LOI_Interpolator_Tool (Fiji Javadocs 0-SNAPSHOT API)

java.lang.Object
- fiji.tool.AbstractTool
- - fiji.tool.AbstractTrackingTool
  - - sc.fiji.timelapse.LOI_Interpolator_Tool

All Implemented Interfaces:

SliceListener, ToolToggleListener, ToolWithOptions, ij.ImageListener, ij.plugin.PlugIn, KeyListener, MouseListener, MouseMotionListener, MouseWheelListener, WindowFocusListener, EventListener
```
public class LOI_Interpolator_Tool
extends AbstractTrackingTool
implements KeyListener, ToolToggleListener, ToolWithOptions, MouseWheelListener
```
This is an interactive LOI Interpolator

Nested Class Summary
- Nested classes/interfaces inherited from class fiji.tool.AbstractTool
  AbstractTool.KeyProxy, AbstractTool.KeyProxyIfNotConsumed, AbstractTool.MouseMotionProxy, AbstractTool.MouseMotionProxyIfNotConsumed, AbstractTool.MouseProxy, AbstractTool.MouseWheelProxy, AbstractTool.MouseWheelProxyIfNotConsumed, AbstractTool.ToolbarMouseAdapter

Field Summary

Fields
Modifier and Type Field and Description

protected boolean constructing

protected boolean moving

protected PolygonRoiPublic roi

protected int x

protected int y
- Fields inherited from class fiji.tool.AbstractTrackingTool
  activeHandle, handCursor, latestCurrentSlice, map, originalCursor
- Fields inherited from class fiji.tool.AbstractTool
  clearToolsIfNecessary, ijKeyProxy, keyProxy, mouseMotionProxy, mouseProxy, mouseWheelProxy, savedToolName, sliceListener, sliceObservers, toolActive, toolbar, toolbarMouseListener, toolID, toolToggleListener

Fields
Modifier and Type	Field and Description
`protected boolean`	`constructing`
`protected boolean`	`moving`
`protected PolygonRoiPublic`	`roi`
`protected int`	`x`
`protected int`	`y`

Constructor Summary

Constructors
Constructor and Description

LOI_Interpolator_Tool()

Constructors
Constructor and Description
`LOI_Interpolator_Tool()`

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`protected ij.ImagePlus`	`doRegistration(ij.ImagePlus image, boolean showSpreadsheet)`
`protected void`	`exportToROIManager(ij.ImagePlus image)`
`protected static Polygon`	`getPolygon(Roi[] rois, int sliceIndex)`
`protected ij.ImagePlus`	`getStraightenedStack(ij.ImagePlus image)`
`protected static ij.ImagePlus`	`getStraightenedStack(ij.ImagePlus image, int lineWidth, Roi[] rois)`
`String`	`getToolIcon()` Return the string encoding of the tool icon as it will appear in the toolbar.
`protected void`	`importFromROIManager()`
`protected void`	`interpolateFrom(Roi[] rois, int currentSlice)`
`protected static void`	`interpolateROIs(Roi[] rois)`
`protected static void`	`interpolateROIs(Roi[] rois, int from, int to)`
`void`	`keyPressed(KeyEvent e)`
`void`	`keyReleased(KeyEvent e)`
`void`	`keyTyped(KeyEvent e)`
`protected void`	`loadROIs(ij.ImagePlus image, String path)`
`void`	`mouseClicked(MouseEvent e)`
`void`	`mouseDragged(MouseEvent e)`
`void`	`mouseEntered(MouseEvent e)`
`void`	`mouseExited(MouseEvent e)`
`void`	`mouseMoved(MouseEvent e)`
`void`	`mousePressed(MouseEvent e)`
`void`	`mouseReleased(MouseEvent e)`
`void`	`mouseWheelMoved(MouseWheelEvent e)`
`protected static void`	`normalizePointCounts(Polygon poly1, Polygon poly2)`
`Roi`	`optimizeRoi(Roi roi, ij.process.ImageProcessor ip)`
`protected static void`	`resamplePolygon(Polygon polygon, int npoints)`
`protected void`	`saveROIs(Roi[] rois, String path)`
`protected static ij.ImagePlus`	`showKymograph(ij.ImagePlus image, PolygonRoi[] rois, int lineWidth, boolean showSpreadsheet, boolean useFullLineWidth)`
`void`	`showOptionDialog()` When called, this method displays the configuration panel for the concrete implementation of this tool.
`void`	`showPeaks(ij.ImagePlus image)`
`void`	`showPeaks(ij.ImagePlus image, PolygonRoi[] rois)`
`void`	`showPeaks(ij.ImagePlus image, Roi[] rois)`
`protected void`	`showStraightenedStack(ij.ImagePlus image)`
`void`	`sliceChanged(ij.ImagePlus image)`
`protected static boolean`	`specifiedByUser(Roi roi)`
`void`	`toolToggled(boolean enabled)`
`protected PolygonRoi[]`	`toPolygonRois(Roi[] rois)`
`protected boolean`	`updateROI(ij.ImagePlus image)`

