org.jmol.jvxl.readers
Class IsoMOReader

java.lang.Object
  org.jmol.jvxl.readers.VoxelReader
      org.jmol.jvxl.readers.VolumeDataReader
          org.jmol.jvxl.readers.AtomDataReader
              org.jmol.jvxl.readers.IsoMOReader

All Implemented Interfaces:

VertexDataServer

 class IsoMOReader
extends AtomDataReader

Field Summary

Fields inherited from class org.jmol.jvxl.readers.AtomDataReader

atomCount, atomData, atomDataServer, atomIndex, atomNo, atomProp, atomRadius, atomXyz, bsMyIgnored, bsMySelected, doAddHydrogens, doUseIterator, doUsePlane, fileDotModel, fileName, firstNearbyAtom, modelIndex, myAtomCount, myIndex, nearbyAtomCount

Fields inherited from class org.jmol.jvxl.readers.VolumeDataReader

allowMapData, anisotropy, center, dataType, eccentricityMatrix, eccentricityMatrixInverse, eccentricityRatio, eccentricityScale, isAnisotropic, isEccentric, point, precalculateVoxelData

Fields inherited from class org.jmol.jvxl.readers.VoxelReader

ANGSTROMS_PER_BOHR, cJvxlEdgeNaN, colorEncoder, colorFractionBase, colorFractionRange, contourVertexCount, defaultColorFractionBase, defaultColorFractionRange, defaultCutoff, defaultEdgeFractionBase, defaultEdgeFractionRange, defaultMappedDataMax, defaultMappedDataMin, edgeFractionBase, edgeFractionRange, fractionData, fReturn, isApbsDx, isJvxl, isProgressive, isXLowToHigh, jvxlColorDataRead, jvxlCutoff, jvxlData, jvxlDataIs2dContour, jvxlDataIsColorMapped, jvxlDataIsPrecisionColor, jvxlEdgeDataRead, jvxlFileHeaderBuffer, jvxlNSurfaceInts, marchingSquares, meshData, meshDataServer, nBytes, nDataPoints, nPointsX, nPointsY, nPointsZ, params, ptTemp, sg, volumeData, volumetricOrigin, volumetricVectors, voxelCounts, voxelData

Constructor Summary

IsoMOReader(SurfaceGenerator sg)

Method Summary

private void	fixTitleLine(int iLine, java.util.Hashtable mo)
protected void	generateCube()
protected void	setup()

Methods inherited from class org.jmol.jvxl.readers.AtomDataReader

fixTitleLine, getAtoms, setHeader, setRangesAndAddAtoms

Methods inherited from class org.jmol.jvxl.readers.VolumeDataReader

getValue, readVolumeData, readVolumeParameters, readVoxelData, readVoxelDataIndividually, setVoxelRange

Methods inherited from class org.jmol.jvxl.readers.VoxelReader

addTriangleCheck, addVertexCopy, applyColorScale, colorIsosurface, createIsosurface, discardTempData, excludeMaximumSet, excludeMinimumSet, getCalcPoint, getColorIndexFromPalette, getColorPhaseIndex, getMaxMappedValue, getMinMappedValue, getSurfacePointIndex, gotoAndReadVoxelData, gotoData, initializeVolumetricData, isInside, jvxlUpdateInfo, readColorData, readSurfacePoint, resetIsosurface, selectPocket, setVolumeData, updateSurfaceData, updateTriangles

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

IsoMOReader

IsoMOReader(SurfaceGenerator sg)

Method Detail

setup

protected void setup()

Overrides:

setup in class AtomDataReader

fixTitleLine

private void fixTitleLine(int iLine,
                          java.util.Hashtable mo)

generateCube

protected void generateCube()

Overrides:

generateCube in class VolumeDataReader