UhbdReader

java.lang.Object
- org.jmol.jvxl.readers.SurfaceReader
- - org.jmol.jvxl.readers.SurfaceFileReader
  - - org.jmol.jvxl.readers.VolumeFileReader
    - - org.jmol.jvxl.readers.UhbdReader

All Implemented Interfaces:

VertexDataServer
```
class UhbdReader
extends VolumeFileReader
```
UHBD reader

Author:

Bob Hanson hansonr@stolaf.edu

Field Summary

Fields
Modifier and Type Field Description

private int planeCount

(package private) int pt

private int voxelCount
- Fields inherited from class org.jmol.jvxl.readers.VolumeFileReader
  ac, boundingBox, canDownsample, downsampleFactor, downsampleRemainders, endOfData, isAngstroms, nData, negativeAtomCount, nSkipX, nSkipY, nSkipZ, nSurfaces
- Fields inherited from class org.jmol.jvxl.readers.SurfaceFileReader
  binarydoc, br, line, next, out
- 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, isPeriodic, 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 Summary

Constructors
Constructor Description

UhbdReader()

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`(package private) void`	`init2(SurfaceGenerator sg, java.io.BufferedReader br)`
`protected float`	`nextVoxel()`
`protected void`	`readParameters()`

Methods inherited from class org.jmol.jvxl.readers.VolumeFileReader
checkAtomLine, closeReader, getNextVoxelValue, getPlane, getPlaneNCI, getSPFv, getSurfacePointAndFraction, getValue, getVoxelBitSet, gotoData, init2VFR, initializeSurfaceData, readSurfaceData, readSurfaceDataVFR, readVolumeData, readVolumeDataVFR, readVolumeParameters, readVoxelVector, recordData, skipComments, skipData, skipDataVFR, swapXZ

Methods inherited from class org.jmol.jvxl.readers.SurfaceFileReader
closeReaderSFR, discardTempData, getQuotedStringNext, getTokens, init, init2SFR, newBinaryDocument, parseFloat, parseFloatArray, parseFloatArrayStr, parseFloatRange, parseFloatStr, parseInt, parseIntNext, parseIntStr, rd, setOutputChannel, setStream, skipTo

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

planeCount
```
private int planeCount
```

voxelCount
```
private int voxelCount
```

pt
```
int pt
```

Constructor Detail
- UhbdReader
```
UhbdReader()
```

Method Detail

init2

void init2(SurfaceGenerator sg,
           java.io.BufferedReader br)

Overrides:: init2 in class VolumeFileReader

readParameters
```
protected void readParameters()
                       throws java.lang.Exception
```
Specified by:

readParameters in class VolumeFileReader

Throws:

java.lang.Exception

nextVoxel
```
protected float nextVoxel()
                   throws java.lang.Exception
```
Overrides:

nextVoxel in class VolumeFileReader

Throws:

java.lang.Exception