class PmeshReader extends PolygonFileReader
| Modifier and Type | Field and Description |
|---|---|
protected int |
fixedCount |
private boolean |
isBinary |
protected boolean |
isClosedFace |
protected int |
iToken |
protected int |
nPolygons |
protected boolean |
onePerLine |
protected String |
pmeshError |
protected String[] |
tokens |
protected String |
type |
protected int |
vertexBase |
protected int[] |
vertexMap |
nTriangles, nVerticesallowSigma, 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 and Description |
|---|
PmeshReader() |
| Modifier and Type | Method and Description |
|---|---|
protected boolean |
checkBinary(String fileName) |
private float |
getFloat() |
private int |
getInt() |
(package private) void |
getSurfaceData() |
(package private) void |
init2(SurfaceGenerator sg,
BufferedReader br) |
protected void |
init2PR(SurfaceGenerator sg,
BufferedReader br) |
private String |
nextToken() |
(package private) boolean |
readBinaryHeader() |
protected boolean |
readPolygons() |
protected boolean |
readPolygonsPM() |
protected boolean |
readVertices() |
protected boolean |
readVerticesAndPolygons() |
protected boolean |
readVerticesPM() |
protected void |
setHeader() |
init2PFR, readSurfaceData, readVolumeData, readVolumeParameterscloseReader, closeReaderSFR, discardTempData, getQuotedStringNext, getTokens, init, init2SFR, newBinaryDocument, parseFloat, parseFloatArray, parseFloatArrayStr, parseFloatRange, parseFloatStr, parseInt, parseIntNext, parseIntStr, rd, setOutputChannel, setStream, skipToaddTriangleCheck, addVC, addVertexCopy, applyColorScale, colorIsosurface, createIsosurface, discardTempDataSR, excludeMaximumSet, excludeMinimumSet, finalizeMapping, getColorPhaseIndex, getMinMaxMappedValues, getPlane, getPlaneSR, getSPF, getSurfaceAtomIndex, getSurfacePointAndFraction, getSurfacePointIndexAndFraction, getValue, getValue2, getValueAtPoint, gotoAndReadVoxelData, gotoData, initializeMapping, initializeVolumetricData, initPlanes, initSR, jvxlUpdateInfo, newVoxelDataCube, postProcessVertices, readAndSetVolumeParameters, readColorData, resetIsosurface, selectPocket, setBBox, setVectorAnisotropy, setVertexAnisotropy, setVolumeDataV, setVolumetricAnisotropy, setVolumetricOriginAnisotropy, slabIsosurface, updateSurfaceData, updateTrianglesprivate boolean isBinary
protected int nPolygons
protected String pmeshError
protected String type
protected boolean isClosedFace
protected int fixedCount
protected boolean onePerLine
protected int vertexBase
protected int[] vertexMap
protected String[] tokens
protected int iToken
void init2(SurfaceGenerator sg, BufferedReader br)
init2 in class SurfaceFileReaderprotected void init2PR(SurfaceGenerator sg, BufferedReader br)
protected void setHeader()
protected boolean checkBinary(String fileName)
void getSurfaceData()
throws Exception
getSurfaceData in class PolygonFileReaderExceptionprotected boolean readVerticesAndPolygons()
boolean readBinaryHeader()