JSci.instruments
Class PTCroquetteCross

java.lang.Object
  java.awt.Polygon
      JSci.instruments.PTCroquetteCross

All Implemented Interfaces:

java.awt.Shape, java.io.Serializable, Control

public class PTCroquetteCross
extends java.awt.Polygon
implements Control

Data about a cross that can be put on an image, follow the center, find the height

See Also:

Serialized Form

Field Summary

Fields inherited from class java.awt.Polygon

bounds, npoints, xpoints, ypoints

Constructor Summary

PTCroquetteCross(int l, int hw, java.awt.Point p, java.awt.Color col)
Crates a new cross

Method Summary

(package private) void	addJNIToTemplate(Image f, int x0, int y0, int l, int w, double[] templ, int z)
void	calibrationEnd() call this when the calibration has been done
void	calibrationRequest(int zLevel) Call this when the microscope objective position is right for the calibration.
void	calibrationSendImage(Image f) send the image that has been acquired, so that it is used for calibration
void	calibrationStart(int zNum, double minZ, double maxZ) Start the calibration
void	calibrationWait() wait that the calibration, requested by calibrationRequest(), has been completed.
void	findXY(Image f) Let the cross find the best center of the bead that is pointing
void	findZ(Image f) Find the best position of the bead along the vertical axis
(package private) int	fromImg(byte c)
java.awt.Rectangle	getBounds() get the bounds of the cross.
java.awt.Color	getColor() get the color of the cross.
java.awt.Component	getControlComponent() get a Component that describes the Z position of the cross.
java.awt.geom.Point2D	getLocation() get the position of the bead
double	getZ() get the position of the bead along Z axis
boolean	isDragging() the cross is being dragged by the mouse?
void	setBBox(java.awt.Rectangle r) set the bounding box of the whole image.
void	setDragging(boolean v) call this when the mouse starts dragging the cross
void	setLocation(java.awt.geom.Point2D p) set the position of the cross.

Methods inherited from class java.awt.Polygon

addPoint, contains, contains, contains, contains, contains, contains, getBoundingBox, getBounds2D, getPathIterator, getPathIterator, inside, intersects, intersects, invalidate, reset, translate

Methods inherited from class java.lang.Object

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

Constructor Detail

PTCroquetteCross

public PTCroquetteCross(int l,
                        int hw,
                        java.awt.Point p,
                        java.awt.Color col)

Crates a new cross

Parameters:

l - length of the arm of the cross

hw - half width of the arms of the cross

p - initial center of the cross

Method Detail

fromImg

int fromImg(byte c)

addJNIToTemplate

void addJNIToTemplate(Image f,
                      int x0,
                      int y0,
                      int l,
                      int w,
                      double[] templ,
                      int z)

findXY

public void findXY(Image f)

Let the cross find the best center of the bead that is pointing

findZ

public void findZ(Image f)

Find the best position of the bead along the vertical axis

setDragging

public void setDragging(boolean v)

call this when the mouse starts dragging the cross

Parameters:

v - is dragged - don't move automatically, even if findXY is called

isDragging

public boolean isDragging()

the cross is being dragged by the mouse?

Returns:

the cross is being dragged by the mouse?

setBBox

public void setBBox(java.awt.Rectangle r)

set the bounding box of the whole image. Ensures that the cross doesn't exit from the image.

Parameters:

r - the bounding box

setLocation

public void setLocation(java.awt.geom.Point2D p)

set the position of the cross.

Parameters:

p - the new position

getLocation

public java.awt.geom.Point2D getLocation()

get the position of the bead

Returns:

the position

getZ

public double getZ()

get the position of the bead along Z axis

Returns:

the position

getBounds

public java.awt.Rectangle getBounds()

get the bounds of the cross.

Specified by:

getBounds in interface java.awt.Shape

Overrides:

getBounds in class java.awt.Polygon

Returns:

the bounds of the cross

getColor

public java.awt.Color getColor()

get the color of the cross.

Returns:

the color of the cross

getControlComponent

public java.awt.Component getControlComponent()

get a Component that describes the Z position of the cross. It is also a ChangeListener, that can be added to a Spinner, and listens to the z-movements of the objective

Specified by:

getControlComponent in interface Control

Returns:

the Component

calibrationStart

public void calibrationStart(int zNum,
                             double minZ,
                             double maxZ)

Start the calibration

Parameters:

zNum - number of position of the microscope objective

minZ - minimum position of the microscope objective

maxZ - maximum position of the microscope objective

calibrationSendImage

public void calibrationSendImage(Image f)

send the image that has been acquired, so that it is used for calibration

Parameters:

f - the image from which data must be obtained

calibrationRequest

public void calibrationRequest(int zLevel)

Call this when the microscope objective position is right for the calibration. This method returns immediately; to wait for the processing to be done, call calibrationWait()

Parameters:

zLevel - position in the calibration image. Evaluate zNum = how many levels are in the calibration image? minZ, maxZ = the min and max levels (in micron) z = where is now the objective? So zLevel = (z-minZ)*zNum/(maxZ/minZ)

calibrationWait

public void calibrationWait()

wait that the calibration, requested by calibrationRequest(), has been completed.

calibrationEnd

public void calibrationEnd()

call this when the calibration has been done