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: http://www.astro.louisville.edu/software/astroimagej/imagej/api/ij/plugin/filter/MaximumFinder.html
Дата изменения: Thu Dec 2 23:03:10 2010 Дата индексирования: Mon Oct 1 23:42:53 2012 Кодировка: Поисковые слова: cassini spacecraft |
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java.lang.Objectij.plugin.filter.MaximumFinder
public class MaximumFinder
This ImageJ plug-in filter finds the maxima (or minima) of an image. It can create a mask where the local maxima of the current image are marked (255; unmarked pixels 0). The plug-in can also create watershed-segmented particles: Assume a landscape of inverted heights, i.e., maxima of the image are now water sinks. For each point in the image, the sink that the water goes to determines which particle it belongs to. When finding maxima (not minima), pixels with a level below the lower threshold can be left unprocessed. Except for segmentation, this plugin works with ROIs, including non-rectangular ROIs. Since this plug-in creates a separate output image it processes only single images or slices, no stacks. Notes: - When using one instance of MaximumFinder for more than one image in parallel threads, all must images have the same width and height. version 09-Nov-2006 Michael Schmid version 21-Nov-2006 Wayne Rasband. Adds "Display Point Selection" option and "Count" output type. version 28-May-2007 Michael Schmid. Preview added, bugfix: minima of calibrated images, uses Arrays.sort version 07-Aug-2007 Fixed a bug that could delete particles when doing watershed segmentation of an EDM. version 21-Apr-2007 Adapted for float instead of 16-bit EDM; correct progress bar on multiple calls version 05-May-2009 Works for images>32768 pixels in width or height version 01-Nov-2009 Bugfix: extra lines in segmented output eliminated; watershed is also faster now Maximum points encoded in long array for sorting instead of separete objects that need gc New output type 'List'
Field Summary | |
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static int |
COUNT
Do not create an image, just count maxima and add count to Results table |
static int |
IN_TOLERANCE
Output type all points around the maximum within the tolerance |
static int |
LIST
Do not create an image, just list x, y of maxima in the Results table |
static int |
POINT_SELECTION
Do not create image, only mark points |
static int |
SEGMENTED
Output type watershed-segmented image |
static int |
SINGLE_POINTS
Output type single points |
Fields inherited from interface ij.plugin.filter.ExtendedPlugInFilter |
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KEEP_PREVIEW |
Fields inherited from interface ij.plugin.filter.PlugInFilter |
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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, PARALLELIZE_STACKS, ROI_REQUIRED, SNAPSHOT, STACK_REQUIRED, SUPPORTS_MASKING |
Constructor Summary | |
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MaximumFinder()
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Method Summary | |
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boolean |
dialogItemChanged(GenericDialog gd,
java.awt.AWTEvent e)
Read the parameters (during preview or after showing the dialog) |
ByteProcessor |
findMaxima(ImageProcessor ip,
double tolerance,
double threshold,
int outputType,
boolean excludeOnEdges,
boolean isEDM)
Here the processing is done: Find the maxima of an image (does not find minima). |
void |
run(ImageProcessor ip)
The plugin is inferred from ImageJ by this method |
void |
setNPasses(int nPasses)
Set his to the number of images to process (for the watershed progress bar only). |
int |
setup(java.lang.String arg,
ImagePlus imp)
Method to return types supported |
int |
showDialog(ImagePlus imp,
java.lang.String command,
PlugInFilterRunner pfr)
This method is called after setup(arg, imp) unless the
DONE flag has been set. |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
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public static final int SINGLE_POINTS
public static final int IN_TOLERANCE
public static final int SEGMENTED
public static final int POINT_SELECTION
public static final int LIST
public static final int COUNT
Constructor Detail |
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public MaximumFinder()
Method Detail |
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public int setup(java.lang.String arg, ImagePlus imp)
setup
in interface PlugInFilter
arg
- Not used by this plugin-filterimp
- The image to be filtered
public int showDialog(ImagePlus imp, java.lang.String command, PlugInFilterRunner pfr)
ExtendedPlugInFilter
setup(arg, imp)
unless the
DONE
flag has been set.
showDialog
in interface ExtendedPlugInFilter
imp
- The active image already passed in the
setup(arg, imp)
call. It will be null, however, if
the NO_IMAGE_REQUIRED
flag has been set.command
- The command that has led to the invocation of
the plugin-filter. Useful as a title for the dialog.pfr
- The PlugInFilterRunner calling this plugin-filter.
It can be passed to a GenericDialog by addPreviewCheckbox
to enable preview by calling the run(ip)
method of this
plugin-filter. pfr
can be also used later for calling back
the PlugInFilterRunner, e.g., to obtain the slice number
currently processed by run(ip)
.
PlugInFilter
and
ExtendedPlugInFilter
.public boolean dialogItemChanged(GenericDialog gd, java.awt.AWTEvent e)
dialogItemChanged
in interface DialogListener
gd
- A reference to the GenericDialog.e
- The event that has been generated by the user action in the dialog.
Note that e
is null
if the
dialogItemChanged method is called after the user has pressed the
OK button or if the GenericDialog has read its parameters from a
macro.
public void setNPasses(int nPasses)
setNPasses
in interface ExtendedPlugInFilter
public void run(ImageProcessor ip)
run
in interface PlugInFilter
ip
- The image where maxima (or minima) should be foundpublic ByteProcessor findMaxima(ImageProcessor ip, double tolerance, double threshold, int outputType, boolean excludeOnEdges, boolean isEDM)
ip
- The input imagetolerance
- Height tolerance: maxima are accepted only if protruding more than this value
from the ridge to a higher maximumthreshold
- minimum height of a maximum (uncalibrated); for no minimum height set it to
ImageProcessor.NO_THRESHOLDoutputType
- What to mark in output image: SINGLE_POINTS, IN_TOLERANCE or SEGMENTED.
No output image is created for output types POINT_SELECTION, LIST and COUNT.excludeOnEdges
- Whether to exclude edge maximaisEDM
- Whether the image is a float Euclidian Distance Map
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