org.mulinlab.varnote.utils.block

Class SROB

java.lang.Object

org.mulinlab.varnote.utils.block.SROB

public class SROB
extends java.lang.Object

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
class	SROB.Feature

Constructor Summary

Constructors

Constructor and Description
SROB(int min, int max, long vannoFilePointer, long bgzFilePointer)
SROB(long vannoFilePointer, int min, int max)

Method Summary

Modifier and Type	Method and Description
void	clear()
int	getAVGOffset()
long	getBGZFilePointer()
java.util.List<SROB.Feature>	getBlockFeature()
int	getMax()
int	getMin()
long	getVannoFilePointer()
boolean	hasFeature()
void	initSROB(int min, int max, long vannoFilePointer, long bgzFilePointer)
void	setMax(int max)
void	setMin(int min)
void	setSROB(long vannoFilePointer, int min, int max)
void	setVannoFilePointer(long vannoFilePointer)
void	updateMax(LocFeature feature, int offset)

Methods inherited from class java.lang.Object

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

Constructor Detail

SROB

public SROB(int min,
            int max,
            long vannoFilePointer,
            long bgzFilePointer)

SROB

public SROB(long vannoFilePointer,
            int min,
            int max)

Method Detail

setSROB

public void setSROB(long vannoFilePointer,
                    int min,
                    int max)

initSROB

public void initSROB(int min,
                     int max,
                     long vannoFilePointer,
                     long bgzFilePointer)

clear

public void clear()

getAVGOffset

public int getAVGOffset()

updateMax

public void updateMax(LocFeature feature,
                      int offset)

getMin

public int getMin()

getMax

public int getMax()

getVannoFilePointer

public long getVannoFilePointer()

setVannoFilePointer

public void setVannoFilePointer(long vannoFilePointer)

setMin

public void setMin(int min)

setMax

public void setMax(int max)

getBlockFeature

public java.util.List<SROB.Feature> getBlockFeature()

hasFeature

public boolean hasFeature()

getBGZFilePointer

public long getBGZFilePointer()