From: amwaterhouse <Andrew Waterhouse>
Date: Thu, 11 May 2006 14:06:16 +0000 (+0000)
Subject: Maintain numbering if remove left is undone
X-Git-Tag: Release_2_1~422
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=5e7f56e027b1fa1846cbd6589c7f11af1f983a40;p=jalview.git

Maintain numbering if remove left is undone
---

diff --git a/src/jalview/datamodel/HistoryItem.java b/src/jalview/datamodel/HistoryItem.java
index 0520bc0..09e87f3 100755
--- a/src/jalview/datamodel/HistoryItem.java
+++ b/src/jalview/datamodel/HistoryItem.java
@@ -75,7 +75,9 @@ public class HistoryItem
       SequenceI seq = al.getSequenceAt(i);
       sequences.addElement(seq);
       alignIndex.addElement(i + "");
-      seqAsString.addElement(seq.getSequence().toString());
+      seqAsString.addElement(seq.getStart()
+                             +" "+seq.getEnd()
+                             +" "+seq.getSequence().toString());
     }
 
     if(alignment.getHiddenSequences()!=null
@@ -115,22 +117,23 @@ public class HistoryItem
     }
     else
     {
-
+      StringTokenizer st;
       for (int i = 0; i < sequences.size(); i++)
       {
         SequenceI restore = (SequenceI) sequences.elementAt(i);
 
+
         if (restore.getLength() == 0)
         {
           //This is for edits which remove all residues in a sequence
-          restore.setSequence(seqAsString.elementAt(i).toString());
           alignment.getSequences().insertElementAt(restore,
               Integer.parseInt(alignIndex.elementAt(i).toString()));
         }
-        else
-        {
-          restore.setSequence(seqAsString.elementAt(i).toString());
-        }
+
+        st = new StringTokenizer(seqAsString.elementAt(i).toString());
+        restore.setStart(Integer.parseInt(st.nextToken()));
+        restore.setEnd(Integer.parseInt(st.nextToken()));
+        restore.setSequence(st.nextToken());
       }
 
       if(hiddenSeqs!=null)