<BUG>Set<String> samples = new TreeSet<String>();if ( UAC.ASSUME_SINGLE_SAMPLE != null )samples.add(UAC.ASSUME_SINGLE_SAMPLE);elsesamples = SampleUtils.getSAMFileSamples(getToolkit().getSAMFileHeader());</BUG><CONTEXT>double percentCallableOfAll()    { return (100.0 * nBasesCallable) / (nBasesVisited-nExtendedEvents); }double percentCalledOfAll()      { return (100.0 * nBasesCalledConfidently) / (nBasesVisited-nExtendedEvents); }double percentCalledOfCallable() { return (100.0 * nBasesCalledConfidently) / (nBasesCallable); }}public void initialize() {<extra_id_0>if ( verboseWriter != null )</CONTEXT>
Set<String> samples = SampleUtils.getSAMFileSamples(getToolkit().getSAMFileHeader());