org.jmol.jvxl.data
Class VolumeData
java.lang.Object
org.jmol.jvxl.data.VolumeData
- All Implemented Interfaces:
- VolumeDataInterface
public class VolumeData
- extends java.lang.Object
- implements VolumeDataInterface
Method Summary |
float |
calculateFractionalPoint(float cutoff,
javax.vecmath.Point3f pointA,
javax.vecmath.Point3f pointB,
float valueA,
float valueB,
javax.vecmath.Point3f pt)
|
float |
calcVoxelPlaneDistance(int x,
int y,
int z)
|
void |
capData(javax.vecmath.Point4f plane,
float cutoff)
|
float |
distancePointToPlane(javax.vecmath.Point3f pt)
|
void |
filterData(boolean isSquared,
float invertCutoff)
|
static float |
getFractional2DValue(float fx,
float fy,
float x11,
float x12,
float x21,
float x22)
|
private float |
getInterpolatedVoxelValue(javax.vecmath.Point3f pt)
|
float[] |
getOriginFloat()
|
float |
getToPlaneParameter(javax.vecmath.Point4f plane)
|
float[] |
getVolumetricVectorLengths()
|
int[] |
getVoxelCounts()
|
float[][][] |
getVoxelData()
|
java.util.Hashtable |
getVoxelMap()
|
float |
getVoxelValue(int x,
int y,
int z)
|
float |
getVoxelValueFromMap(int x,
int y,
int z)
|
private static int |
indexDown(float value,
int iMax)
|
boolean |
isNearPlane(int x,
int y,
int z,
javax.vecmath.Point4f plane,
float toPlaneParameter)
|
float |
lookupInterpolatedVoxelValue(javax.vecmath.Point3f point)
|
(package private) void |
offsetCenter(javax.vecmath.Point3f center)
|
void |
setDataDistanceToPlane(javax.vecmath.Point4f plane)
|
boolean |
setMatrix()
|
void |
setPlaneParameters(javax.vecmath.Point4f plane)
|
boolean |
setUnitVectors()
|
void |
setVolumetricOrigin(float x,
float y,
float z)
|
void |
setVolumetricVector(int i,
float x,
float y,
float z)
|
java.lang.String |
setVolumetricXml()
|
int |
setVoxelCounts(int nPointsX,
int nPointsY,
int nPointsZ)
|
void |
setVoxelData(float[][][] voxelData)
|
void |
setVoxelMap(java.util.Hashtable voxelMap)
|
void |
setVoxelMapValue(int x,
int y,
int z,
float v)
for sparse data mapping, as for a plane |
void |
transform(javax.vecmath.Vector3f v1,
javax.vecmath.Vector3f v2)
|
void |
voxelPtToXYZ(int x,
int y,
int z,
javax.vecmath.Point3f pt)
|
void |
xyzToVoxelPt(float x,
float y,
float z,
javax.vecmath.Point3i pt3i)
|
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
sr
public SurfaceReader sr
doIterate
public boolean doIterate
volumetricOrigin
public final javax.vecmath.Point3f volumetricOrigin
origin
public final float[] origin
volumetricVectors
public final javax.vecmath.Vector3f[] volumetricVectors
voxelCounts
public final int[] voxelCounts
nPoints
public int nPoints
voxelData
public float[][][] voxelData
voxelMap
public java.util.Hashtable voxelMap
volumetricVectorLengths
public final float[] volumetricVectorLengths
maxVectorLength
private float maxVectorLength
minToPlaneDistance
private float minToPlaneDistance
unitVolumetricVectors
public final javax.vecmath.Vector3f[] unitVolumetricVectors
volumetricMatrix
private final javax.vecmath.Matrix3f volumetricMatrix
inverseMatrix
private final javax.vecmath.Matrix3f inverseMatrix
thePlane
private javax.vecmath.Point4f thePlane
thePlaneNormalMag
private float thePlaneNormalMag
ptXyzTemp
private final javax.vecmath.Point3f ptXyzTemp
xmlData
public java.lang.String xmlData
mappingPlane
javax.vecmath.Point4f mappingPlane
isSquared
private boolean isSquared
edgeVector
private final javax.vecmath.Vector3f edgeVector
ptTemp
private javax.vecmath.Point3f ptTemp
VolumeData
public VolumeData()
setVolumetricOrigin
public void setVolumetricOrigin(float x,
float y,
float z)
- Specified by:
setVolumetricOrigin
in interface VolumeDataInterface
getOriginFloat
