Package sc.fiji.snt.tracing

Class TracerThread

java.lang.Object

sc.fiji.snt.tracing.AbstractSearch

sc.fiji.snt.tracing.SearchThread

sc.fiji.snt.tracing.TracerThread

All Implemented Interfaces:

Runnable, SearchInterface

public class TracerThread
extends SearchThread

SNT's default tracer thread: explores between two points in an image, doing an A* search with a choice of distance measures.

Field Summary

Fields inherited from class sc.fiji.snt.tracing.SearchThread

CANCELLED, CLOSED_FROM_GOAL, closed_from_goal_count, CLOSED_FROM_START, closed_from_start_count, costFunction, EXIT_REASONS_STRINGS, exitReason, FREE, lastReportMilliseconds, loops, loops_at_last_report, nodes_as_image_from_goal, nodes_as_image_from_start, OPEN_FROM_GOAL, open_from_start, OPEN_FROM_START, OUT_OF_MEMORY, POINTS_EXHAUSTED, started_at, SUCCESS, TIMED_OUT, verbose

Fields inherited from class sc.fiji.snt.tracing.AbstractSearch

img, imgAccess, imgDepth, imgHeight, imgWidth, neighborDistances, progressListeners, reportEveryMilliseconds, spacing_units, timeoutSeconds, xMax, xMin, xSep, yMax, yMin, ySep, zMax, zMin, zSep

Constructor Summary

Constructors

Constructor	Description
TracerThread(net.imagej.Dataset dataset, int start_x, int start_y, int start_z, int goal_x, int goal_y, int goal_z, int timeoutSeconds, long reportEveryMilliseconds, SNT.SearchImageType searchImageType, Cost costFunction, Heuristic heuristic)
TracerThread(net.imagej.Dataset dataset, int start_x, int start_y, int start_z, int goal_x, int goal_y, int goal_z, int timeoutSeconds, long reportEveryMilliseconds, Cost costFunction, Heuristic heuristic)
TracerThread(net.imagej.Dataset dataset, int start_x, int start_y, int start_z, int goal_x, int goal_y, int goal_z, Cost costFunction)
TracerThread(net.imagej.Dataset dataset, int start_x, int start_y, int start_z, int goal_x, int goal_y, int goal_z, Cost costFunction, Heuristic heuristic)
TracerThread(net.imglib2.RandomAccessibleInterval<? extends net.imglib2.type.numeric.RealType<?>> image, ij.measure.Calibration calibration, int start_x, int start_y, int start_z, int goal_x, int goal_y, int goal_z, int timeoutSeconds, long reportEveryMilliseconds, SNT.SearchImageType searchImageType, Cost costFunction, Heuristic heuristic)
TracerThread(SNT snt, int start_x, int start_y, int start_z, int goal_x, int goal_y, int goal_z)
TracerThread(SNT snt, int start_x, int start_y, int start_z, int goal_x, int goal_y, int goal_z, Cost costFunction, Heuristic heuristic)
TracerThread(SNT snt, net.imglib2.RandomAccessibleInterval<? extends net.imglib2.type.numeric.RealType<?>> image, int start_x, int start_y, int start_z, int goal_x, int goal_y, int goal_z, Cost costFunction, Heuristic heuristic)

Method Summary

Modifier and Type	Method	Description
protected boolean	atGoal(int x, int y, int z, boolean fromStart)
protected double	estimateCostToGoal(int current_x, int current_y, int current_z, boolean fromStart)
protected void	foundGoal(Path pathToGoal)
Path	getResult()

Methods inherited from class sc.fiji.snt.tracing.SearchThread

addNode, addProgressListener, checkStatus, createNewNode, getExitReason, getNodesAsImageFromGoal, getNodesAsImageFromStart, pointsConsideredInSearch, printStatus, reportFinished, reportPointsInSearch, run

Methods inherited from class sc.fiji.snt.tracing.AbstractSearch

precomputeNeighborDistances

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details

TracerThread

public TracerThread(SNT snt,
 int start_x,
 int start_y,
 int start_z,
 int goal_x,
 int goal_y,
 int goal_z)

TracerThread

public TracerThread(SNT snt,
 int start_x,
 int start_y,
 int start_z,
 int goal_x,
 int goal_y,
 int goal_z,
 Cost costFunction,
 Heuristic heuristic)

TracerThread

public TracerThread(SNT snt,
 net.imglib2.RandomAccessibleInterval<? extends net.imglib2.type.numeric.RealType<?>> image,
 int start_x,
 int start_y,
 int start_z,
 int goal_x,
 int goal_y,
 int goal_z,
 Cost costFunction,
 Heuristic heuristic)

TracerThread

public TracerThread(net.imglib2.RandomAccessibleInterval<? extends net.imglib2.type.numeric.RealType<?>> image,
 ij.measure.Calibration calibration,
 int start_x,
 int start_y,
 int start_z,
 int goal_x,
 int goal_y,
 int goal_z,
 int timeoutSeconds,
 long reportEveryMilliseconds,
 SNT.SearchImageType searchImageType,
 Cost costFunction,
 Heuristic heuristic)

TracerThread

public TracerThread(net.imagej.Dataset dataset,
 int start_x,
 int start_y,
 int start_z,
 int goal_x,
 int goal_y,
 int goal_z,
 int timeoutSeconds,
 long reportEveryMilliseconds,
 SNT.SearchImageType searchImageType,
 Cost costFunction,
 Heuristic heuristic)

TracerThread

public TracerThread(net.imagej.Dataset dataset,
 int start_x,
 int start_y,
 int start_z,
 int goal_x,
 int goal_y,
 int goal_z,
 int timeoutSeconds,
 long reportEveryMilliseconds,
 Cost costFunction,
 Heuristic heuristic)

TracerThread

public TracerThread(net.imagej.Dataset dataset,
 int start_x,
 int start_y,
 int start_z,
 int goal_x,
 int goal_y,
 int goal_z,
 Cost costFunction,
 Heuristic heuristic)

TracerThread

public TracerThread(net.imagej.Dataset dataset,
 int start_x,
 int start_y,
 int start_z,
 int goal_x,
 int goal_y,
 int goal_z,
 Cost costFunction)

Method Details

atGoal

protected boolean atGoal(int x,
 int y,
 int z,
 boolean fromStart)

Overrides:

atGoal in class SearchThread

foundGoal

protected void foundGoal(Path pathToGoal)

Overrides:

foundGoal in class SearchThread

getResult

public Path getResult()

estimateCostToGoal

protected double estimateCostToGoal(int current_x,
 int current_y,
 int current_z,
 boolean fromStart)