From: Jim Procter <jprocter@issues.jalview.org>
Date: Fri, 30 Sep 2016 16:42:57 +0000 (+0100)
Subject: JAL-2210 CrossRef.findInDataset should search for presence of SequenceI in dataset... 
X-Git-Tag: Release_2_10_0~20^2~22
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=79e9deb92f86fe2df40db97b57587663203a6fdd;p=jalview.git

JAL-2210 CrossRef.findInDataset should search for presence of SequenceI in dataset before anything more fancy or fuzzy.
---

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())
     {
       /*