (abstract) | Balls, Dots, Ellipsoids, Halos, Labels, Polyhedra, Stars, Vectors | GeoSurface BioShapeCollection (abstract) | Backbone, Cartoon, MeshRibbon, Ribbons, Rockets, Strands, Trace Dipoles FontLineShape (abstract) | Axes, Bbcage, Frank, Uccage Measures MeshCollection (abstract) | | Draw Isosurface | LcaoCartoon, MolecularOrbital, Pmesh Sticks | Hsticks, Sssticks TextShape (abstract) | Echo, Hover

  • Field Details

    • myType

      public String myType

    • RADIUS_MAX

      public static final float RADIUS_MAX
      See Also:

    • vwr

      public Viewer vwr

    • ms

      public ModelSet ms

    • shapeID

      public int shapeID

    • vf

      public int vf
      shape visibility flag

    • translucentLevel

      protected float translucentLevel

    • translucentAllowed

      public boolean translucentAllowed

    • isBioShape

      public boolean isBioShape

    • bsSizeSet

      public BS bsSizeSet

    • bsColixSet

      public BS bsColixSet

  • Constructor Details

    • Shape

      public Shape()

  • Method Details

    • getShapeState

      public abstract String getShapeState()

    • setProperty

      public abstract void setProperty(String propertyName, Object value, BS bsSelected)

    • initializeShape

      public final void initializeShape(Viewer vwr, ModelSet modelSet, int shapeID)

    • initShape

      public abstract void initShape()

    • setModelVisibilityFlags

      public void setModelVisibilityFlags(BS bsModels)
      Parameters:
      bsModels -

    • getSize

      public int getSize(int atomIndex)
      overridden in Dots, CGOMesh, and AtomShape
      Parameters:
      atomIndex -
      Returns:
      size

    • getSizeG

      public int getSizeG(Group group)
      Parameters:
      group -
      Returns:
      size

    • replaceGroup

      public void replaceGroup(Group g0, Group g1)
      Parameters:
      g0 -
      g1 -

    • setModelSet

      public void setModelSet(ModelSet modelSet)

    • initModelSet

      protected void initModelSet()

    • setShapeSizeRD

      public void setShapeSizeRD(int size, RadiusData rd, BS bsSelected)

    • setSize

      protected void setSize(int size, BS bsSelected)
      Parameters:
      size -
      bsSelected -

    • setSizeRD

      protected void setSizeRD(RadiusData rd, BS bsSelected)
      Parameters:
      rd -
      bsSelected -

    • setPropS

      protected void setPropS(String propertyName, Object value, BS bsSelected)

    • getPropertyData

      public boolean getPropertyData(String property, Object[] data)
      Parameters:
      property -
      data -
      Returns:
      true if serviced

    • getPropShape

      protected boolean getPropShape(String property, Object[] data)

    • getProperty

      public Object getProperty(String property, int index)
      Parameters:
      property -
      index -
      Returns:
      true if serviced

    • getIndexFromName

      public int getIndexFromName(String thisID)
      Parameters:
      thisID -
      Returns:
      index

    • wasClicked

      public boolean wasClicked(int x, int y)
      Parameters:
      x -
      y -
      Returns:
      T/F

    • findNearestAtomIndex

      public void findNearestAtomIndex(int xMouse, int yMouse, Atom[] closest, BS bsNot)
      Parameters:
      xMouse -
      yMouse -
      closest -
      bsNot -

    • checkBoundsMinMax

      public void checkBoundsMinMax(P3 pointMin, P3 pointMax)
      Parameters:
      pointMin -
      pointMax -

    • setAtomClickability

      public void setAtomClickability()

    • checkObjectClicked

      public Map<String,Object> checkObjectClicked(int x, int y, int modifiers, BS bsVisible, boolean drawPicking)
      Parameters:
      x -
      y -
      modifiers -
      bsVisible -
      drawPicking - TODO
      Returns:
      Hashtable containing information about pt clicked

    • checkObjectHovered

      public boolean checkObjectHovered(int x, int y, BS bsVisible)
      Parameters:
      x -
      y -
      bsVisible -
      Returns:
      T/F

    • checkObjectDragged

      public boolean checkObjectDragged(int prevX, int prevY, int x, int y, int dragAction, BS bsVisible)
      Parameters:
      prevX -
      prevY -
      x -
      y -
      dragAction -
      bsVisible -
      Returns:
      T/F

    • coordinateInRange

      protected int coordinateInRange(int x, int y, T3 vertex, int dmin2, P3i ptXY)

    • getColixI

      public short getColixI(short colix, byte paletteID, int atomIndex)

    • getColixA

      protected short getColixA(short colix, byte paletteID, Atom atom)

    • getColixB

      protected short getColixB(short colix, int pid, Bond bond)

    • getShapeDetail

      public Object getShapeDetail()

    • getColix

      public static short getColix(short[] colixes, int i, Atom atom)

    • getFontCommand

      public static String getFontCommand(String type, Font font)

    • getColorCommandUnk

      public static String getColorCommandUnk(String type, short colix, boolean translucentAllowed)

    • getColorCommand

      public static String getColorCommand(String type, byte pid, short colix, boolean translucentAllowed)

    • encodeColor

      public static String encodeColor(short colix)

    • getTranslucentLabel

      public static String getTranslucentLabel(short colix)

    • appendCmd

      protected static void appendCmd(SB s, String cmd)

    • setProperties

      public void setProperties(Object value)