picard.metrics.SAMRecordMultiLevelCollector Maven / Gradle / Ivy

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A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

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package picard.metrics;

import htsjdk.samtools.SAMRecord;
import htsjdk.samtools.metrics.MetricBase;
import htsjdk.samtools.reference.ReferenceSequence;

/** Defines a MultilevelPerRecordCollector using the argument type of SAMRecord so that this doesn't have to be redefined for each subclass of MultilevelPerRecordCollector */
public abstract class SAMRecordMultiLevelCollector extends MultiLevelCollector {

    @Override
    protected SAMRecord makeArg(SAMRecord samRec, final ReferenceSequence refSeq) {
        return samRec;
    }
}