From: tcofoegbu <tcnofoegbu@dundee.ac.uk>
Date: Tue, 4 Aug 2015 15:16:48 +0000 (+0100)
Subject: JAL-1821 updated implementation of launchStructureViewer method to use currently... 
X-Git-Tag: Release_2_10_0~552
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=a5741a64054ad42d0c950ba655bf7fdfda5bfd15;p=jalview.git

JAL-1821 updated implementation of launchStructureViewer method to use currently selected sequences instead of trying to collate them from the viewport (as suggested by Jim)
---

diff --git a/src/jalview/gui/StructureChooser.java b/src/jalview/gui/StructureChooser.java
index f456817..d5e4cbc 100644
--- a/src/jalview/gui/StructureChooser.java
+++ b/src/jalview/gui/StructureChooser.java
@@ -790,8 +790,18 @@ public class StructureChooser extends GStructureChooser
     StructureViewer sViewer = new StructureViewer(ssm);
     if (pdbEntriesToView.length > 1)
     {
-      sViewer.viewStructures(pdbEntriesToView, alignPanel.av.collateForPDB(pdbEntriesToView),
+      ArrayList<SequenceI[]> seqsMap = new ArrayList<SequenceI[]>();
+      for (SequenceI seq : sequences)
+      {
+        seqsMap.add(new SequenceI[]
+        { seq });
+      }
+      SequenceI[][] collatedSeqs = seqsMap.toArray(new SequenceI[0][0]);
+      sViewer.viewStructures(pdbEntriesToView, collatedSeqs,
               alignPanel);
+      // sViewer.viewStructures(pdbEntriesToView,
+      // alignPanel.av.collateForPDB(pdbEntriesToView),
+      // alignPanel);
     }
     else
     {