picard.metrics

Class SAMRecordAndReferenceMultiLevelCollector<BEAN extends MetricBase,HKEY extends Comparable>

java.lang.Object

picard.metrics.MultiLevelCollector<BEAN,HKEY,SAMRecordAndReference>

picard.metrics.SAMRecordAndReferenceMultiLevelCollector<BEAN,HKEY>

Direct Known Subclasses:

AlignmentSummaryMetricsCollector, RrbsMetricsCollector

public abstract class SAMRecordAndReferenceMultiLevelCollector<BEAN extends MetricBase,HKEY extends Comparable>
extends MultiLevelCollector<BEAN,HKEY,SAMRecordAndReference>

Field Summary

Fields inherited from class picard.metrics.MultiLevelCollector

UNKNOWN

Constructor Summary

Constructors

Constructor and Description
SAMRecordAndReferenceMultiLevelCollector()

Method Summary

Modifier and Type	Method and Description
protected SAMRecordAndReference	makeArg(SAMRecord samRec, ReferenceSequence refSeq)

Methods inherited from class picard.metrics.MultiLevelCollector

acceptRecord, addAllLevelsToFile, finish, getAllReadsCollector, makeAllReadCollector, makeChildCollector, makeLibraryCollector, makeReadGroupCollector, makeSampleCollector, setup

Methods inherited from class java.lang.Object

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

Constructor Detail

SAMRecordAndReferenceMultiLevelCollector

public SAMRecordAndReferenceMultiLevelCollector()

Method Detail

makeArg

protected SAMRecordAndReference makeArg(SAMRecord samRec,
                                        ReferenceSequence refSeq)

Specified by:

makeArg in class MultiLevelCollector<BEAN extends MetricBase,HKEY extends Comparable,SAMRecordAndReference>