Package htsjdk.samtools.cram.encoding.external

Class ExternalByteEncoding

java.lang.Object

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

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

htsjdk.samtools.cram.encoding.external.ExternalByteEncoding

public final class ExternalByteEncoding
extends ExternalEncoding<Byte>

Field Summary

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

externalBlockContentId

Constructor Summary

Constructors

Constructor	Description
ExternalByteEncoding(int externalBlockContentId)

Method Summary

Modifier and Type	Method	Description
CRAMCodec<Byte>	buildCodec(SliceBlocksReadStreams sliceBlocksReadStreams, SliceBlocksWriteStreams sliceBlocksWriteStreams)	Instantiate the codec represented by this encoding by supplying it with the appropriate streams
static ExternalByteEncoding	fromSerializedEncodingParams(byte[] serializedParams)	Create a new instance of this encoding using the (ITF8 encoded) serializedParams.

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

toSerializedEncodingParams, toString

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

buildReadCodec, buildWriteCodec, id, toEncodingDescriptor

Methods inherited from class java.lang.Object

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

Constructor Details

ExternalByteEncoding

public ExternalByteEncoding(int externalBlockContentId)

Method Details

fromSerializedEncodingParams

public static ExternalByteEncoding fromSerializedEncodingParams(byte[] serializedParams)

Create a new instance of this encoding using the (ITF8 encoded) serializedParams.

Parameters:

serializedParams -

Returns:

ExternalByteEncoding with parameters populated from serializedParams

buildCodec

public CRAMCodec<Byte> buildCodec(SliceBlocksReadStreams sliceBlocksReadStreams,
 SliceBlocksWriteStreams sliceBlocksWriteStreams)

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<Byte>

Parameters:

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

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

Returns:

a newly instantiated codec