java.lang.Object
- com.bayesserver.inference.TreeQueryOptions

All Implemented Interfaces:

QueryOptions
```
public final class TreeQueryOptions
extends Object
implements QueryOptions
```
Options which affect the calculation performed by a TreeQuery.

Constructor Summary

Constructors
Constructor	Description
`TreeQueryOptions()`	Initializes a new instance of the `TreeQueryOptions` class.
`TreeQueryOptions(QueryOptions queryOptions)`	Initializes a new instance of the `TreeQueryOptions` class, copying options from another instance implementing `QueryOptions`.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`Cancellation`	`getCancellation()`	Allows cancellation of a query.
`CausalEffectKind`	`getCausalEffectKind()`	Gets the kind of effect to calculate.
`InferenceFactory`	`getCausalInferenceFactory()`	Factory that can create inference engines, used by estimation (adjustment) algorithms to perform queries on the Bayesian network.
`boolean`	`getConflict()`	Gets a value indicating whether the conflict measure should be calculated in a call to `Inference.query(com.bayesserver.inference.QueryOptions, com.bayesserver.inference.QueryOutput)`.
`DecisionAlgorithm`	`getDecisionAlgorithm()`	Gets the algorithm to use when a network contains Decision nodes.
`InconsistentEvidenceMode`	`getInconsistentEvidenceMode()`	Determines when an `InconsistentEvidenceException` is raised.
`boolean`	`getIsImpliedEvidenceEnabled()`	Gets a value indicating whether to detect implied evidence during the calculation.
`boolean`	`getJunctionTree()`	Gets a value indicating whether or not to generate a junction tree definition.
`boolean`	`getLogLikelihood()`	Gets a value indicating whether the log-likelihood of a case should be calculated in a call to `Inference.query(com.bayesserver.inference.QueryOptions, com.bayesserver.inference.QueryOutput)`.
`PropagationMethod`	`getPropagation()`	Gets the propagation method to be used during inference.
`QueryEvidenceMode`	`getQueryEvidenceMode()`	Determines whether evidence is retracted for each query.
`Integer`	`getTerminalTime()`	Gets the terminal time, which is the time at which any terminal nodes in a Dynamic Bayesian Network connect to temporal nodes.
`boolean`	`getTreeWidth()`	Gets a value indicating whether or not to calculate the tree width.
`void`	`setCancellation(Cancellation value)`	Allows cancellation of a query.
`void`	`setCausalEffectKind(CausalEffectKind value)`	Sets the kind of effect to calculate.
`void`	`setCausalInferenceFactory(InferenceFactory value)`	Factory that can create inference engines, used by estimation (adjustment) algorithms to perform queries on the Bayesian network.
`void`	`setConflict(boolean value)`	Sets a value indicating whether the conflict measure should be calculated in a call to `Inference.query(com.bayesserver.inference.QueryOptions, com.bayesserver.inference.QueryOutput)`.
`void`	`setDecisionAlgorithm(DecisionAlgorithm value)`	Sets the algorithm to use when a network contains Decision nodes.
`void`	`setInconsistentEvidenceMode(InconsistentEvidenceMode value)`	Determines when an `InconsistentEvidenceException` is raised.
`void`	`setIsImpliedEvidenceEnabled(boolean value)`	Sets a value indicating whether to detect implied evidence during the calculation.
`void`	`setJunctionTree(boolean value)`	Sets a value indicating whether or not to generate a junction tree definition.
`void`	`setLogLikelihood(boolean value)`	Sets a value indicating whether the log-likelihood of a case should be calculated in a call to `Inference.query(com.bayesserver.inference.QueryOptions, com.bayesserver.inference.QueryOutput)`.
`void`	`setPropagation(PropagationMethod value)`	Sets the propagation method to be used during inference.
`void`	`setQueryEvidenceMode(QueryEvidenceMode value)`	Determines whether evidence is retracted for each query.
`void`	`setTerminalTime(Integer value)`	Sets the terminal time, which is the time at which any terminal nodes in a Dynamic Bayesian Network connect to temporal nodes.
`void`	`setTreeWidth(boolean value)`	Sets a value indicating whether or not to calculate the tree width.

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

- Constructor Detail
  - TreeQueryOptions
```
public TreeQueryOptions()
```
    Initializes a new instance of the TreeQueryOptions class.
  - TreeQueryOptions
```
public TreeQueryOptions(QueryOptions queryOptions)
```
    Initializes a new instance of the TreeQueryOptions class, copying options from another instance implementing QueryOptions.
    
