Class SurfaceTool
- java.lang.Object
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- org.openscience.jmol.app.surfacetool.SurfaceTool
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public class SurfaceTool extends Object
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Field Summary
Fields Modifier and Type Field Description private float
anglefromZ
private int
angleUnits
private String[]
angleUnitsList
private float
angleXY
private javajs.util.V3
boxVec
private boolean
capOn
private javajs.util.P3
center
(package private) static int
CIRCLE_FRACTION
(package private) static int
DEGREES
private boolean
ghostOn
(package private) static int
GRADIANS
private SurfaceToolGUI
gui
private boolean
leftOn
private javajs.util.P3
negCorner
private javajs.util.P3
posCorner
private float
position
private float
positionMin
(package private) static int
RADIANS
private boolean
rightOn
private Slice
slice
private List<SurfaceStatus>
surfaces
private float
thickness
private float
thicknessMax
(package private) static int
UNITS_PI
(package private) boolean
useGUI
private boolean
useMolecular
private boolean
usePercent
protected JmolViewer
vwr
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Constructor Summary
Constructors Constructor Description SurfaceTool(JmolViewer vwr, HistoryFile hfile, String winName, boolean useGUI)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description private boolean
checkMesh(Mesh m)
(package private) BoxInfo
checkMeshBB(Shape[] shapes, int kind, BoxInfo box)
private void
chooseBestBoundBox()
private void
drawSlicePlane(javajs.util.SB cmd, int side, boolean on)
(package private) float
getAnglefromZ()
(package private) int
getAngleUnits()
(package private) String[]
getAngleUnitsList()
(package private) javajs.util.V3
getBoxVec()
(package private) boolean
getCapOn()
(package private) javajs.util.P3
getCenter()
(package private) boolean
getGhostOn()
(package private) javajs.util.P3
getNegCorner()
(package private) javajs.util.P3
getPosCorner()
(package private) float
getPositionMin()
(package private) float
getSliceAngleXY()
(package private) javajs.util.P4
getSliceMiddle()
(package private) float
getSlicePosition()
(package private) float
getSliceThickness()
List<SurfaceStatus>
getSurfaces()
(package private) float
getThicknessMax()
(package private) boolean
getUseMolecular()
private void
initSlice()
(package private) void
setAngleUnits(int units)
(package private) void
setCapOn(boolean b)
(package private) void
setGhostOn(boolean b)
(package private) void
setSlice(float angleXY, float anglefromZ, float position, float thickness)
Defines a slice within which isosurfaces (and in future? atoms) are displayed.(package private) void
setSliceAnglefromZ(float angle)
(package private) void
setSliceAngleXY(float angle)
(package private) void
setSlicePosition(float where)
(package private) void
setSliceThickness(float width)
(package private) void
setSurfaceToolParam()
private void
setSyncStarting()
(package private) void
setUseMolecular(boolean on)
(package private) void
showSliceBoundaryPlanes(boolean onOrOff)
(package private) void
sliceObject(String objectName, int kind)
private void
syncDone()
void
toFront()
(package private) void
toFrontOrGotFocus()
private void
updateMeshInfo(Shape[] shapes, int kind)
(package private) void
updateSlices()
private void
updateSurfaceInfo()
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Field Detail
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gui
private SurfaceToolGUI gui
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useGUI
boolean useGUI
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vwr
protected JmolViewer vwr
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negCorner
private final javajs.util.P3 negCorner
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posCorner
private final javajs.util.P3 posCorner
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center
private final javajs.util.P3 center
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boxVec
private final javajs.util.V3 boxVec
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surfaces
private final List<SurfaceStatus> surfaces
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DEGREES
static final int DEGREES
- See Also:
- Constant Field Values
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RADIANS
static final int RADIANS
- See Also:
- Constant Field Values
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GRADIANS
static final int GRADIANS
- See Also:
- Constant Field Values
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CIRCLE_FRACTION
static final int CIRCLE_FRACTION
- See Also:
- Constant Field Values
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UNITS_PI
static final int UNITS_PI
- See Also:
- Constant Field Values
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angleUnits
private int angleUnits
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angleUnitsList
private String[] angleUnitsList
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angleXY
private float angleXY
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anglefromZ
private float anglefromZ
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positionMin
private float positionMin
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position
private float position
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thickness
private float thickness
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thicknessMax
private float thicknessMax
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slice
private Slice slice
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leftOn
private boolean leftOn
