Searched refs:setIsDuplicate (Results 1 – 7 of 7) sorted by relevance
228 .peek(read -> read.setIsDuplicate(false)) in mark()235 read.setIsDuplicate(true); in mark()240 read.setIsDuplicate(false); in mark()250 read.setIsDuplicate(false); in mark()254 read.setIsDuplicate(true); in mark()259 read.setIsDuplicate(false); in mark()
89 read.setIsDuplicate(false); in apply()
745 void setIsDuplicate( final boolean isDuplicate );
600 public void setIsDuplicate( final boolean isDuplicate ) { in setIsDuplicate() method in SAMRecordToGATKReadAdapter
800 read.setIsDuplicate(true); in testGetAndSetSimpleFlags()803 read.setIsDuplicate(false); in testGetAndSetSimpleFlags()1221 read.setIsDuplicate(true); in testSAMStringSimpleFlags()1225 read.setIsDuplicate(false); in testSAMStringSimpleFlags()
534 reads = reads.map(r -> {r.setIsDuplicate(false); return r;});
147 read.setIsDuplicate(true); in failsNOT_DUPLICATE()