public static void main(String[] args) {
// Load
File file = new File(AppUtils.getBaseDirectory(TrackMate.class), "samples/FakeTracks.xml");
TmXmlReader reader = new TmXmlReader(file);
// Analyze
TrackBranchingAnalyzer analyzer = new TrackBranchingAnalyzer(reader.getModel());
analyzer.process(reader.getModel().getTrackModel().trackIDs(false));
System.out.println("Analysis done in " + analyzer.getProcessingTime() + " ms.");
}
public static void main(final String args[]) {
final File file =
new File(AppUtils.getBaseDirectory(TrackMate.class), "samples/FakeTracks.xml");
// 1 - Load test spots
System.out.println("Opening file: " + file.getAbsolutePath());
final TmXmlReader reader = new TmXmlReader(file);
final Model model = reader.getModel();
final Settings gs = new Settings();
reader.readSettings(gs, null, null, null, null, null);
System.out.println("Spots: " + model.getSpots());
System.out.println("Found " + model.getTrackModel().nTracks(false) + " tracks in the file:");
System.out.println("Track features: ");
System.out.println();
// 2 - Track the test spots
final long start = System.currentTimeMillis();
final Map<String, Object> settings = new HashMap<String, Object>();
settings.put(KEY_LINKING_MAX_DISTANCE, 15d);
final NearestNeighborTracker tracker = new NearestNeighborTracker(model.getSpots(), settings);
tracker.setLogger(Logger.DEFAULT_LOGGER);
if (!tracker.checkInput())
System.err.println("Error checking input: " + tracker.getErrorMessage());
if (!tracker.process()) System.err.println("Error in process: " + tracker.getErrorMessage());
final long end = System.currentTimeMillis();
model.setTracks(tracker.getResult(), true);
// 3 - Print out results for testing
System.out.println();
System.out.println();
System.out.println();
System.out.println("Found " + model.getTrackModel().nTracks(false) + " final tracks.");
System.out.println("Whole tracking done in " + (end - start) + " ms.");
System.out.println();
// 5 - Display tracks
// Load Image
ij.ImageJ.main(args);
final ImagePlus imp = gs.imp;
final TrackMateModelView sd2d = new HyperStackDisplayer(model, new SelectionModel(model), imp);
sd2d.render();
sd2d.setDisplaySettings(
TrackMateModelView.KEY_TRACK_DISPLAY_MODE, TrackMateModelView.TRACK_DISPLAY_MODE_WHOLE);
}