snakeprogram
Class SnakeImages

java.lang.Object
  snakeprogram.SnakeImages

public class SnakeImages
extends java.lang.Object

A class for controlling the image data. Copyright (c) 2010, Lehigh University All rights reserved. see COPYING for license.

Field Summary

int

LINEWIDTH

Method Summary

void	addStaticMarker(double[] pt)
void	clearStaticMarkers()
void	drawRawSnake(ij.process.ImageProcessor improc) This method is called by updateImagePanel() and draws the points in SnakeRawX and SnakeRawY to the screen connected by a line.
void	drawSnake(Snake s, ij.process.ImageProcessor improc)
static void	drawSnake(Snake s, ij.process.ImageProcessor ip, int frame) This is a static version of drawSnake for use with an external program.
void	drawSnakes(ij.process.ImageProcessor imp) Draws all of the snakes in SnakeStore
double	fromZoomX(double newX) this method takes an X coordinates and sets it to its position in the original, un-zoomed, image
double	fromZoomY(double newY) this method takes an Y coordinates and sets it to its position in the original, un-zoomed, image
void	getAndLoadImage() Gets a file name via the swing file chooser dialog
double[]	getAutoIntensities()
double	getAveragedValue(double x, double y, int ss)
int	getCounter()
ij.process.ImageProcessor	getProcessor()
int	getStackSize()
java.lang.String	getTitle()
boolean	hasImage()
void	loadImage(ij.ImagePlus implus)
void	nextImage()
void	previousImage()
void	resetZoom() Sets the zoom box to be the whole image
void	setCurrentSnake(Snake cs)
void	setDrawSnake(boolean v)
void	setFollow(boolean v)
void	setInitializing(boolean v)
void	setMarker(double[] pt)
void	setRawData(java.util.ArrayList<double[]> xv)
void	setSnakes(MultipleSnakesStore mss)
void	setStretchFix(boolean v)
void	setZoomIn(boolean v)
void	setZoomInBox(boolean v)
void	setZoomLocation(int x, int y)
double[]	toZoom(double[] old) transform a 2d array
double	toZoomX(double oldX) this method takes an X coordinate on the original image and finds its new position on a zoomed image
double	toZoomY(double oldY) takes an Y coordinate on the original image and finds its new position on a zoomed image
void	trackingZoomBox(int x, int y)
void	updateImagePanel()
void	updateMousePosition(double x, double y) This is used for following the mouse it requres the image coordinates

Methods inherited from class java.lang.Object

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

Field Detail

LINEWIDTH

public final int LINEWIDTH

See Also:

Constant Field Values

Method Detail

hasImage

public boolean hasImage()

updateImagePanel

public void updateImagePanel()

setMarker

public void setMarker(double[] pt)

trackingZoomBox

public void trackingZoomBox(int x,
                            int y)

setZoomInBox

public void setZoomInBox(boolean v)

setZoomIn

public void setZoomIn(boolean v)

setRawData

public void setRawData(java.util.ArrayList<double[]> xv)

addStaticMarker

public void addStaticMarker(double[] pt)

clearStaticMarkers

public void clearStaticMarkers()

setDrawSnake

public void setDrawSnake(boolean v)

setFollow

public void setFollow(boolean v)

setStretchFix

public void setStretchFix(boolean v)

updateMousePosition

public void updateMousePosition(double x,
                                double y)

This is used for following the mouse it requres the image coordinates

drawRawSnake

public void drawRawSnake(ij.process.ImageProcessor improc)

This method is called by updateImagePanel() and draws the points in SnakeRawX and SnakeRawY to the screen connected by a line. Before doing this, it transforms the coordinates in these vectors based on the current zoom status. The new coordinates are then stored in the vectors, SnakeDrawX and SnakeDrawY. If the program is drawing a closed contour, the program will connect the first and last points of the snake.

drawSnake

public void drawSnake(Snake s,
                      ij.process.ImageProcessor improc)

drawSnakes

public void drawSnakes(ij.process.ImageProcessor imp)

Draws all of the snakes in SnakeStore

resetZoom

public void resetZoom()

Sets the zoom box to be the whole image

setZoomLocation

public void setZoomLocation(int x,
                            int y)

fromZoomX

public double fromZoomX(double newX)

this method takes an X coordinates and sets it to its position in the original, un-zoomed, image

fromZoomY

public double fromZoomY(double newY)

this method takes an Y coordinates and sets it to its position in the original, un-zoomed, image

toZoomX

public double toZoomX(double oldX)

this method takes an X coordinate on the original image and finds its new position on a zoomed image

toZoomY

public double toZoomY(double oldY)

takes an Y coordinate on the original image and finds its new position on a zoomed image

toZoom

public double[] toZoom(double[] old)

transform a 2d array

getAndLoadImage

public void getAndLoadImage()

Gets a file name via the swing file chooser dialog

getStackSize

public int getStackSize()

getCounter

public int getCounter()

nextImage

public void nextImage()

previousImage

public void previousImage()

getAveragedValue

public double getAveragedValue(double x,
                               double y,
                               int ss)

getProcessor

public ij.process.ImageProcessor getProcessor()

loadImage

public void loadImage(ij.ImagePlus implus)

setInitializing

public void setInitializing(boolean v)

setCurrentSnake

public void setCurrentSnake(Snake cs)

setSnakes

public void setSnakes(MultipleSnakesStore mss)

getAutoIntensities

public double[] getAutoIntensities()
                            throws java.lang.NullPointerException

Throws:

java.lang.NullPointerException

drawSnake

public static void drawSnake(Snake s,
                             ij.process.ImageProcessor ip,
                             int frame)

This is a static version of drawSnake for use with an external program. It doesn't set the color or anything, it just draws the snake.

getTitle

public java.lang.String getTitle()