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Searched refs:samRecordComparator (Results 1 – 2 of 2) sorted by relevance

/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/spark/sv/utils/
H A DSVUtils.java48 final SAMRecordComparator samRecordComparator; in getSamRecordComparator() local
51 samRecordComparator = new SAMRecordCoordinateComparator(); in getSamRecordComparator()
54 samRecordComparator = new SAMRecordQueryNameComparator(); in getSamRecordComparator()
59 return samRecordComparator; in getSamRecordComparator()
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/spark/sv/evidence/
H A DAlignedAssemblyOrExcuse.java329 …final SAMRecordComparator samRecordComparator = SVUtils.getSamRecordComparator(assemblyAlnSortOrde… in writeAssemblySAMFile() local
335 .sorted(samRecordComparator); in writeAssemblySAMFile()