JAL-3187 (hacked up) show complement features on structure/Overview

[jalview.git] / src / jalview / analysis / AlignmentUtils.java

diff --git a/src/jalview/analysis/AlignmentUtils.java b/src/jalview/analysis/AlignmentUtils.java
index d1217bf..7a082be 100644 (file)
--- a/src/jalview/analysis/AlignmentUtils.java
+++ b/src/jalview/analysis/AlignmentUtils.java
@@ -1104,7 +1104,7 @@ public class AlignmentUtils
         SequenceI prot = mapping.findAlignedSequence(dnaSeq, protein);
         if (prot != null)
         {
-          Mapping seqMap = mapping.getMappingForSequence(dnaSeq);
+          Mapping seqMap = mapping.getMappingForSequence(dnaSeq, false);
           addCodonPositions(dnaSeq, prot, protein.getGapCharacter(), seqMap,
                   alignedCodons);
           unmappedProtein.remove(prot);