de.jstacs.io
Class InfixStringExtractor

java.lang.Object
  de.jstacs.io.AbstractStringExtractor
      de.jstacs.io.InfixStringExtractor

All Implemented Interfaces:

Enumeration<String>

public class InfixStringExtractor
extends AbstractStringExtractor

This class implements an AbstractStringExtractor that can be seen as a filter. Each instance only returns an infix instead of the full String.

Author:

Jens Keilwagen

Field Summary

Fields inherited from class de.jstacs.io.AbstractStringExtractor

annotation, FASTA, ignore, ignorePattern, USUALLY

Constructor Summary

InfixStringExtractor(AbstractStringExtractor se, int start, int length)
This constructor creates an instance that uses only a infix of the string returned by se.

Method Summary

SequenceAnnotation[]	getCurrentSequenceAnnotations() Returns the SequenceAnnotation or null if no SequenceAnnotation is available.
boolean	hasMoreElements()
String	nextElement()

Methods inherited from class de.jstacs.io.AbstractStringExtractor

getAnnotation

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

InfixStringExtractor

public InfixStringExtractor(AbstractStringExtractor se,
                            int start,
                            int length)

This constructor creates an instance that uses only a infix of the string returned by se.

Parameters:

se - the main AbstractStringExtractor returned the full Strings

start - the start position of the infix

length - the length of the infix

Method Detail

hasMoreElements

public boolean hasMoreElements()

nextElement

public String nextElement()

getCurrentSequenceAnnotations

public SequenceAnnotation[] getCurrentSequenceAnnotations()

Description copied from class: AbstractStringExtractor

Returns the SequenceAnnotation or null if no SequenceAnnotation is available.

Overrides:

getCurrentSequenceAnnotations in class AbstractStringExtractor

Returns:

the SequenceAnnotation or null if no SequenceAnnotation is available.