org.jmol.jvxl.readers
Class IsoIntersectReader
java.lang.Object
org.jmol.jvxl.readers.SurfaceReader
org.jmol.jvxl.readers.VolumeDataReader
org.jmol.jvxl.readers.AtomDataReader
org.jmol.jvxl.readers.IsoIntersectReader
- All Implemented Interfaces:
- VertexDataServer
class IsoIntersectReader
- extends AtomDataReader
Fields inherited from class org.jmol.jvxl.readers.AtomDataReader |
atomCount, atomData, atomIndex, atomNo, atomProp, atomRadius, atomXyz, bsMyIgnored, bsMySelected, bsNearby, bsSurfaceVoxels, contactPair, doAddHydrogens, doUseIterator, fileDotModel, fileName, firstNearbyAtom, havePlane, margin, maxDistance, modelIndex, myAtomCount, myIndex, nearbyAtomCount, noFaceSpheres, pt0, pt1, ptXyzTemp, ptY0, ptZ0, thisAtomSet, thisPlane, thisX, validSpheres, voxelSource |
Fields inherited from class org.jmol.jvxl.readers.SurfaceReader |
allowSigma, ANGSTROMS_PER_BOHR, anisotropy, center, cJvxlEdgeNaN, colorFractionBase, colorFractionRange, contourVertexCount, dataMax, dataMean, dataMin, defaultCutoff, defaultMappedDataMax, defaultMappedDataMin, eccentricityMatrix, eccentricityMatrixInverse, eccentricityRatio, eccentricityScale, edgeFractionBase, edgeFractionRange, fractionData, hasColorData, haveSurfaceAtoms, isAnisotropic, isEccentric, isJvxl, isProgressive, isQuiet, isXLowToHigh, jvxlColorDataRead, jvxlCutoff, jvxlData, jvxlDataIs2dContour, jvxlDataIsColorMapped, jvxlDataIsPrecisionColor, jvxlEdgeDataRead, jvxlFileHeaderBuffer, jvxlNSurfaceInts, jvxlVoxelBitSet, marchingCubes, marchingSquares, meshData, meshDataServer, minMax, nBytes, nDataPoints, nPointsX, nPointsY, nPointsZ, params, ptTemp, qpc, sg, vertexDataOnly, volumeData, volumetricOrigin, volumetricVectors, voxelCounts, voxelData, xyzMax, xyzMin, yzCount, yzPlanes |
Methods inherited from class org.jmol.jvxl.readers.AtomDataReader |
fixTitleLine, getAtomMinMax, getAtoms, markPlaneVoxels, markSphereVoxels, resetPlane, resetVoxelData, setGridLimitsForAtom, setHeader, setRanges, setVertexSource, setVolumeData, setVolumeForPlane, setVoxel, unsetVoxelData |
Methods inherited from class org.jmol.jvxl.readers.SurfaceReader |
addTriangleCheck, addVertexCopy, applyColorScale, colorIsosurface, createIsosurface, discardTempData, excludeMaximumSet, excludeMinimumSet, finalizeMapping, getColorPhaseIndex, getMinMaxMappedValues, getSurfaceAtomIndex, getSurfacePointAndFraction, getSurfacePointIndexAndFraction, getValue, gotoAndReadVoxelData, gotoData, initializeMapping, initializeVolumetricData, initPlanes, jvxlUpdateInfo, newVoxelDataCube, readAndSetVolumeParameters, readColorData, resetIsosurface, selectPocket, setBoundingBox, setOutputStream, setVectorAnisotropy, setVertexAnisotropy, setVolumeData, setVolumetricAnisotropy, setVolumetricOriginAnisotropy, slabIsosurface, updateSurfaceData, updateTriangles |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
TYPE_FUNCTION
private static final int TYPE_FUNCTION
- See Also:
- Constant Field Values
TYPE_SUM
private static final int TYPE_SUM
- See Also:
- Constant Field Values
TYPE_DIFF
private static final int TYPE_DIFF
- See Also:
- Constant Field Values
TYPE_MAX
private static final int TYPE_MAX
- See Also:
- Constant Field Values
TYPE_DIFF_PAIR
private static final int TYPE_DIFF_PAIR
- See Also:
- Constant Field Values
myBsA
private final java.util.BitSet myBsA
myBsB
private final java.util.BitSet myBsB
bsAtomMinMax
private java.util.BitSet[][] bsAtomMinMax
func
private java.lang.Object[] func
funcType
private int funcType
thisPlaneB
private float[] thisPlaneB
values
private final float[] values
IsoIntersectReader
IsoIntersectReader(SurfaceGenerator sg)
readVolumeParameters
protected boolean readVolumeParameters(boolean isMapData)
- Overrides:
readVolumeParameters
in class VolumeDataReader
setup
protected void setup(boolean isMapData)
- Overrides:
setup
in class AtomDataReader
getPlane
public float[] getPlane(int x)
- Specified by:
getPlane
in interface VertexDataServer
- Overrides:
getPlane
in class SurfaceReader
postProcessVertices
protected void postProcessVertices()
- Overrides:
postProcessVertices
in class SurfaceReader
setVoxels
private boolean setVoxels()
getValue
private float getValue(float va,
float vb)
getValueAtPoint
public float getValueAtPoint(javax.vecmath.Point3f pt)
- Overrides:
getValueAtPoint
in class SurfaceReader
- Returns:
- value
getValueAtPoint
private float getValueAtPoint(javax.vecmath.Point3f pt,
java.util.BitSet bs)