class IsoMOReader extends AtomDataReader
atomCount, atomData, atomDataServer, atomIndex, atomNo, atomProp, atomRadius, atomXyz, bsMyIgnored, bsMySelected, bsNearby, doAddHydrogens, doUseIterator, doUsePlane, fileDotModel, fileName, firstNearbyAtom, maxDistance, modelIndex, myAtomCount, myIndex, nearbyAtomCount
allowMapData, dataType, point, precalculateVoxelData
allowSigma, ANGSTROMS_PER_BOHR, anisotropy, center, cJvxlEdgeNaN, colorFractionBase, colorFractionRange, contourVertexCount, dataMax, dataMean, dataMin, defaultCutoff, defaultMappedDataMax, defaultMappedDataMin, eccentricityMatrix, eccentricityMatrixInverse, eccentricityRatio, eccentricityScale, edgeFractionBase, edgeFractionRange, fractionData, hasColorData, isAnisotropic, isEccentric, isJvxl, isProgressive, isXLowToHigh, jvxlColorDataRead, jvxlCutoff, jvxlData, jvxlDataIs2dContour, jvxlDataIsColorMapped, jvxlDataIsPrecisionColor, jvxlEdgeDataRead, jvxlFileHeaderBuffer, jvxlNSurfaceInts, jvxlVoxelBitSet, mappingPlane, marchingSquares, meshData, meshDataServer, minMax, nBytes, nDataPoints, nPointsX, nPointsY, nPointsZ, params, ptTemp, sg, vertexDataOnly, volumeData, volumetricOrigin, volumetricVectors, voxelCounts, voxelData, xyzMax, xyzMin
Constructor and Description |
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IsoMOReader(SurfaceGenerator sg) |
Modifier and Type | Method and Description |
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private void |
fixTitleLine(int iLine,
java.util.Hashtable mo) |
protected void |
generateCube() |
private void |
getData(MOCalculationInterface q,
java.util.Hashtable moData,
float[] coef,
int[][] dfCoefMaps,
float[] nuclearCharges) |
protected void |
setup() |
fixTitleLine, getAtoms, setHeader, setRangesAndAddAtoms
closeReader, readSurfaceData, readVolumeData, readVolumeParameters, readVoxelDataIndividually, setVoxelRange
addTriangleCheck, addVertexCopy, applyColorScale, colorIsosurface, createIsosurface, discardTempData, excludeMaximumSet, excludeMinimumSet, finalizeMapping, getColorPhaseIndex, getMinMaxMappedValues, getPlane, getSurfacePointAndFraction, getSurfacePointIndexAndFraction, getValue, getValueAtPoint, gotoAndReadVoxelData, gotoData, initializeMapping, initializeVolumetricData, jvxlUpdateInfo, readAndSetVolumeParameters, readColorData, readTheVolumeData, resetIsosurface, selectPocket, setBoundingBox, setMappingPlane, setOutputStream, setVectorAnisotropy, setVertexAnisotropy, setVolumeData, setVolumetricAnisotropy, setVolumetricOriginAnisotropy, slabIsosurface, updateSurfaceData, updateTriangles
IsoMOReader(SurfaceGenerator sg)
protected void setup()
setup
in class AtomDataReader
private void fixTitleLine(int iLine, java.util.Hashtable mo)
protected void generateCube()
generateCube
in class VolumeDataReader
private void getData(MOCalculationInterface q, java.util.Hashtable moData, float[] coef, int[][] dfCoefMaps, float[] nuclearCharges)