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rightOn
private boolean rightOn
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ghostOn
private boolean ghostOn
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capOn
private boolean capOn
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useMolecular
private boolean useMolecular
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usePercent
private boolean usePercent
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Constructor Detail
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SurfaceTool
public SurfaceTool(JmolViewer vwr, HistoryFile hfile, String winName, boolean useGUI)
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Method Detail
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toFront
public void toFront()
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toFrontOrGotFocus
void toFrontOrGotFocus()
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chooseBestBoundBox
private void chooseBestBoundBox()
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setSurfaceToolParam
void setSurfaceToolParam()
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updateSurfaceInfo
private void updateSurfaceInfo()
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setSyncStarting
private void setSyncStarting()
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syncDone
private void syncDone()
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updateMeshInfo
private void updateMeshInfo(Shape[] shapes, int kind)
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checkMesh
private boolean checkMesh(Mesh m)
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setAngleUnits
void setAngleUnits(int units)
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getNegCorner
javajs.util.P3 getNegCorner()
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getPosCorner
javajs.util.P3 getPosCorner()
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initSlice
private void initSlice()
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showSliceBoundaryPlanes
void showSliceBoundaryPlanes(boolean onOrOff)
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setSlice
void setSlice(float angleXY, float anglefromZ, float position, float thickness)
Defines a slice within which isosurfaces (and in future? atoms) are displayed.- Parameters:
angleXY
- (float)angle in radians from X-axis to projection in XY planeanglefromZ
- (float)angle in radians from z-axis to vectorposition
- (float) position along direction vector in absolute unitsthickness
- (float) thickness of slice in absolute units
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setSliceAngleXY
void setSliceAngleXY(float angle)
- Parameters:
angle
- (float) angle from X-axis of projection on XY plane in radians.
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getSliceAngleXY
float getSliceAngleXY()
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setSliceAnglefromZ
void setSliceAnglefromZ(float angle)
- Parameters:
angle
- (float) angle of vector from Z axis in radians.
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getAnglefromZ
float getAnglefromZ()
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setSlicePosition
void setSlicePosition(float where)
- Parameters:
where
- (float) position of slice center along direction vector.
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getSlicePosition
float getSlicePosition()
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setSliceThickness
void setSliceThickness(float width)
- Parameters:
width
- (float) thickness of slice.
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getSliceThickness
float getSliceThickness()
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updateSlices
void updateSlices()
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sliceObject
void sliceObject(String objectName, int kind)
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drawSlicePlane
private void drawSlicePlane(javajs.util.SB cmd, int side, boolean on)
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getAngleUnits
int getAngleUnits()
- Returns:
- (int) possible values: SurfaceTool.RADIANS, SurfaceTool.DEGREES, SurfaceTool.GRADIANS, SurfaceTool.CIRCLE_FRACTION, SurfaceTool.UNITS_PI.
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getGhostOn
boolean getGhostOn()
- Returns:
- (boolean) true = ghost showing; false = ghost hiding.
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setGhostOn
void setGhostOn(boolean b)
- Parameters:
b
- (boolean) true for ghost on.
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getUseMolecular
boolean getUseMolecular()
- Returns:
- (boolean) true = using molecular coordinates; false = using boundbox coordinates.
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setUseMolecular
void setUseMolecular(boolean on)
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getPositionMin
float getPositionMin()
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getThicknessMax
float getThicknessMax()
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getCenter
javajs.util.P3 getCenter()
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getBoxVec
javajs.util.V3 getBoxVec()
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getSliceMiddle
javajs.util.P4 getSliceMiddle()
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getAngleUnitsList
String[] getAngleUnitsList()
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getCapOn
boolean getCapOn()
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setCapOn
void setCapOn(boolean b)
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getSurfaces
public List<SurfaceStatus> getSurfaces()
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