From: Jim Procter <jprocter@dundee.ac.uk>
Date: Tue, 15 Apr 2014 17:43:34 +0000 (+0100)
Subject: patch v2 for JAL-1474 add the newly recovered dataset sequence to the dataset current... 
X-Git-Tag: Jalview_2_9~123^2~45
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=6002ac160ed8402d9d76bc75b3cb0875a0db08ac;p=jalview.git

patch v2 for JAL-1474 add the newly recovered dataset sequence to the dataset currently being build/operated on if it isn't already present
---

diff --git a/src/jalview/gui/Jalview2XML.java b/src/jalview/gui/Jalview2XML.java
index c7fa090..ce42174 100644
--- a/src/jalview/gui/Jalview2XML.java
+++ b/src/jalview/gui/Jalview2XML.java
@@ -3737,6 +3737,20 @@ public class Jalview2XML
         if (sq != dsq)
         { // make this dataset sequence sq's dataset sequence
           sq.setDatasetSequence(dsq);
+          // and update the current dataset alignment
+          if (ds==null) {
+            if (dseqs!=null) {
+              if (!dseqs.contains(dsq))
+              {
+                dseqs.add(dsq);
+              }
+            } else {
+              if (ds.findIndex(dsq)<0)
+              {
+                ds.addSequence(dsq);
+              }
+            }
+          }
         }
       }
     }