org.biojava.bio.program.ssaha
Class SearchListener.Echo
java.lang.Object
org.biojava.bio.program.ssaha.SearchListener.Echo
- All Implemented Interfaces:
- SearchListener
- Enclosing interface:
- SearchListener
public static final class SearchListener.Echo
- extends java.lang.Object
- implements SearchListener
A SearchListener that prints events out to a PrintStream.
Use this for debugging purposes.
- Since:
- 1.4
- Author:
- Matthew Pocock
Method Summary |
void |
endSearch(java.lang.String seqID)
Indicates that a sequence has been searched against a DataStore. |
void |
hit(int hitID,
int queryOffset,
int hitOffset,
int hitLength)
There has been a hit between the query sequence and a database
sequence. |
void |
startSearch(java.lang.String seqID)
Indicates that a sequence is about to be searched against a DataStore. |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
SearchListener.Echo
public SearchListener.Echo(java.io.PrintStream out)
startSearch
public void startSearch(java.lang.String seqID)
- Description copied from interface:
SearchListener
- Indicates that a sequence is about to be searched against a DataStore.
- Specified by:
startSearch
in interface SearchListener
- Parameters:
seqID
- the id of the sequence to be searched
endSearch
public void endSearch(java.lang.String seqID)
- Description copied from interface:
SearchListener
- Indicates that a sequence has been searched against a DataStore.
- Specified by:
endSearch
in interface SearchListener
- Parameters:
seqID
- the id of the sequence to be searched
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
- Parameters:
hitID
- the number of the sequence hit; resolvable by
String id = DataStore.seqNameForID(hitID)queryOffset
- the offset into the query sequencehitOffset
- the offset into the sequence hit in the databasehitLength
- the number of symbols hit