htsjdk.samtools.cram.encoding.external

Class ExternalByteEncoding

java.lang.Object

htsjdk.samtools.cram.encoding.CRAMEncoding<T>

htsjdk.samtools.cram.encoding.external.ExternalEncoding<java.lang.Byte>

htsjdk.samtools.cram.encoding.external.ExternalByteEncoding

public class ExternalByteEncoding
extends ExternalEncoding<java.lang.Byte>

Field Summary

Fields inherited from class htsjdk.samtools.cram.encoding.external.ExternalEncoding

externalBlockContentId

Constructor Summary

Constructors

Constructor and Description
ExternalByteEncoding(int externalBlockContentId)

Method Summary

Modifier and Type	Method and Description
CRAMCodec<java.lang.Byte>	buildCodec(BitInputStream coreBlockInputStream, BitOutputStream coreBlockOutputStream, java.util.Map<java.lang.Integer,java.io.ByteArrayInputStream> externalBlockInputMap, java.util.Map<java.lang.Integer,java.io.ByteArrayOutputStream> externalBlockOutputMap) Instantiate the codec represented by this encoding by supplying it with the appropriate streams
static ExternalByteEncoding	fromParams(byte[] params)

Methods inherited from class htsjdk.samtools.cram.encoding.external.ExternalEncoding

toByteArray

Methods inherited from class htsjdk.samtools.cram.encoding.CRAMEncoding

buildReadCodec, buildWriteCodec, id, toParam

Methods inherited from class java.lang.Object

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

Constructor Detail

ExternalByteEncoding

public ExternalByteEncoding(int externalBlockContentId)

Method Detail

fromParams

public static ExternalByteEncoding fromParams(byte[] params)

buildCodec

public CRAMCodec<java.lang.Byte> buildCodec(BitInputStream coreBlockInputStream,
                                            BitOutputStream coreBlockOutputStream,
                                            java.util.Map<java.lang.Integer,java.io.ByteArrayInputStream> externalBlockInputMap,
                                            java.util.Map<java.lang.Integer,java.io.ByteArrayOutputStream> externalBlockOutputMap)

Description copied from class: CRAMEncoding

Instantiate the codec represented by this encoding by supplying it with the appropriate streams

Specified by:

buildCodec in class CRAMEncoding<java.lang.Byte>

Parameters:

coreBlockInputStream - the core block bit stream a CoreCodec will read from

coreBlockOutputStream - the core block bit stream a CoreCodec will write to

externalBlockInputMap - the external block byte stream a ExternalCodec will read from

externalBlockOutputMap - the external block byte stream a ExternalCodec will write to

Returns:

a newly instantiated codec