java.lang.Object
- org.biojava.nbio.structure.align.multiple.AbstractScoresCache

All Implemented Interfaces:

ScoresCache

Direct Known Subclasses:

BlockImpl, BlockSetImpl, MultipleAlignmentEnsembleImpl, MultipleAlignmentImpl
```
public abstract class AbstractScoresCache
extends java.lang.Object
implements ScoresCache
```
Abstact implementation of the ScoresCache with the shared code used in all objects with a variables cache.

Since:

4.1.0

Author:

Spencer Bliven

Constructor Summary

Constructors
Modifier Constructor Description

protected AbstractScoresCache()

protected AbstractScoresCache(AbstractScoresCache cache)

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`clear()`	Clear the cached scores.
`protected java.lang.Object`	`clone(java.lang.Object e)`	Subclasses should override clone and use the copy constructor.
`java.lang.Double`	`getScore(java.lang.String property)`	Get the value for a particular score.
`java.util.Set<java.lang.String>`	`getScores()`	Get a collection of all scores that have been set.
`void`	`putScore(java.lang.String property, java.lang.Double score)`	Add a score to the list of scores.

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

- Constructor Detail
  - AbstractScoresCache
```
protected AbstractScoresCache()
```
  - AbstractScoresCache
```
protected AbstractScoresCache(AbstractScoresCache cache)
```
- Method Detail
  - putScore
```
public void putScore(java.lang.String property,
                     java.lang.Double score)
```
    Description copied from interface: ScoresCache
    
    Add a score to the list of scores.
    
    Specified by:
    
    putScore in interface ScoresCache
    
    Parameters:
    
    property - A string identifying the score and suitable for printing in headers. Example names found in: MultipleAlignmentScorer.
    
    score - Value of the score
  - getScore
```
public java.lang.Double getScore(java.lang.String property)
```
    Description copied from interface: ScoresCache
    
    Get the value for a particular score. Scores which return null should be recalculated and then stored using ScoresCache.putScore(String, Double).
    
    Specified by:
    
    getScore in interface ScoresCache
    
    Parameters:
    
    property - Name of the score to fetch
    
    Returns:
    
    Value of the score, or null if it is not set.
  - getScores
```
public java.util.Set<java.lang.String> getScores()
```
    Description copied from interface: ScoresCache
    
    Get a collection of all scores that have been set.
    
    Specified by:
    
    getScores in interface ScoresCache
    
    Returns:
    
    Set of all score names
  - clone
```
protected java.lang.Object clone(java.lang.Object e)
                          throws java.lang.CloneNotSupportedException
```
    Subclasses should override clone and use the copy constructor.
    
    Parameters:
    
    e -
    
    Returns:
    
    Throws:
    
    java.lang.CloneNotSupportedException
  - clear
```
public void clear()
```
    Clear the cached scores. This frees memory after the alignment changed.

Modifier	Constructor	Description
`protected`	`AbstractScoresCache()`
`protected`	`AbstractScoresCache(AbstractScoresCache cache)`

Class AbstractScoresCache

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Constructor Detail

AbstractScoresCache

AbstractScoresCache

Method Detail

putScore

getScore

getScores

clone

clear