org.jmol.jvxl.readers
Class XplorReader

java.lang.Object
  org.jmol.jvxl.readers.VoxelReader
      org.jmol.jvxl.readers.VolumeFileReader
          org.jmol.jvxl.readers.XplorReader

All Implemented Interfaces:

VertexDataServer

 class XplorReader
extends VolumeFileReader

Field Summary

(package private) int	linePt
(package private) int	nBlock
(package private) int	nRead

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

atomCount, br, canDownsample, endOfData, isAngstroms, line, negativeAtomCount, next

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

XplorReader(SurfaceGenerator sg, java.io.BufferedReader br)

Method Summary

private java.lang.String	getLine()
protected float	nextVoxel()
protected void	readAtomCountAndOrigin()
protected void	readTitleLines()
protected int	readVolumetricHeader()
protected void	readVoxelVectors()

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

determineFileType, discardTempData, getNextVoxelValue, getTokens, gotoData, parseFloat, parseFloat, parseFloatNext, parseInt, parseInt, parseInt, parseIntNext, readExtraLine, readVolumeData, readVolumeParameters, readVoxelData, readVoxelVector, skipComments

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

addTriangleCheck, addVertexCopy, applyColorScale, colorIsosurface, createIsosurface, excludeMaximumSet, excludeMinimumSet, getCalcPoint, getColorIndexFromPalette, getColorPhaseIndex, getMaxMappedValue, getMinMappedValue, getSurfacePointIndex, gotoAndReadVoxelData, 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

Field Detail

nBlock

int nBlock

linePt

int linePt

nRead

int nRead

Constructor Detail

XplorReader

XplorReader(SurfaceGenerator sg,
            java.io.BufferedReader br)

Method Detail

readVolumetricHeader

protected int readVolumetricHeader()

Overrides:

readVolumetricHeader in class VolumeFileReader

readTitleLines

protected void readTitleLines()
                       throws java.lang.Exception

Overrides:

readTitleLines in class VolumeFileReader

Throws:

java.lang.Exception

readVoxelVectors

protected void readVoxelVectors()
                         throws java.lang.Exception

Throws:

java.lang.Exception

readAtomCountAndOrigin

protected void readAtomCountAndOrigin()
                               throws java.lang.Exception

Overrides:

readAtomCountAndOrigin in class VolumeFileReader

Throws:

java.lang.Exception

getLine

private java.lang.String getLine()
                          throws java.io.IOException

Throws:

java.io.IOException

nextVoxel

protected float nextVoxel()
                   throws java.lang.Exception

Overrides:

nextVoxel in class VolumeFileReader

Throws:

java.lang.Exception