public float[] getOriginFloat()
- Specified by:
getOriginFloat
in interface VolumeDataInterface
getVolumetricVectorLengths
public float[] getVolumetricVectorLengths()
- Specified by:
getVolumetricVectorLengths
in interface VolumeDataInterface
setVolumetricVector
public void setVolumetricVector(int i,
float x,
float y,
float z)
- Specified by:
setVolumetricVector
in interface VolumeDataInterface
getVoxelCounts
public int[] getVoxelCounts()
- Specified by:
getVoxelCounts
in interface VolumeDataInterface
setVoxelCounts
public int setVoxelCounts(int nPointsX,
int nPointsY,
int nPointsZ)
- Specified by:
setVoxelCounts
in interface VolumeDataInterface
getVoxelData
public float[][][] getVoxelData()
- Specified by:
getVoxelData
in interface VolumeDataInterface
setVoxelData
public void setVoxelData(float[][][] voxelData)
- Specified by:
setVoxelData
in interface VolumeDataInterface
getVoxelMap
public java.util.Hashtable getVoxelMap()
setVoxelMap
public void setVoxelMap(java.util.Hashtable voxelMap)
getVoxelValueFromMap
public float getVoxelValueFromMap(int x,
int y,
int z)
setMatrix
public boolean setMatrix()
transform
public void transform(javax.vecmath.Vector3f v1,
javax.vecmath.Vector3f v2)
- Specified by:
transform
in interface VolumeDataInterface
setPlaneParameters
public void setPlaneParameters(javax.vecmath.Point4f plane)
- Specified by:
setPlaneParameters
in interface VolumeDataInterface
calcVoxelPlaneDistance
public float calcVoxelPlaneDistance(int x,
int y,
int z)
- Specified by:
calcVoxelPlaneDistance
in interface VolumeDataInterface
getToPlaneParameter
public float getToPlaneParameter(javax.vecmath.Point4f plane)
isNearPlane
public boolean isNearPlane(int x,
int y,
int z,
javax.vecmath.Point4f plane,
float toPlaneParameter)
distancePointToPlane
public float distancePointToPlane(javax.vecmath.Point3f pt)
- Specified by:
distancePointToPlane
in interface VolumeDataInterface
voxelPtToXYZ
public void voxelPtToXYZ(int x,
int y,
int z,
javax.vecmath.Point3f pt)
- Specified by:
voxelPtToXYZ
in interface VolumeDataInterface
setUnitVectors
public boolean setUnitVectors()
xyzToVoxelPt
public void xyzToVoxelPt(float x,
float y,
float z,
javax.vecmath.Point3i pt3i)
- Specified by:
xyzToVoxelPt
in interface VolumeDataInterface
lookupInterpolatedVoxelValue
public float lookupInterpolatedVoxelValue(javax.vecmath.Point3f point)
- Specified by:
lookupInterpolatedVoxelValue
in interface VolumeDataInterface
getInterpolatedVoxelValue
private float getInterpolatedVoxelValue(javax.vecmath.Point3f pt)
getVoxelValue
public float getVoxelValue(int x,
int y,
int z)
getFractional2DValue
public static float getFractional2DValue(float fx,
float fy,
float x11,
float x12,
float x21,
float x22)
indexDown
private static int indexDown(float value,
int iMax)
offsetCenter
void offsetCenter(javax.vecmath.Point3f center)
setDataDistanceToPlane
public void setDataDistanceToPlane(javax.vecmath.Point4f plane)
- Specified by:
setDataDistanceToPlane
in interface VolumeDataInterface
filterData
public void filterData(boolean isSquared,
float invertCutoff)
- Specified by:
filterData
in interface VolumeDataInterface
capData
public void capData(javax.vecmath.Point4f plane,
float cutoff)
- Specified by:
capData
in interface VolumeDataInterface
setVolumetricXml
public java.lang.String setVolumetricXml()
setVoxelMapValue
public void setVoxelMapValue(int x,
int y,
int z,
float v)
- for sparse data mapping, as for a plane
- Parameters:
x
- y
- z
- v
-
calculateFractionalPoint
public float calculateFractionalPoint(float cutoff,
javax.vecmath.Point3f pointA,
javax.vecmath.Point3f pointB,
float valueA,
float valueB,
javax.vecmath.Point3f pt)