Mutation (JCoRe Mutation Finder AE 2.6.1 API)

java.lang.Object
- edu.uchsc.ccp.nlp.ei.mutation.Mutation

Direct Known Subclasses:

PointMutation
```
public class Mutation
extends Object
```
Mutation is a base class for different types of mutations. Currently the only Mutation type defined is a PointMutation, but in the future Insertion and Deletion objects may also be defined.

Version:

1.0

Author:

William A. Baumgartner, Jr.
william.baumgartner@uchsc.edu

Constructor Summary

Constructors
Constructor Description

Mutation(int position)

Mutation(String position)

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`boolean`	`equals(Object obj)`	To be overridden by subclasses
`protected void`	`error(String message)`
`int`	`getPosition()`	Retrieves the mutation sequence position
`int`	`hashCode()`	To be overridden by subclasses
`String`	`toString()`	To be overridden by subclasses
`protected void`	`updateMapping(Map<String,String> inputMap, Map<String,String> additionalMappings)`
`protected void`	`warn(String message)`

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

- Constructor Detail
  - Mutation
```
public Mutation(int position)
         throws MutationException
```
    Parameters:
    
    position - -- the sequence position or start position of the mutation
    
    Throws:
    
    MutationException
  - Mutation
```
public Mutation(String position)
         throws MutationException
```
    Parameters:
    
    position - -- the sequence position or start position of the mutation
    
    Throws:
    
    MutationException
- Method Detail
  - getPosition
```
public int getPosition()
```
    Retrieves the mutation sequence position
    
    Returns:
    
    an int representing the position or start position of the mutation
  - updateMapping
```
protected void updateMapping(Map<String,String> inputMap,
                             Map<String,String> additionalMappings)
```
  - warn
```
protected void warn(String message)
```
  - error
```
protected void error(String message)
```
  - equals
```
public boolean equals(Object obj)
```
    To be overridden by subclasses
    
    Overrides:
    
    equals in class Object
  - hashCode
```
public int hashCode()
```
    To be overridden by subclasses
    
    Overrides:
    
    hashCode in class Object
  - toString
```
public String toString()
```
    To be overridden by subclasses
    
    Overrides:
    
    toString in class Object