MarkDuplicates: Add read group ID instead of string "RG" (#1937)

* fixes #1936
broadinstitute · Jan 11, 2024 · 546b5e5 · 546b5e5
1 parent 5706839
commit 546b5e5
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/src/main/java/picard/sam/markduplicates/MarkDuplicates.java b/src/main/java/picard/sam/markduplicates/MarkDuplicates.java
@@ -555,7 +555,7 @@ private void buildSortedReadEndLists(final boolean useBarcodes) {
 
                 if (rec.getReadPairedFlag() && !rec.getMateUnmappedFlag()) {
                     final StringBuilder key = new StringBuilder();
-                    key.append(ReservedTagConstants.READ_GROUP_ID);
+                    key.append(rec.getReadGroup().getReadGroupId());
                     key.append(rec.getReadName());
                     ReadEndsForMarkDuplicates pairedEnds = tmp.remove(rec.getReferenceIndex(), key.toString());