java.lang.Object
- java.lang.Thread
- - gov.nih.mipav.model.algorithms.AlgorithmBase
  - - gov.nih.mipav.model.algorithms.AlgorithmMSER

All Implemented Interfaces:

java.awt.event.ActionListener, java.awt.event.WindowListener, java.lang.Runnable, java.util.EventListener
```
public class AlgorithmMSER
extends AlgorithmBase
```
Author:

Andrea Vedaldi

Nested Class Summary

Nested Classes
Modifier and Type	Class	Description
`private class`	`AlgorithmMSER.VlMserExtrReg`	Extremal regions (ER) are extracted from the region forest.
`private class`	`AlgorithmMSER.VlMserFilt`
`private class`	`AlgorithmMSER.VlMserReg`	Extremal regions and maximally stable extremal regions are instances of image regions.
`private class`	`AlgorithmMSER.VlMserStats`

Nested classes/interfaces inherited from class java.lang.Thread
java.lang.Thread.State, java.lang.Thread.UncaughtExceptionHandler

Field Summary

Fields
Modifier and Type	Field	Description
`private boolean`	`bright_on_dark`
`private boolean`	`dark_on_bright`
`private short[]`	`data`
`private double`	`delta`
`private int[]`	`dims`
`private static int`	`ELLIPSES_ONLY`
`private double`	`max_area`
`private double`	`max_variation`
`private double`	`min_area`
`private double`	`min_diversity`
`private int`	`ndims`
`private int`	`outputVOIType`
`private static int`	`POINTS_AND_ELLIPSES`
`private static int`	`POINTS_ONLY`
`private int`	`sliceSize`
`private static int`	`VL_MSER_PIX_MAXVAL`
`private static int`	`VL_MSER_VOID_NODE`

Fields inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase
destFlag, destImage, image25D, mask, maxProgressValue, minProgressValue, multiThreadingEnabled, nthreads, progress, progressModulus, progressStep, runningInSeparateThread, separable, srcImage, threadStopped

Fields inherited from class java.lang.Thread
MAX_PRIORITY, MIN_PRIORITY, NORM_PRIORITY

Constructor Summary

Constructors
Constructor	Description
`AlgorithmMSER(ModelImage srcImage, double delta, double max_area, double min_area, double max_variation, double min_diversity, boolean bright_on_dark, boolean dark_on_bright, int outputVOIType)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`private void`	`adv(int ndims, int[] dims, int[] subs)`	Advance N-dimensional subscript
`private int`	`climb(AlgorithmMSER.VlMserReg[] r, int idx)`	Climb the region forest to reach a root The function climbs the regions' forest r[] starting from the node idx to the corresponding root.
`void`	`runAlgorithm()`	Start algorithm.
`private void`	`vl_mser_delete(AlgorithmMSER.VlMserFilt f)`	Delete MSER filter This function releases the MSER filter and all its resources
`private void`	`vl_mser_ell_fit(AlgorithmMSER.VlMserFilt f)`
`private AlgorithmMSER.VlMserFilt`	`vl_mser_new(int ndims, int[] dims)`
`private void`	`vl_mser_process(AlgorithmMSER.VlMserFilt f, short[] im)`

Methods inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase
actionPerformed, addListener, addProgressChangeListener, calculateImageSize, calculatePrincipleAxis, computeElapsedTime, computeElapsedTime, convertIntoFloat, delinkProgressToAlgorithm, delinkProgressToAlgorithmMulti, displayError, errorCleanUp, finalize, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, generateProgressValues, getDestImage, getElapsedTime, getMask, getMaxProgressValue, getMinProgressValue, getNumberOfThreads, getProgress, getProgressChangeListener, getProgressChangeListeners, getProgressModulus, getProgressStep, getProgressValues, getSrcImage, isCompleted, isImage25D, isMultiThreadingEnabled, isRunningInSeparateThread, isThreadStopped, linkProgressToAlgorithm, linkProgressToAlgorithm, makeProgress, notifyListeners, removeListener, removeProgressChangeListener, run, setCompleted, setImage25D, setMask, setMaxProgressValue, setMinProgressValue, setMultiThreadingEnabled, setNumberOfThreads, setProgress, setProgressModulus, setProgressStep, setProgressValues, setProgressValues, setRunningInSeparateThread, setSrcImage, setStartTime, setThreadStopped, startMethod, windowActivated, windowClosed, windowClosing, windowDeactivated, windowDeiconified, windowIconified, windowOpened

