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Searched refs:isReadNameGroupedBam (Results 1 – 5 of 5) sorted by relevance

/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/utils/spark/
H A DSparkUtils.java183 …Utils.validateArg(ReadUtils.isReadNameGroupedBam(header), () -> "Reads must be queryname grouped o… in putReadsWithTheSameNameInTheSamePartition()
302 if (ReadUtils.isReadNameGroupedBam(header)) {
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/engine/spark/datasources/
H A DReadsSparkSource.java108 if( ReadUtils.isReadNameGroupedBam(header)) { in fixPartitionsIfQueryGrouped()
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/spark/transforms/markduplicates/
H A DMarkDuplicatesSpark.java373 if( ReadUtils.isReadNameGroupedBam(header) ){
H A DMarkDuplicatesSparkUtils.java247 if (ReadUtils.isReadNameGroupedBam(header)) { in getReadsGroupedByName()
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/utils/read/
H A DReadUtils.java401 public static boolean isReadNameGroupedBam(SAMFileHeader header) { in isReadNameGroupedBam() method in ReadUtils