org.utgenome.gwt.utgb.server.app
Class Sequence.SequenceRetrieverBase

java.lang.Object
  org.utgenome.gwt.utgb.server.app.Sequence.SequenceRetrieverBase

All Implemented Interfaces:

org.xerial.db.sql.BeanResultHandler<FASTADatabase.NSeq>

Direct Known Subclasses:

Sequence.GraphicalOutput, Sequence.JSONOutput, Sequence.TextOutput, Sequence.XMLOutput

Enclosing class:

Sequence

public abstract static class Sequence.SequenceRetrieverBase
extends Object
implements org.xerial.db.sql.BeanResultHandler<FASTADatabase.NSeq>

Constructor Summary

Sequence.SequenceRetrieverBase(int start, int end, boolean isReverseStrand)

Method Summary

void	finish()
char	getComplement(char base)
int	getEnd()
int	getStart()
void	handle(FASTADatabase.NSeq seq)
void	handleException(Exception e)
void	init()
boolean	isReverseStrand()
abstract void	output(String subSequence)

Methods inherited from class java.lang.Object

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

Constructor Detail

Sequence.SequenceRetrieverBase

public Sequence.SequenceRetrieverBase(int start,
                                      int end,
                                      boolean isReverseStrand)

Method Detail

handle

public void handle(FASTADatabase.NSeq seq)
            throws SQLException

Specified by:

handle in interface org.xerial.db.sql.BeanResultHandler<FASTADatabase.NSeq>

Throws:

SQLException

getStart

public int getStart()

getEnd

public int getEnd()

isReverseStrand

public boolean isReverseStrand()

output

public abstract void output(String subSequence)

getComplement

public char getComplement(char base)

init

public void init()

Specified by:

init in interface org.xerial.db.sql.BeanResultHandler<FASTADatabase.NSeq>

finish

public void finish()

Specified by:

finish in interface org.xerial.db.sql.BeanResultHandler<FASTADatabase.NSeq>

handleException

public void handleException(Exception e)
                     throws Exception

Specified by:

handleException in interface org.xerial.db.sql.BeanResultHandler<FASTADatabase.NSeq>

Throws:

Exception