From 79e9deb92f86fe2df40db97b57587663203a6fdd Mon Sep 17 00:00:00 2001
From: Jim Procter <jprocter@issues.jalview.org>
Date: Fri, 30 Sep 2016 17:42:57 +0100
Subject: [PATCH] JAL-2210 CrossRef.findInDataset should search for presence
 of SequenceI in dataset before anything more fancy or
 fuzzy.

---
 src/jalview/analysis/CrossRef.java |    6 ++++++
 1 file changed, 6 insertions(+)

diff --git a/src/jalview/analysis/CrossRef.java b/src/jalview/analysis/CrossRef.java
index 1295b46..a729334 100644
--- a/src/jalview/analysis/CrossRef.java
+++ b/src/jalview/analysis/CrossRef.java
@@ -618,6 +618,12 @@ public class CrossRef
     String name2 = xref.getSource() + "|" + name;
     SequenceI dss = mapsTo.getDatasetSequence() == null ? mapsTo : mapsTo
             .getDatasetSequence();
+    // first check ds if ds is directly referenced
+    if (dataset.findIndex(dss) > -1)
+    {
+      return dss;
+    }
+    ;
     for (SequenceI seq : dataset.getSequences())
     {
       /*
-- 
1.7.10.2