org.jmol.jvxl.readers
Class MapFileReader
java.lang.Object
org.jmol.jvxl.readers.SurfaceReader
org.jmol.jvxl.readers.SurfaceFileReader
org.jmol.jvxl.readers.VolumeFileReader
org.jmol.jvxl.readers.MapFileReader
- All Implemented Interfaces:
- VertexDataServer
- Direct Known Subclasses:
- Dsn6BinaryReader, MrcBinaryReader, XplorReader
abstract class MapFileReader
- extends VolumeFileReader
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, 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 |
Methods inherited from class org.jmol.jvxl.readers.VolumeFileReader |
checkAtomLine, closeReader, getNextVoxelValue, getPlane, getValue, getVoxelBitSet, gotoData, nextVoxel, readParameters, readSurfaceData, readVolumeData, readVolumeParameters, readVoxelVector, recordData, skipComments, skipData |
Methods inherited from class org.jmol.jvxl.readers.SurfaceFileReader |
discardTempData, getNextQuotedString, getTokens, parseFloat, parseFloat, parseFloatArray, parseFloatArray, parseInt, parseInt, parseIntNext, readLine, setOutputStream, skipTo |
Methods inherited from class org.jmol.jvxl.readers.SurfaceReader |
addTriangleCheck, addVertexCopy, applyColorScale, colorIsosurface, createIsosurface, excludeMaximumSet, excludeMinimumSet, finalizeMapping, getColorPhaseIndex, getMinMaxMappedValues, getSurfacePointAndFraction, getSurfacePointIndexAndFraction, getValueAtPoint, gotoAndReadVoxelData, initializeMapping, initializeVolumetricData, jvxlUpdateInfo, readAndSetVolumeParameters, readColorData, readTheVolumeData, resetIsosurface, selectPocket, setBoundingBox, setMappingPlane, setVectorAnisotropy, setVertexAnisotropy, setVolumeData, setVolumetricAnisotropy, setVolumetricOriginAnisotropy, slabIsosurface, updateSurfaceData, updateTriangles |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
dmin
protected float dmin
dmax
protected float dmax
dmean
protected float dmean
drange
protected float drange
mapc
protected int mapc
mapr
protected int mapr
maps
protected int maps
nx
protected int nx
ny
protected int ny
nz
protected int nz
mode
protected int mode
nxyzStart
protected int[] nxyzStart
na
protected int na
nb
protected int nb
nc
protected int nc
a
protected float a
b
protected float b
c
protected float c
alpha
protected float alpha
beta
protected float beta
gamma
protected float gamma
origin
protected Point3f origin
adjustment
protected Point3f adjustment
vectors
protected Point3f[] vectors
MapFileReader
MapFileReader(SurfaceGenerator sg,
BufferedReader br)
getVectorsAndOrigin
protected void getVectorsAndOrigin()
setCutoffAutomatic
protected void setCutoffAutomatic()