Package org.broadinstitute.gatk.utils.sam

Examples of org.broadinstitute.gatk.utils.sam.ArtificialSingleSampleReadStreamAnalyzer.update()


                SAMRecord read = downsamplingIter.next();
                String sampleName = read.getReadGroup() != null ? read.getReadGroup().getSample() : null;

                ArtificialSingleSampleReadStreamAnalyzer analyzer = perSampleStreamAnalyzers.get(sampleName);
                if ( analyzer != null ) {
                    analyzer.update(read);
                }
                else {
                    throw new ReviewedGATKException("bug: stream analyzer for sample " + sampleName + " not found");
                }
            }
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