Methods inherited from class java.lang.Thread
activeCount, checkAccess, clone, countStackFrames, currentThread, dumpStack, enumerate, getAllStackTraces, getContextClassLoader, getDefaultUncaughtExceptionHandler, getId, getName, getPriority, getStackTrace, getState, getThreadGroup, getUncaughtExceptionHandler, holdsLock, interrupt, interrupted, isAlive, isDaemon, isInterrupted, join, join, join, onSpinWait, resume, setContextClassLoader, setDaemon, setDefaultUncaughtExceptionHandler, setName, setPriority, setUncaughtExceptionHandler, sleep, sleep, start, stop, suspend, toString, yield

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

Field Detail

VL_MSER_PIX_MAXVAL
```
private static final int VL_MSER_PIX_MAXVAL
```
See Also:

Constant Field Values

VL_MSER_VOID_NODE
```
private static final int VL_MSER_VOID_NODE
```
See Also:

Constant Field Values

POINTS_ONLY
```
private static final int POINTS_ONLY
```
See Also:

Constant Field Values

ELLIPSES_ONLY
```
private static final int ELLIPSES_ONLY
```
See Also:

Constant Field Values

POINTS_AND_ELLIPSES
```
private static final int POINTS_AND_ELLIPSES
```
See Also:

Constant Field Values

delta
```
private double delta
```

max_area
```
private double max_area
```

min_area
```
private double min_area
```

max_variation
```
private double max_variation
```

min_diversity
```
private double min_diversity
```

bright_on_dark
```
private boolean bright_on_dark
```

dark_on_bright
```
private boolean dark_on_bright
```

outputVOIType
```
private int outputVOIType
```

ndims
```
private int ndims
```

dims
```
private int[] dims
```

data
```
private short[] data
```

sliceSize
```
private int sliceSize
```

Constructor Detail

AlgorithmMSER

public AlgorithmMSER(ModelImage srcImage,
                     double delta,
                     double max_area,
                     double min_area,
                     double max_variation,
                     double min_diversity,
                     boolean bright_on_dark,
                     boolean dark_on_bright,
                     int outputVOIType)

Method Detail
- runAlgorithm
```
public void runAlgorithm()
```
  Start algorithm.
  
  Specified by:
  
  runAlgorithm in class AlgorithmBase
- vl_mser_ell_fit
```
private void vl_mser_ell_fit(AlgorithmMSER.VlMserFilt f)
```
- vl_mser_delete
```
private void vl_mser_delete(AlgorithmMSER.VlMserFilt f)
```
  Delete MSER filter This function releases the MSER filter and all its resources
  
  Parameters:
  
  f - MSER filter to be deleted
- adv
```
private void adv(int ndims,
                 int[] dims,
                 int[] subs)
```
  Advance N-dimensional subscript
  
  Parameters:
  
  ndims -
  
  dims -
  
  subs - subscript to advance
- vl_mser_process
```
private void vl_mser_process(AlgorithmMSER.VlMserFilt f,
                             short[] im)
```
- climb
```
private int climb(AlgorithmMSER.VlMserReg[] r,
                  int idx)
```
  Climb the region forest to reach a root The function climbs the regions' forest r[] starting from the node idx to the corresponding root. To speed-up the operation, the function uses the VlMserReg::shortcut field to quickly jump to the root. After the root is reached, all the used shortcuts are updated.
  
  Parameters:
  
  r - regions' forest
  
  idx - starting node
  
  Returns:
  
  index of the reached root.
- vl_mser_new
```
private AlgorithmMSER.VlMserFilt vl_mser_new(int ndims,
                                             int[] dims)
```

Class AlgorithmMSER

Nested Class Summary

Nested classes/interfaces inherited from class java.lang.Thread

Field Summary

Fields inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase

Fields inherited from class java.lang.Thread

Constructor Summary

Method Summary

Methods inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase

Methods inherited from class java.lang.Thread

Methods inherited from class java.lang.Object

Field Detail

VL_MSER_PIX_MAXVAL

VL_MSER_VOID_NODE

POINTS_ONLY

ELLIPSES_ONLY

POINTS_AND_ELLIPSES

delta

max_area

min_area

max_variation

min_diversity

bright_on_dark

dark_on_bright

outputVOIType

ndims

dims

data

sliceSize

Constructor Detail

AlgorithmMSER

Method Detail

runAlgorithm

vl_mser_ell_fit

vl_mser_delete

adv

vl_mser_process

climb

vl_mser_new