net.sf.snver.pileup.meta
Class PileupPool

java.lang.Object
  net.sf.snver.pileup.meta.PileupPool

public class PileupPool
extends java.lang.Object

Pool for pileup process which use the SAMSequenceVo to generate SnverMeta

Created by IntelliJ IDEA. User: weicheng hu Date: 10/21/11 Time: 2:26 PM

Constructor Summary

PileupPool(int bq)
Constructor

Method Summary

void	add(SAMSequenceVo seq) Add SAMSequenceVo into pool
SnverMeta	compute(java.lang.String name, char ref, int index) Generate SnverMeta Object from pool
boolean	isEmpty() Check is pool empty
java.lang.String	peek() Peek the sequence name
void	skip() Skip the useless position

Methods inherited from class java.lang.Object

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

Constructor Detail

PileupPool

public PileupPool(int bq)

Constructor

Parameters:

bq - int

Method Detail

add

public void add(SAMSequenceVo seq)

Add SAMSequenceVo into pool

Parameters:

seq - SAMSequenceVo

compute

public SnverMeta compute(java.lang.String name,
                         char ref,
                         int index)

Generate SnverMeta Object from pool

Parameters:

name - String

ref - char

index - int

Returns:

SnverMeta

skip

public void skip()

Skip the useless position

isEmpty

public boolean isEmpty()

Check is pool empty

Returns:

boolean

peek

public java.lang.String peek()

Peek the sequence name

Returns:

String