return ArrayList from getComplexAnnotationIntervals

broadinstitute · Feb 15, 2024 · 40569a7 · 40569a7
1 parent ecab916
commit 40569a7
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/src/main/java/org/broadinstitute/hellbender/tools/walkers/sv/SVAnnotateEngine.java b/src/main/java/org/broadinstitute/hellbender/tools/walkers/sv/SVAnnotateEngine.java
@@ -570,9 +570,9 @@ protected static List<SVSegment> parseComplexIntervals(final List<String> cpxInt
      *      protein-coding consequences
      */
     @VisibleForTesting
-    protected static List<SVSegment> getComplexAnnotationIntervals(final List<SVSegment> cpxIntervals,
+    protected static ArrayList<SVSegment> getComplexAnnotationIntervals(final List<SVSegment> cpxIntervals,
                                                                    final GATKSVVCFConstants.ComplexVariantSubtype complexType) {
-        final List<SVSegment> segments = new ArrayList<>(cpxIntervals.size());
+        final ArrayList<SVSegment> segments = new ArrayList<>(cpxIntervals.size());
         final List<SimpleInterval> dupIntervals = new ArrayList<>(cpxIntervals.size());
         SimpleInterval inversionIntervalToAdjust = null;
         boolean keepSegment;