org.jmol.shapebio.BioShape

public class BioShape extends AtomShape

Field Summary

Fields

Modifier and Type

Field

Description

BioPolymer

bioPolymer

short[]

colixesBack

Mesh[]

meshes

boolean[]

meshReady

int

modelIndex

int

modelVisibilityFlags

Monomer[]

monomers

V3[]

wingVectors

Fields inherited from class org.jmol.shape.AtomShape
bsSizeDefault, colixes, isActive, isSet, mad, mads, monomerCount, paletteIDs

Fields inherited from class org.jmol.shape.Shape
bsColixSet, bsSizeSet, isBioShape, ms, myType, RADIUS_MAX, shapeID, translucentAllowed, translucentLevel, vf, vwr
Method Summary

Modifier and Type

Method

Description

void

falsifyMesh()

void

findNearestAtomIndex(int xMouse, int yMouse, Atom[] closest, BS bsNot)

String

getShapeState()

void

setAtomClickability()

void

setParams(Object[] data, int[] atomMap, BS bsSelected)

void

setProperty(String propertyName, Object value, BS bsSelected)

Methods inherited from class org.jmol.shape.AtomShape
checkColixLength, getSize, initModelSet, initShape, setColixAndPalette, setPropAS, setSize, setSize2, setSizeRD, setSizeRD2

Methods inherited from class org.jmol.shape.Shape
appendCmd, checkBoundsMinMax, checkObjectClicked, checkObjectDragged, checkObjectHovered, coordinateInRange, encodeColor, getColix, getColixA, getColixB, getColixI, getColorCommand, getColorCommandUnk, getFontCommand, getIndexFromName, getProperty, getPropertyData, getPropShape, getShapeDetail, getSizeG, getTranslucentLabel, initializeShape, replaceGroup, setModelSet, setModelVisibilityFlags, setProperties, setPropS, setShapeSizeRD, wasClicked

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Details
- modelIndex
  
  public int modelIndex
- modelVisibilityFlags
  
  public int modelVisibilityFlags
- bioPolymer
  
  public BioPolymer bioPolymer
- meshes
  
  public Mesh[] meshes
- meshReady
  
  public boolean[] meshReady
- colixesBack
  
  public short[] colixesBack
- monomers
  
  public Monomer[] monomers
- wingVectors
  
  public V3[] wingVectors
Method Details
- setProperty
  
  public void setProperty(String propertyName, Object value, BS bsSelected)
  
  Specified by:
  
  setProperty in class Shape
- findNearestAtomIndex
  
  public void findNearestAtomIndex(int xMouse, int yMouse, Atom[] closest, BS bsNot)
  
  Overrides:
  
  findNearestAtomIndex in class Shape
  
  Parameters:
  
  xMouse -
  
  yMouse -
  
  closest -
  
  bsNot -
- falsifyMesh
  
  public void falsifyMesh()
- setParams
  
  public void setParams(Object[] data, int[] atomMap, BS bsSelected)
- setAtomClickability
  
  public void setAtomClickability()
  
  Overrides:
  
  setAtomClickability in class AtomShape
- getShapeState
  
  public String getShapeState()
  
  Overrides:
  
  getShapeState in class AtomShape

Class BioShape

Field Summary

Fields inherited from class org.jmol.shape.AtomShape

Fields inherited from class org.jmol.shape.Shape

Method Summary

Methods inherited from class org.jmol.shape.AtomShape

Methods inherited from class org.jmol.shape.Shape

Methods inherited from class java.lang.Object

Field Details

modelIndex

modelVisibilityFlags

bioPolymer

meshes

meshReady

colixesBack

monomers

wingVectors

Method Details

setProperty

findNearestAtomIndex

falsifyMesh

setParams

setAtomClickability

getShapeState