Methods inherited from class fiji.tool.AbstractTrackingTool
addIOButtons, clearROIs, exportToROIManager, getHandle, getROILabel, getRois, loadROIs, loadROIs, saveROIs, saveROIs, setRoi

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

x
```
protected int x
```

y
```
protected int y
```

moving
```
protected boolean moving
```

constructing
```
protected boolean constructing
```

roi
```
protected PolygonRoiPublic roi
```

Constructor Detail
- LOI_Interpolator_Tool
```
public LOI_Interpolator_Tool()
```

Method Detail

getToolIcon
```
public String getToolIcon()
```
Description copied from class: AbstractTool

Return the string encoding of the tool icon as it will appear in the toolbar. See syntax for icon string.

Overrides:

getToolIcon in class AbstractTrackingTool

optimizeRoi

public Roi optimizeRoi(Roi roi,
                       ij.process.ImageProcessor ip)

Specified by:: optimizeRoi in class AbstractTrackingTool

mouseClicked
```
public void mouseClicked(MouseEvent e)
```
Specified by:

mouseClicked in interface MouseListener

Overrides:

mouseClicked in class AbstractTrackingTool

mousePressed
```
public void mousePressed(MouseEvent e)
```
Specified by:

mousePressed in interface MouseListener

Overrides:

mousePressed in class AbstractTrackingTool

mouseReleased
```
public void mouseReleased(MouseEvent e)
```
Specified by:

mouseReleased in interface MouseListener

Overrides:

mouseReleased in class AbstractTrackingTool

mouseEntered
```
public void mouseEntered(MouseEvent e)
```
Specified by:

mouseEntered in interface MouseListener

Overrides:

mouseEntered in class AbstractTrackingTool

mouseExited
```
public void mouseExited(MouseEvent e)
```
Specified by:

mouseExited in interface MouseListener

Overrides:

mouseExited in class AbstractTrackingTool

mouseMoved
```
public void mouseMoved(MouseEvent e)
```
Specified by:

mouseMoved in interface MouseMotionListener

Overrides:

mouseMoved in class AbstractTrackingTool

mouseDragged
```
public void mouseDragged(MouseEvent e)
```
Specified by:

mouseDragged in interface MouseMotionListener

Overrides:

mouseDragged in class AbstractTrackingTool

mouseWheelMoved
```
public void mouseWheelMoved(MouseWheelEvent e)
```
Specified by:

mouseWheelMoved in interface MouseWheelListener

keyPressed
```
public void keyPressed(KeyEvent e)
```
Specified by:

keyPressed in interface KeyListener

keyTyped
```
public void keyTyped(KeyEvent e)
```
Specified by:

keyTyped in interface KeyListener

keyReleased
```
public void keyReleased(KeyEvent e)
```
Specified by:

keyReleased in interface KeyListener

sliceChanged
```
public void sliceChanged(ij.ImagePlus image)
```
Specified by:

sliceChanged in interface SliceListener

Overrides:

sliceChanged in class AbstractTrackingTool

showOptionDialog
```
public void showOptionDialog()
```
Description copied from interface: ToolWithOptions

When called, this method displays the configuration panel for the concrete implementation of this tool. It is normally called when the user double-click the toolbar icon of this tool.

