inra.ijpb.plugins

Class InteractiveGeodesicDistanceMap

java.lang.Object

inra.ijpb.plugins.InteractiveGeodesicDistanceMap

All Implemented Interfaces:

ij.gui.DialogListener, ij.plugin.filter.ExtendedPlugInFilter, ij.plugin.filter.PlugInFilter

public class InteractiveGeodesicDistanceMap
extends Object
implements ij.plugin.filter.ExtendedPlugInFilter, ij.gui.DialogListener

Plugin for computing geodesic distance map from binary images using chamfer weights. The difference with the regular GeodesicDistanceMapPlugin is that the marker image is created on demand based on user-defined ROIs.

Author:

Ignacio Arganda-Carreras

Field Summary

Fields inherited from interface ij.plugin.filter.ExtendedPlugInFilter

KEEP_PREVIEW

Fields inherited from interface ij.plugin.filter.PlugInFilter

CONVERT_TO_FLOAT, DOES_16, DOES_32, DOES_8C, DOES_8G, DOES_ALL, DOES_RGB, DOES_STACKS, DONE, FINAL_PROCESSING, KEEP_THRESHOLD, NO_CHANGES, NO_IMAGE_REQUIRED, NO_UNDO, NO_UNDO_RESET, PARALLELIZE_IMAGES, PARALLELIZE_STACKS, ROI_REQUIRED, SNAPSHOT, STACK_REQUIRED, SUPPORTS_MASKING

Constructor Summary

Constructors

Constructor and Description
InteractiveGeodesicDistanceMap()

Method Summary

Modifier and Type	Method and Description
boolean	dialogItemChanged(ij.gui.GenericDialog gd, AWTEvent evt) Called when a dialog widget has been modified: recomputes option values from dialog content.
ij.process.ImageProcessor	process(ij.process.ImageProcessor mask, ij.gui.Roi roi, ChamferMask2D chamferMask, boolean floatProcess, boolean normalize) Computes the distance propagated from the boundary of the white particles, within the white phase.
ij.process.ImageProcessor	process(ij.process.ImageProcessor mask, ij.gui.Roi roi, float[] weights, boolean normalize) Deprecated.
ij.process.ImageProcessor	process(ij.process.ImageProcessor mask, ij.gui.Roi roi, short[] weights, boolean normalize) Deprecated.
void	run(ij.process.ImageProcessor image) Apply the current filter settings to process the given image.
void	setNPasses(int nPasses)
int	setup(String arg, ij.ImagePlus imp) Called at the beginning of the process to know if the plugin can be run with current image, and at the end to finalize.
int	showDialog(ij.ImagePlus imp, String command, ij.plugin.filter.PlugInFilterRunner pfr)

Methods inherited from class java.lang.Object

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

Constructor Detail

InteractiveGeodesicDistanceMap

public InteractiveGeodesicDistanceMap()

Method Detail

setup

public int setup(String arg,
                 ij.ImagePlus imp)

Called at the beginning of the process to know if the plugin can be run with current image, and at the end to finalize.

Specified by:

setup in interface ij.plugin.filter.PlugInFilter

showDialog

public int showDialog(ij.ImagePlus imp,
                      String command,
                      ij.plugin.filter.PlugInFilterRunner pfr)

Specified by:

showDialog in interface ij.plugin.filter.ExtendedPlugInFilter

dialogItemChanged

public boolean dialogItemChanged(ij.gui.GenericDialog gd,
                                 AWTEvent evt)

Called when a dialog widget has been modified: recomputes option values from dialog content.

Specified by:

dialogItemChanged in interface ij.gui.DialogListener

setNPasses

public void setNPasses(int nPasses)

Specified by:

setNPasses in interface ij.plugin.filter.ExtendedPlugInFilter

run

public void run(ij.process.ImageProcessor image)

Apply the current filter settings to process the given image.

Specified by:

run in interface ij.plugin.filter.PlugInFilter

process

public ij.process.ImageProcessor process(ij.process.ImageProcessor mask,
                                         ij.gui.Roi roi,
                                         ChamferMask2D chamferMask,
                                         boolean floatProcess,
                                         boolean normalize)

Computes the distance propagated from the boundary of the white particles, within the white phase.

Parameters:

mask - the binary mask image that will constrain the propagation

roi - the roi to define the marker image

chamferMask - the chamfer mask used for computing distances

floatProcess - specifies whether algorithm should use floating-point or integer computation

normalize - specifies whether the resulting distance map should be normalized

Returns:

geodesic distance map image

process

@Deprecated
public ij.process.ImageProcessor process(ij.process.ImageProcessor mask,
                                                     ij.gui.Roi roi,
                                                     float[] weights,
                                                     boolean normalize)

Deprecated.

Computes the distance propagated from the boundary of the white particles, within the white phase.

Parameters:

mask - the binary mask image that will constrain the propagation

roi - the roi to define the marker image

weights - the set of chamfer weights for computing distances

normalize - specifies whether the resulting distance map should be normalized

Returns:

geodesic distance map image

process

@Deprecated
public ij.process.ImageProcessor process(ij.process.ImageProcessor mask,
                                                     ij.gui.Roi roi,
                                                     short[] weights,
                                                     boolean normalize)

Deprecated.

Computes the distance propagated from the boundary of the white particles, within the white phase.

Parameters:

mask - the binary mask image that will constrain the propagation

roi - the roi to define the marker image

weights - the set of chamfer weights for computing distances

normalize - specifies whether the resulting distance map should be normalized

Returns:

geodesic distance map image