htsjdk.tribble.index.tabix

Class StreamBasedTabixIndexCreator

java.lang.Object

htsjdk.tribble.index.tabix.AllRefsTabixIndexCreator

htsjdk.tribble.index.tabix.StreamBasedTabixIndexCreator

All Implemented Interfaces:

IndexCreator

public class StreamBasedTabixIndexCreator
extends AllRefsTabixIndexCreator

A TabixIndexCreator that can write to an output stream.

Constructor Summary

Constructors

Constructor and Description
StreamBasedTabixIndexCreator(SAMSequenceDictionary sequenceDictionary, TabixFormat formatSpec, java.io.OutputStream out)

Method Summary

Modifier and Type	Method and Description
Index	finalizeIndex(long finalFilePosition) Create the index, given the stream of features passed in to this point

Methods inherited from class htsjdk.tribble.index.tabix.AllRefsTabixIndexCreator

addFeature

Methods inherited from class java.lang.Object

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

Methods inherited from interface htsjdk.tribble.index.IndexCreator

setIndexSequenceDictionary

Constructor Detail

StreamBasedTabixIndexCreator

public StreamBasedTabixIndexCreator(SAMSequenceDictionary sequenceDictionary,
                                    TabixFormat formatSpec,
                                    java.io.OutputStream out)

Method Detail

finalizeIndex

public Index finalizeIndex(long finalFilePosition)

Description copied from interface: IndexCreator

Create the index, given the stream of features passed in to this point

Specified by:

finalizeIndex in interface IndexCreator

Overrides:

finalizeIndex in class AllRefsTabixIndexCreator

Parameters:

finalFilePosition - the final file position, for indexes that have to close out with the final position

Returns:

an index object