org.seqdoop.hadoop_bam

Class LazyBCFGenotypesContext.HeaderDataCache

java.lang.Object

org.seqdoop.hadoop_bam.LazyBCFGenotypesContext.HeaderDataCache

All Implemented Interfaces:

LazyParsingGenotypesContext.HeaderDataCache

Enclosing class:

LazyBCFGenotypesContext

public static class LazyBCFGenotypesContext.HeaderDataCache
extends Object
implements LazyParsingGenotypesContext.HeaderDataCache

Field Summary

Fields

Modifier and Type	Field and Description
static htsjdk.variant.bcf2.BCF2Decoder	decoder

Constructor Summary

Constructors

Constructor and Description
HeaderDataCache()

Method Summary

Modifier and Type	Method and Description
htsjdk.variant.variantcontext.GenotypeBuilder[]	getBuilders()
List<String>	getFieldDict()
htsjdk.variant.bcf2.BCF2GenotypeFieldDecoders	getGenoFieldDecoders()
ArrayList<String>	getSampleNamesInOrder()
HashMap<String,Integer>	getSampleNameToOffset()
void	setHeader(htsjdk.variant.vcf.VCFHeader header)

Methods inherited from class java.lang.Object

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

Field Detail

decoder

public static final htsjdk.variant.bcf2.BCF2Decoder decoder

Constructor Detail

HeaderDataCache

public HeaderDataCache()

Method Detail

setHeader

public void setHeader(htsjdk.variant.vcf.VCFHeader header)

Specified by:

setHeader in interface LazyParsingGenotypesContext.HeaderDataCache

getGenoFieldDecoders

public htsjdk.variant.bcf2.BCF2GenotypeFieldDecoders getGenoFieldDecoders()

getFieldDict

public List<String> getFieldDict()

getBuilders

public htsjdk.variant.variantcontext.GenotypeBuilder[] getBuilders()

getSampleNamesInOrder

public ArrayList<String> getSampleNamesInOrder()

getSampleNameToOffset

public HashMap<String,Integer> getSampleNameToOffset()