htsjdk.samtools.sra

Class ReferenceCache

java.lang.Object

htsjdk.samtools.sra.ReferenceCache

public class ReferenceCache
extends java.lang.Object

That is a thread-safe wrapper for a list of cache Reference objects. Those objects can be used from different threads without issues, however to load and save a Reference object, we need to acquire a lock. Created by andrii.nikitiuk on 10/28/15.

Constructor Summary

Constructors

Constructor and Description
ReferenceCache(ngs.ReadCollection run, SAMFileHeader virtualHeader)

Method Summary

Modifier and Type	Method and Description
ngs.Reference	get(int referenceIndex) This method returns Reference objects by reference indexes in SAM header Those objects do not maintain thread safety

Methods inherited from class java.lang.Object

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

Constructor Detail

ReferenceCache

public ReferenceCache(ngs.ReadCollection run,
                      SAMFileHeader virtualHeader)

Method Detail

get

public ngs.Reference get(int referenceIndex)

This method returns Reference objects by reference indexes in SAM header Those objects do not maintain thread safety

Parameters:

referenceIndex - reference index in

Returns:

a Reference object