htsjdk.samtools.cram.mask

Class ArrayPositionMask

java.lang.Object

htsjdk.samtools.cram.mask.ArrayPositionMask

All Implemented Interfaces:

PositionMask

public class ArrayPositionMask
extends java.lang.Object
implements PositionMask

Field Summary

Fields

Modifier and Type	Field and Description
static PositionMask	EMPTY_INSTANCE

Constructor Summary

Constructors

Constructor and Description
ArrayPositionMask(int[] array)

Method Summary

Methods

Modifier and Type	Method and Description
int	getMaskedCount()
int[]	getMaskedPositions()
int	getMaxMaskedPosition()
int	getMinMaskedPosition()
boolean	isEmpty()
boolean	isMasked(int position)
byte[]	toByteArrayUsing(byte mask, byte nonMask)

Methods inherited from class java.lang.Object

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

Field Detail

EMPTY_INSTANCE

public static final PositionMask EMPTY_INSTANCE

Constructor Detail

ArrayPositionMask

public ArrayPositionMask(int[] array)

Method Detail

isMasked

public boolean isMasked(int position)

Specified by:

isMasked in interface PositionMask

getMaskedPositions

public int[] getMaskedPositions()

Specified by:

getMaskedPositions in interface PositionMask

isEmpty

public boolean isEmpty()

Specified by:

isEmpty in interface PositionMask

getMaskedCount

public int getMaskedCount()

Specified by:

getMaskedCount in interface PositionMask

getMinMaskedPosition

public int getMinMaskedPosition()

Specified by:

getMinMaskedPosition in interface PositionMask

getMaxMaskedPosition

public int getMaxMaskedPosition()

Specified by:

getMaxMaskedPosition in interface PositionMask

toByteArrayUsing

public byte[] toByteArrayUsing(byte mask,
                      byte nonMask)

Specified by:

toByteArrayUsing in interface PositionMask