picard.metrics

Class SAMRecordMultiLevelCollector<BEAN extends htsjdk.samtools.metrics.MetricBase,HKEY extends java.lang.Comparable>

java.lang.Object

picard.metrics.MultiLevelCollector<BEAN,HKEY,htsjdk.samtools.SAMRecord>

picard.metrics.SAMRecordMultiLevelCollector<BEAN,HKEY>

Direct Known Subclasses:

RnaSeqMetricsCollector, TargetMetricsCollector

public abstract class SAMRecordMultiLevelCollector<BEAN extends htsjdk.samtools.metrics.MetricBase,HKEY extends java.lang.Comparable>
extends MultiLevelCollector<BEAN,HKEY,htsjdk.samtools.SAMRecord>

Defines a MultilevelPerRecordCollector using the argument type of SAMRecord so that this doesn't have to be redefined for each subclass of MultilevelPerRecordCollector

Field Summary

Fields inherited from class picard.metrics.MultiLevelCollector

UNKNOWN

Constructor Summary

Constructors

Constructor and Description
SAMRecordMultiLevelCollector()

Method Summary

Modifier and Type	Method and Description
protected htsjdk.samtools.SAMRecord	makeArg(htsjdk.samtools.SAMRecord samRec, htsjdk.samtools.reference.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

SAMRecordMultiLevelCollector

public SAMRecordMultiLevelCollector()

Method Detail

makeArg

protected htsjdk.samtools.SAMRecord makeArg(htsjdk.samtools.SAMRecord samRec,
                                            htsjdk.samtools.reference.ReferenceSequence refSeq)

Specified by:

makeArg in class MultiLevelCollector<BEAN extends htsjdk.samtools.metrics.MetricBase,HKEY extends java.lang.Comparable,htsjdk.samtools.SAMRecord>