void colorIsosurface() {
if (params.isSquared && volumeData != null) volumeData.filterData(true, Float.NaN);
/* if (params.isContoured && marchingSquares == null) {
// if (params.isContoured && !(jvxlDataIs2dContour || params.thePlane != null)) {
Logger.error("Isosurface error: Cannot contour this type of data.");
return;
}
*/
if (meshDataServer != null) {
meshDataServer.fillMeshData(meshData, MeshData.MODE_GET_VERTICES, null);
}
jvxlData.saveVertexCount = 0;
if (params.isContoured && marchingSquares != null) {
initializeMapping();
params.setMapRanges(this, false);
marchingSquares.setMinMax(params.valueMappedToRed, params.valueMappedToBlue);
jvxlData.saveVertexCount = marchingSquares.contourVertexCount;
contourVertexCount =
marchingSquares.generateContourData(
jvxlDataIs2dContour, (params.isSquared ? 1e-8f : 1e-4f));
jvxlData.contourValuesUsed = marchingSquares.getContourValues();
minMax = marchingSquares.getMinMax();
if (meshDataServer != null) meshDataServer.notifySurfaceGenerationCompleted();
finalizeMapping();
}
applyColorScale();
jvxlData.nContours = (params.contourFromZero ? params.nContours : -1 - params.nContours);
jvxlData.jvxlFileMessage =
"mapped: min = " + params.valueMappedToRed + "; max = " + params.valueMappedToBlue;
}
private void generateSurfaceData() {
edgeData = "";
if (vertexDataOnly) {
try {
readSurfaceData(false);
} catch (Exception e) {
e.printStackTrace();
Logger.error("Exception in SurfaceReader::readSurfaceData: " + e.getMessage());
}
return;
}
contourVertexCount = 0;
int contourType = -1;
marchingSquares = null;
if (params.thePlane != null || params.isContoured) {
marchingSquares =
new MarchingSquares(
this,
volumeData,
params.thePlane,
params.contoursDiscrete,
params.nContours,
params.thisContour,
params.contourFromZero);
contourType = marchingSquares.getContourType();
marchingSquares.setMinMax(params.valueMappedToRed, params.valueMappedToBlue);
}
params.contourType = contourType;
params.isXLowToHigh = isXLowToHigh;
marchingCubes = new MarchingCubes(this, volumeData, params, jvxlVoxelBitSet);
String data = marchingCubes.getEdgeData();
if (params.thePlane == null) edgeData = data;
jvxlData.setSurfaceInfoFromBitSet(marchingCubes.getBsVoxels(), params.thePlane);
jvxlData.jvxlExcluded = params.bsExcluded;
if (isJvxl) edgeData = jvxlEdgeDataRead;
postProcessVertices();
}