org.biojava.bio.program.ssaha.SearchListener.FilterByLength

A simple listener that filters out all hits that are too short.

Nested Class Summary

Nested classes/interfaces inherited from interface org.biojava.bio.program.ssaha.SearchListener
SearchListener.Echo, SearchListener.FilterByLength, SearchListener.Tee, SearchListener.Wrapper
Constructor Summary

Constructors

Constructor

Description

FilterByLength(SearchListener delegate, int minLength)
Method Summary

Modifier and Type

Method

Description

void

hit(int hitID, int queryOffset, int hitOffset, int hitLength)

There has been a hit between the query sequence and a database sequence.

Methods inherited from class org.biojava.bio.program.ssaha.SearchListener.Wrapper
endSearch, startSearch

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

Constructor Details
- FilterByLength
  
  public FilterByLength(SearchListener delegate, int minLength)
Method Details
- hit
  
  public void hit(int hitID, int queryOffset, int hitOffset, int hitLength)
  
  Description copied from interface: SearchListener
  
  There has been a hit between the query sequence and a database sequence.
  
  Specified by:
  
  hit in interface SearchListener
  
  Overrides:
  
  hit in class SearchListener.Wrapper
  
  Parameters:
  
  hitID - the number of the sequence hit; resolvable by String id = DataStore.seqNameForID(hitID)
  
  queryOffset - the offset into the query sequence
  
  hitOffset - the offset into the sequence hit in the database
  
  hitLength - the number of symbols hit

Class SearchListener.FilterByLength

Nested Class Summary