SparseLAPFrameToFrameTracker (Fiji Javadocs 0-SNAPSHOT API)

java.lang.Object
- net.imglib2.algorithm.MultiThreadedAlgorithm
- - net.imglib2.algorithm.MultiThreadedBenchmarkAlgorithm
  - - fiji.plugin.trackmate.tracking.sparselap.SparseLAPFrameToFrameTracker

All Implemented Interfaces:

SpotTracker, Algorithm, Benchmark, MultiThreaded, OutputAlgorithm<org.jgrapht.graph.SimpleWeightedGraph<Spot,org.jgrapht.graph.DefaultWeightedEdge>>, Cancelable
```
public class SparseLAPFrameToFrameTracker
extends MultiThreadedBenchmarkAlgorithm
implements SpotTracker, Cancelable
```

Field Summary

Fields
Modifier and Type	Field and Description
`protected org.jgrapht.graph.SimpleWeightedGraph<Spot,org.jgrapht.graph.DefaultWeightedEdge>`	`graph`
`protected Logger`	`logger`
`protected Map<String,Object>`	`settings`
`protected SpotCollection`	`spots`

Fields inherited from class net.imglib2.algorithm.MultiThreadedBenchmarkAlgorithm
processingTime

Fields inherited from class net.imglib2.algorithm.MultiThreadedAlgorithm
errorMessage, numThreads

Constructor Summary

Constructors
Constructor and Description

SparseLAPFrameToFrameTracker(SpotCollection spots, Map<String,Object> settings)

Constructors
Constructor and Description
`SparseLAPFrameToFrameTracker(SpotCollection spots, Map<String,Object> settings)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`void`	`cancel(String reason)`
`boolean`	`checkInput()`
`protected boolean`	`checkSettingsValidity(Map<String,Object> settings, StringBuilder str)`
`String`	`getCancelReason()`
`protected CostFunction<Spot,Spot>`	`getCostFunction(Map<String,Double> featurePenalties)` Creates a suitable cost function.
`org.jgrapht.graph.SimpleWeightedGraph<Spot,org.jgrapht.graph.DefaultWeightedEdge>`	`getResult()`
`boolean`	`isCanceled()`
`boolean`	`process()`
`void`	`setLogger(Logger logger)` Sets the `Logger` instance that will receive messages from this `SpotTracker`.

Methods inherited from class net.imglib2.algorithm.MultiThreadedBenchmarkAlgorithm
getProcessingTime

Methods inherited from class net.imglib2.algorithm.MultiThreadedAlgorithm
getErrorMessage, getNumThreads, setNumThreads, setNumThreads

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

Methods inherited from interface net.imglib2.algorithm.Algorithm
getErrorMessage

Methods inherited from interface net.imglib2.algorithm.MultiThreaded
getNumThreads, setNumThreads, setNumThreads

Field Detail

graph

protected org.jgrapht.graph.SimpleWeightedGraph<Spot,org.jgrapht.graph.DefaultWeightedEdge> graph

logger
```
protected Logger logger
```

spots
```
protected final SpotCollection spots
```

settings

protected final Map<String,Object> settings

Constructor Detail

SparseLAPFrameToFrameTracker

public SparseLAPFrameToFrameTracker(SpotCollection spots,
                                    Map<String,Object> settings)

Method Detail
- getResult
```
public org.jgrapht.graph.SimpleWeightedGraph<Spot,org.jgrapht.graph.DefaultWeightedEdge> getResult()
```
  Specified by:
  
  getResult in interface OutputAlgorithm<org.jgrapht.graph.SimpleWeightedGraph<Spot,org.jgrapht.graph.DefaultWeightedEdge>>
- checkInput
```
public boolean checkInput()
```
  Specified by:
  
  checkInput in interface Algorithm
- process
```
public boolean process()
```
  Specified by:
  
  process in interface Algorithm
- getCostFunction
```
protected CostFunction<Spot,Spot> getCostFunction(Map<String,Double> featurePenalties)
```
  Creates a suitable cost function.
  
  Parameters:
  
  featurePenalties - feature penalties to base costs on. Can be null.
  
  Returns:
  
  a new CostFunction
- setLogger
```
public void setLogger(Logger logger)
```
  Description copied from interface: SpotTracker
  
  Sets the Logger instance that will receive messages from this SpotTracker.
  
  Specified by:
  
  setLogger in interface SpotTracker
  
  Parameters:
  
  logger - the logger to echo messages to.
- checkSettingsValidity
```
protected boolean checkSettingsValidity(Map<String,Object> settings,
                                        StringBuilder str)
```
- isCanceled
```
public boolean isCanceled()
```
  Specified by:
  
  isCanceled in interface Cancelable
- cancel
```
public void cancel(String reason)
```
  Specified by:
  
  cancel in interface Cancelable
- getCancelReason
```
public String getCancelReason()
```
  Specified by:
  
  getCancelReason in interface Cancelable

Class SparseLAPFrameToFrameTracker

Field Summary

Fields inherited from class net.imglib2.algorithm.MultiThreadedBenchmarkAlgorithm

Fields inherited from class net.imglib2.algorithm.MultiThreadedAlgorithm

Constructor Summary

Method Summary

Methods inherited from class net.imglib2.algorithm.MultiThreadedBenchmarkAlgorithm

Methods inherited from class net.imglib2.algorithm.MultiThreadedAlgorithm

Methods inherited from class java.lang.Object

Methods inherited from interface net.imglib2.algorithm.Algorithm

Methods inherited from interface net.imglib2.algorithm.MultiThreaded

Field Detail

graph

logger

spots

settings

Constructor Detail

SparseLAPFrameToFrameTracker

Method Detail

getResult

checkInput

process

getCostFunction

setLogger

checkSettingsValidity

isCanceled

cancel

getCancelReason