    Parameters:
    
    queryOptions - The query options to copy.
    
    Throws:
    
    System.ArgumentNullException - queryOptions
- Method Detail
  - getTreeWidth
```
public boolean getTreeWidth()
```
    Gets a value indicating whether or not to calculate the tree width.
  - setTreeWidth
```
public void setTreeWidth(boolean value)
```
    Sets a value indicating whether or not to calculate the tree width.
  - getJunctionTree
```
public boolean getJunctionTree()
```
    Gets a value indicating whether or not to generate a junction tree definition.
  - setJunctionTree
```
public void setJunctionTree(boolean value)
```
    Sets a value indicating whether or not to generate a junction tree definition.
  - getCausalEffectKind
```
public CausalEffectKind getCausalEffectKind()
```
    Gets the kind of effect to calculate. e.g. Total/Direct. Not all algorithms support direct effect calculations.
    
    Specified by:
    
    getCausalEffectKind in interface QueryOptions
  - setCausalEffectKind
```
public void setCausalEffectKind(CausalEffectKind value)
```
    Sets the kind of effect to calculate. e.g. Total/Direct. Not all algorithms support direct effect calculations.
    
    Specified by:
    
    setCausalEffectKind in interface QueryOptions
  - getCausalInferenceFactory
```
public InferenceFactory getCausalInferenceFactory()
```
    Factory that can create inference engines, used by estimation (adjustment) algorithms to perform queries on the Bayesian network.
    
    Specified by:
    
    getCausalInferenceFactory in interface QueryOptions
  - setCausalInferenceFactory
```
public void setCausalInferenceFactory(InferenceFactory value)
```
    Factory that can create inference engines, used by estimation (adjustment) algorithms to perform queries on the Bayesian network.
    
    Specified by:
    
    setCausalInferenceFactory in interface QueryOptions
  - getIsImpliedEvidenceEnabled
```
public boolean getIsImpliedEvidenceEnabled()
```
    Gets a value indicating whether to detect implied evidence during the calculation. An example of implied evidence is: Male => Not Pregnant.
  - setIsImpliedEvidenceEnabled
```
public void setIsImpliedEvidenceEnabled(boolean value)
```
    Sets a value indicating whether to detect implied evidence during the calculation. An example of implied evidence is: Male => Not Pregnant.
  - getTerminalTime
```
public Integer getTerminalTime()
```
    Gets the terminal time, which is the time at which any terminal nodes in a Dynamic Bayesian Network connect to temporal nodes.
    
    Specified by:
    
    getTerminalTime in interface QueryOptions
  - setTerminalTime
```
public void setTerminalTime(Integer value)
```
    Sets the terminal time, which is the time at which any terminal nodes in a Dynamic Bayesian Network connect to temporal nodes.
    
    Specified by:
    
    setTerminalTime in interface QueryOptions
  - getPropagation
```
public PropagationMethod getPropagation()
```
    Gets the propagation method to be used during inference. Default is PropagationMethod.SUM.
    
    Specified by:
    
    getPropagation in interface QueryOptions
  - setPropagation
```
public void setPropagation(PropagationMethod value)
```
    Sets the propagation method to be used during inference. Default is PropagationMethod.SUM.
    
    Specified by:
    
    setPropagation in interface QueryOptions
  - getDecisionAlgorithm
```
public DecisionAlgorithm getDecisionAlgorithm()
```
    Gets the algorithm to use when a network contains Decision nodes.
    
    Specified by:
    
    getDecisionAlgorithm in interface QueryOptions
  - setDecisionAlgorithm
```
public void setDecisionAlgorithm(DecisionAlgorithm value)
```
    Sets the algorithm to use when a network contains Decision nodes.
    
    Specified by:
    
    setDecisionAlgorithm in interface QueryOptions
  - getCancellation
```
public Cancellation getCancellation()
```
    Allows cancellation of a query. When cancelled, a CancellationException will be raised.
    If Cancellation.getCancel() has been set to true, it should be reset to false, before a subsequent query.
    
    Specified by:
    
    getCancellation in interface QueryOptions
  - setCancellation
```
public void setCancellation(Cancellation value)
```
    Allows cancellation of a query. When cancelled, a CancellationException will be raised.
    If Cancellation.getCancel() has been set to true, it should be reset to false, before a subsequent query.
    