Specified by:

showOptionDialog in interface ToolWithOptions

toolToggled
```
public void toolToggled(boolean enabled)
```
Specified by:

toolToggled in interface ToolToggleListener

updateROI

protected boolean updateROI(ij.ImagePlus image)

specifiedByUser

protected static boolean specifiedByUser(Roi roi)

interpolateFrom

protected void interpolateFrom(Roi[] rois,
                               int currentSlice)

interpolateROIs

protected static void interpolateROIs(Roi[] rois)

interpolateROIs

protected static void interpolateROIs(Roi[] rois,
                                      int from,
                                      int to)

normalizePointCounts

protected static void normalizePointCounts(Polygon poly1,
                                           Polygon poly2)

resamplePolygon

protected static void resamplePolygon(Polygon polygon,
                                      int npoints)

getPolygon

protected static Polygon getPolygon(Roi[] rois,
                                    int sliceIndex)

doRegistration

protected ij.ImagePlus doRegistration(ij.ImagePlus image,
                                      boolean showSpreadsheet)

showKymograph

protected static ij.ImagePlus showKymograph(ij.ImagePlus image,
                                            PolygonRoi[] rois,
                                            int lineWidth,
                                            boolean showSpreadsheet,
                                            boolean useFullLineWidth)

exportToROIManager
```
protected void exportToROIManager(ij.ImagePlus image)
```
Overrides:

exportToROIManager in class AbstractTrackingTool

importFromROIManager
```
protected void importFromROIManager()
```
Overrides:

importFromROIManager in class AbstractTrackingTool

saveROIs

protected void saveROIs(Roi[] rois,
                        String path)

Overrides:: saveROIs in class AbstractTrackingTool

loadROIs

protected void loadROIs(ij.ImagePlus image,
                        String path)

Overrides:: loadROIs in class AbstractTrackingTool

showStraightenedStack

protected void showStraightenedStack(ij.ImagePlus image)

getStraightenedStack

protected ij.ImagePlus getStraightenedStack(ij.ImagePlus image)

getStraightenedStack

protected static ij.ImagePlus getStraightenedStack(ij.ImagePlus image,
                                                   int lineWidth,
                                                   Roi[] rois)

showPeaks

public void showPeaks(ij.ImagePlus image)

showPeaks

public void showPeaks(ij.ImagePlus image,
                      Roi[] rois)

showPeaks

public void showPeaks(ij.ImagePlus image,
                      PolygonRoi[] rois)

toPolygonRois

protected PolygonRoi[] toPolygonRois(Roi[] rois)

Class LOI_Interpolator_Tool

Nested Class Summary

Nested classes/interfaces inherited from class fiji.tool.AbstractTool

Field Summary

Fields inherited from class fiji.tool.AbstractTrackingTool

Fields inherited from class fiji.tool.AbstractTool

Constructor Summary

Method Summary

Methods inherited from class fiji.tool.AbstractTrackingTool

Methods inherited from class fiji.tool.AbstractTool

Methods inherited from class java.lang.Object

Field Detail

x

y

moving

constructing

roi

Constructor Detail

LOI_Interpolator_Tool

Method Detail

getToolIcon

optimizeRoi

mouseClicked

mousePressed

mouseReleased

mouseEntered

mouseExited

mouseMoved

mouseDragged

mouseWheelMoved

keyPressed

keyTyped

keyReleased

sliceChanged

showOptionDialog

toolToggled

updateROI

specifiedByUser

interpolateFrom

interpolateROIs

interpolateROIs

normalizePointCounts

resamplePolygon

getPolygon

doRegistration

showKymograph

exportToROIManager

importFromROIManager

saveROIs

loadROIs

showStraightenedStack

getStraightenedStack

getStraightenedStack

showPeaks

showPeaks

showPeaks

toPolygonRois