ExtendedFuncotator bugfix

BimberLab · Jun 21, 2023 · 7f69944 · 7f69944
1 parent 0d5613c
commit 7f69944
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/src/main/java/com/github/discvrseq/walkers/ExtendedFuncotator.java b/src/main/java/com/github/discvrseq/walkers/ExtendedFuncotator.java
@@ -300,7 +300,8 @@ public void write(final VariantContext variant, final FuncotationMap txToFuncota
                         if (toAdd.size() > 1) {
                             throw new GATKException("Expected a one set of values per site for annotation: " + vd.sourceField + ". Problem at site: " + variant.toStringWithoutGenotypes());
                         }
-                        if (!toAdd.get(0).isEmpty()) {
+
+                        if (!toAdd.isEmpty() && !toAdd.get(0).isEmpty()) {
                             String val = toAdd.get(0).stream().filter(x -> !x.isEmpty()).collect(Collectors.joining(","));
                             if (!val.isEmpty()) {
                                 variantContextOutputBuilder.attribute(vd.id, val);