org.jmol.jvxl.readers
class VolumeDataReader extends SurfaceReader
Modifier and Type | Field and Description |
---|---|
protected boolean |
allowMapData |
protected AtomDataServer |
atomDataServer |
protected int |
dataType |
protected int |
maxGrid |
protected Point3f |
point |
protected boolean |
precalculateVoxelData |
protected float |
ptsPerAngstrom |
protected boolean |
useOriginStepsPoints |
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, jvxlDataIsColorDensity, 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
Constructor and Description |
---|
VolumeDataReader(SurfaceGenerator sg) |
Modifier and Type | Method and Description |
---|---|
protected void |
closeReader() |
protected void |
generateCube() |
protected void |
readSurfaceData(boolean isMapData) |
protected boolean |
readVolumeData(boolean isMapData) |
protected boolean |
readVolumeParameters(boolean isMapData) |
protected void |
readVoxelDataIndividually(boolean isMapData) |
(package private) void |
setup(boolean isMapData) |
protected void |
setVolumeData() |
protected boolean |
setVolumeDataParams() |
protected int |
setVoxelRange(int index,
float min,
float max,
float ptsPerAngstrom,
int gridMax) |
protected void |
showGridInfo() |
addTriangleCheck, addVertexCopy, applyColorScale, colorIsosurface, createIsosurface, discardTempData, excludeMaximumSet, excludeMinimumSet, finalizeMapping, getColorPhaseIndex, getMinMaxMappedValues, getPlane, getSurfaceAtomIndex, getSurfacePointAndFraction, getSurfacePointIndexAndFraction, getValue, getValueAtPoint, gotoAndReadVoxelData, gotoData, initializeMapping, initializeVolumetricData, initPlanes, jvxlUpdateInfo, newVoxelDataCube, postProcessVertices, readAndSetVolumeParameters, readColorData, resetIsosurface, selectPocket, setBoundingBox, setOutputStream, setVectorAnisotropy, setVertexAnisotropy, setVolumeData, setVolumetricAnisotropy, setVolumetricOriginAnisotropy, slabIsosurface, updateSurfaceData, updateTriangles
protected int dataType
protected boolean precalculateVoxelData
protected boolean allowMapData
protected Point3f point
protected float ptsPerAngstrom
protected int maxGrid
protected AtomDataServer atomDataServer
protected boolean useOriginStepsPoints
VolumeDataReader(SurfaceGenerator sg)
void setup(boolean isMapData)
isMapData
- protected boolean readVolumeParameters(boolean isMapData)
readVolumeParameters
in class SurfaceReader
protected boolean readVolumeData(boolean isMapData)
readVolumeData
in class SurfaceReader
protected void readVoxelDataIndividually(boolean isMapData) throws Exception
Exception
protected void setVolumeData()
protected boolean setVolumeDataParams()
protected void showGridInfo()
protected int setVoxelRange(int index, float min, float max, float ptsPerAngstrom, int gridMax)
protected void readSurfaceData(boolean isMapData) throws Exception
readSurfaceData
in class SurfaceReader
Exception
protected void generateCube()
protected void closeReader()
closeReader
in class SurfaceReader