fixed alignment ordering name.

[jalview.git] / src / jalview / ws / MsaWSThread.java

diff --git a/src/jalview/ws/MsaWSThread.java b/src/jalview/ws/MsaWSThread.java
index 1382a23..62f076a 100644 (file)
--- a/src/jalview/ws/MsaWSThread.java
+++ b/src/jalview/ws/MsaWSThread.java
@@ -2,12 +2,11 @@ package jalview.ws;
 
 import java.util.*;
 
-import javax.swing.*;
-
 import jalview.analysis.*;
 import jalview.bin.*;
 import jalview.datamodel.*;
 import jalview.datamodel.Alignment;
+import jalview.datamodel.Sequence;
 import jalview.gui.*;
 import vamsas.objects.simple.MsaResult;
 
@@ -824,8 +823,6 @@ class MsaWSThread
 
     if (newFrame)
     {
-      // TODO: JBPNote Should also rename the query sequence
-      // sometime...
       AlignFrame af = new AlignFrame(al, columnselection);
 
       // >>>This is a fix for the moment, until a better solution is
@@ -845,7 +842,7 @@ class MsaWSThread
           Vector names = new Vector();
           for (int i = 0, l = alorders.size(); i < l; i++)
           {
-            String orderName = new String("Region " + i);
+            String orderName = new String(" Region " + i);
             int j = i + 1;
             int r = l;
             while (j < l)
@@ -874,7 +871,8 @@ class MsaWSThread
           }
           for (int i = 0, l = alorders.size(); i < l; i++)
           {
-            af.addSortByOrderMenuItem(WebServiceName + ( (String) names.get(i)) +
+            af.addSortByOrderMenuItem(WebServiceName
+                                      +( (String) names.get(i)) +
                                       " Ordering",
                                       (AlignmentOrder) alorders.get(i));
           }