Sequence label colour stored for each sequence group

[jalview.git] / src / jalview / gui / AlignViewport.java

diff --git a/src/jalview/gui/AlignViewport.java b/src/jalview/gui/AlignViewport.java
index 652d8d1..f798671 100755 (executable)
--- a/src/jalview/gui/AlignViewport.java
+++ b/src/jalview/gui/AlignViewport.java
@@ -1907,4 +1907,24 @@ public class AlignViewport
     {
       centreColumnLabels =  centrecolumnlabels;
     }
+    public void updateSequenceIdColours()
+    {
+      Vector groups = alignment.getGroups();
+      if (sequenceColours==null)
+      {
+        sequenceColours = new Hashtable();
+      }
+      for (int ig=0,igSize=groups.size(); ig<igSize; ig++)
+      {
+        SequenceGroup sg = (SequenceGroup) groups.elementAt(ig);
+        if (sg.idColour!=null)
+        {
+          Vector sqs = sg.getSequences(hiddenRepSequences);
+          for (int s=0,sSize=sqs.size();s<sSize;s++)
+          {
+            sequenceColours.put(sqs.elementAt(s), sg.idColour);
+          } 
+        }
+      }
+    }
 }