    Specified by:
    
    setCancellation in interface QueryOptions
  - getLogLikelihood
```
public boolean getLogLikelihood()
```
    Gets a value indicating whether the log-likelihood of a case should be calculated in a call to Inference.query(com.bayesserver.inference.QueryOptions, com.bayesserver.inference.QueryOutput). If calculated the result can be obtained from QueryOutput.getLogLikelihood().
    This should only be requested if required.
    
    The natural log (base e) is calculated.
    
    Specified by:
    
    getLogLikelihood in interface QueryOptions
    
    Returns:
    
    true if the log-likelihood should be calculated; otherwise, false. Defaults to false.
  - setLogLikelihood
```
public void setLogLikelihood(boolean value)
```
    Sets a value indicating whether the log-likelihood of a case should be calculated in a call to Inference.query(com.bayesserver.inference.QueryOptions, com.bayesserver.inference.QueryOutput). If calculated the result can be obtained from QueryOutput.getLogLikelihood().
    This should only be requested if required.
    
    The natural log (base e) is calculated.
    
    Specified by:
    
    setLogLikelihood in interface QueryOptions
    
    Parameters:
    
    value - true if the log-likelihood should be calculated; otherwise, false. Defaults to false.
  - getConflict
```
public boolean getConflict()
```
    Gets a value indicating whether the conflict measure should be calculated in a call to Inference.query(com.bayesserver.inference.QueryOptions, com.bayesserver.inference.QueryOutput). If calculated the result can be obtained from QueryOutput.getConflict().
    Conflict is a measure that detects evidence that is conflicting or rare. The greater the conflict value above zero, the more likely the evidence is in conflict, or rare.
    
    Conflict = log((P(e1)P(e2)...P(ei)) / P(e)), where P(e1), P(e2) etc... are the likelihoods of each variable considered in isolation, and P(e) is the likelihood of the all the evidence together.
    
    Specified by:
    
    getConflict in interface QueryOptions
  - setConflict
```
public void setConflict(boolean value)
```
    Sets a value indicating whether the conflict measure should be calculated in a call to Inference.query(com.bayesserver.inference.QueryOptions, com.bayesserver.inference.QueryOutput). If calculated the result can be obtained from QueryOutput.getConflict().
    Conflict is a measure that detects evidence that is conflicting or rare. The greater the conflict value above zero, the more likely the evidence is in conflict, or rare.
    
    Conflict = log((P(e1)P(e2)...P(ei)) / P(e)), where P(e1), P(e2) etc... are the likelihoods of each variable considered in isolation, and P(e) is the likelihood of the all the evidence together.
    
    Specified by:
    
    setConflict in interface QueryOptions
  - getQueryEvidenceMode
```
public QueryEvidenceMode getQueryEvidenceMode()
```
    Determines whether evidence is retracted for each query. See QueryEvidenceMode for more information.
    
    Specified by:
    
    getQueryEvidenceMode in interface QueryOptions
  - setQueryEvidenceMode
```
public void setQueryEvidenceMode(QueryEvidenceMode value)
```
    Determines whether evidence is retracted for each query. See QueryEvidenceMode for more information.
    
    Specified by:
    
    setQueryEvidenceMode in interface QueryOptions
  - getInconsistentEvidenceMode
```
public InconsistentEvidenceMode getInconsistentEvidenceMode()
```
    Determines when an InconsistentEvidenceException is raised.
    
    Specified by:
    
    getInconsistentEvidenceMode in interface QueryOptions
  - setInconsistentEvidenceMode
```
public void setInconsistentEvidenceMode(InconsistentEvidenceMode value)
```
    Determines when an InconsistentEvidenceException is raised.
    
    Specified by:
    
    setInconsistentEvidenceMode in interface QueryOptions

Class TreeQueryOptions

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Constructor Detail

TreeQueryOptions

TreeQueryOptions

Method Detail

getTreeWidth

setTreeWidth

getJunctionTree

setJunctionTree

getCausalEffectKind

setCausalEffectKind

getCausalInferenceFactory

setCausalInferenceFactory

getIsImpliedEvidenceEnabled

setIsImpliedEvidenceEnabled

getTerminalTime

setTerminalTime

getPropagation

setPropagation

getDecisionAlgorithm

setDecisionAlgorithm

getCancellation

setCancellation

getLogLikelihood

setLogLikelihood

getConflict

setConflict

getQueryEvidenceMode

setQueryEvidenceMode

getInconsistentEvidenceMode

setInconsistentEvidenceMode