htsjdk.samtools.cram.io

Class DefaultBitInputStream

java.lang.Object

java.io.InputStream

java.io.FilterInputStream

java.io.DataInputStream

htsjdk.samtools.cram.io.DefaultBitInputStream

All Implemented Interfaces:

BitInputStream, java.io.Closeable, java.io.DataInput, java.lang.AutoCloseable

public class DefaultBitInputStream
extends java.io.DataInputStream
implements BitInputStream

Must not read from delegate unless no bits left in the buffer!!!

Field Summary

Fields inherited from class java.io.FilterInputStream

in

Constructor Summary

Constructors

Constructor and Description
DefaultBitInputStream(java.io.InputStream in)

Method Summary

Modifier and Type	Method and Description
boolean	readBit() Reads a single bit from the stream.
int	readBits(int n) Read specified number of bits from the stream.
long	readLongBits(int n) Read specified number of bits from the stream.
void	reset()

Methods inherited from class java.io.DataInputStream

read, read, readBoolean, readByte, readChar, readDouble, readFloat, readFully, readFully, readInt, readLine, readLong, readShort, readUnsignedByte, readUnsignedShort, readUTF, readUTF, skipBytes

Methods inherited from class java.io.FilterInputStream

available, close, mark, markSupported, read, skip

Methods inherited from class java.lang.Object

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

Constructor Detail

DefaultBitInputStream

public DefaultBitInputStream(java.io.InputStream in)

Method Detail

readBit

public final boolean readBit()
                      throws java.io.IOException

Description copied from interface: BitInputStream

Reads a single bit from the stream.

Specified by:

readBit in interface BitInputStream

Throws:

java.io.IOException - as per streaming contract in java.

readBits

public final int readBits(int n)
                   throws java.io.IOException

Description copied from interface: BitInputStream

Read specified number of bits from the stream. The bits are return in an integer value.

Specified by:

readBits in interface BitInputStream

Parameters:

n - number of bits to read

Throws:

java.io.IOException - as per streaming contract in java.

readLongBits

public final long readLongBits(int n)
                        throws java.io.IOException

Description copied from interface: BitInputStream

Read specified number of bits from the stream. The bits are return in a long value.

Specified by:

readLongBits in interface BitInputStream

Parameters:

n - number of bits to read

Throws:

java.io.IOException - as per streaming contract in java.

reset

public void reset()

Overrides:

reset in class java.io.FilterInputStream