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Public Member Functions | Static Public Member Functions | Public Attributes | Static Public Attributes | Protected Member Functions | Protected Attributes | Package Functions | Static Package Functions | Package Attributes

org::jmol::shapebio::Strands Class Reference

Inheritance diagram for org::jmol::shapebio::Strands:
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List of all members.

Public Member Functions

void checkBoundsMinMax (Point3f pointMin, Point3f pointMax)
Point3fi checkObjectClicked (int x, int y, int modifiers, BitSet bsVisible)
boolean checkObjectDragged (int prevX, int prevY, int x, int y, int modifiers, BitSet bsVisible)
boolean checkObjectHovered (int x, int y, BitSet bsVisible)
void findNearestAtomIndex (int xMouse, int yMouse, Atom[] closest, BitSet bsNot)
String getColorCommand (String type, short colix)
String getColorCommand (String type, byte pid, short colix)
int getIndexFromName (String thisID)
boolean getProperty (String property, Object[] data)
Object getProperty (String property, int index)
List getShapeDetail ()
String getShapeState ()
int getSize (int atomIndex)
int getSize (Group group)
Viewer getViewer ()
final void initializeShape (Viewer viewer, Graphics3D g3d, ModelSet modelSet, int shapeID)
final void initModelSet ()
void initShape ()
void merge (Shape shape)
short setColix (short colix, byte paletteID, int atomIndex)
void setModelClickability ()
void setModelSet (ModelSet modelSet)
void setProperty (String propertyName, Object value, BitSet bsSelected)
void setShapeProperty (String propertyName, Object value, BitSet bsSelected)
void setShapeSize (int size, RadiusData rd, BitSet bsSelected)
void setVisibilityFlags (BitSet bs)
boolean wasClicked (int x, int y)

Static Public Member Functions

static void appendCmd (StringBuffer s, String cmd)
static short getColix (short[] colixes, int i, Atom atom)
static String getFontCommand (String type, Font3D font)
static String getShapeCommands (Hashtable htDefine, Hashtable htMore, String selectCmd)
static String getShapeCommands (Hashtable htDefine, Hashtable htMore)
static void setStateInfo (Hashtable ht, int i, String key)
static void setStateInfo (Hashtable ht, int i1, int i2, String key)

Public Attributes

Graphics3D g3d
boolean isBioShape
ModelSet modelSet
int myVisibilityFlag
int shapeID
Viewer viewer

Static Public Attributes

static final float RADIUS_MAX = 4

Protected Member Functions

int coordinateInRange (int x, int y, Point3f vertex, int dmin2, Point3i ptXY)
short setColix (short colix, byte paletteID, Bond bond)
short setColix (short colix, byte paletteID, Atom atom)
void setSize (int size, BitSet bsSelected)
void setSize (RadiusData rd, BitSet bsSelected)

Protected Attributes

boolean translucentAllowed = true
float translucentLevel
List xmlProperties

Package Functions

BioShape getBioShape (int i)
int getMpsShapeCount ()
void initialize ()

Static Package Functions

static String encodeColor (short colix)

Package Attributes

Atom[] atoms
BioShape[] bioShapes
boolean isActive = false
boolean isMesh
short madDnaRna = 5000
short madHelixSheet = 3000
short madOn = -2
short madTurnRandom = 800

Detailed Description

Definition at line 27 of file Strands.java.


The documentation for this class was generated from the following file:

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