Package 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 java.lang.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 Description
    InteractiveGeodesicDistanceMap()  

  • Method Summary

    Modifier and Type Method Description
    boolean dialogItemChanged​(ij.gui.GenericDialog gd, java.awt.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, float[] weights, boolean normalize)
    Deprecated.
    ij.process.ImageProcessor process​(ij.process.ImageProcessor mask, ij.gui.Roi roi, short[] weights, boolean normalize)
    Deprecated.
    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.
    void run​(ij.process.ImageProcessor image)
    Apply the current filter settings to process the given image.
    void setNPasses​(int nPasses)  
    int setup​(java.lang.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, java.lang.String command, ij.plugin.filter.PlugInFilterRunner pfr)  

    Methods inherited from class java.lang.Object

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

  • Constructor Details

    • InteractiveGeodesicDistanceMap

      public InteractiveGeodesicDistanceMap()

  • Method Details

    • setup

      public int setup​(java.lang.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, java.lang.String command, ij.plugin.filter.PlugInFilterRunner pfr)
      Specified by:
      showDialog in interface ij.plugin.filter.ExtendedPlugInFilter

    • dialogItemChanged

      public boolean dialogItemChanged​(ij.gui.GenericDialog gd, java.awt.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