X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fjws2%2FMsaWSClient.java;h=b961cfd09b757bac1f890669a6d368569a2f5765;hb=17e77c3f2949a0729322b4a8d907f3f34b6a9914;hp=e7301a6452f391ca7be193f436ec703a585f0ee1;hpb=2273eba5668e5340354da60fed329c6c716cc439;p=jalview.git

diff --git a/src/jalview/ws/jws2/MsaWSClient.java b/src/jalview/ws/jws2/MsaWSClient.java
index e7301a6..b961cfd 100644
--- a/src/jalview/ws/jws2/MsaWSClient.java
+++ b/src/jalview/ws/jws2/MsaWSClient.java
@@ -1,6 +1,6 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Copyright (C) 2015 The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -109,8 +109,7 @@ public class MsaWSClient extends Jws2Client
       // redundant at mo - but may change
       JOptionPane.showMessageDialog(Desktop.desktop, MessageManager
               .formatMessage("label.service_called_is_not_msa_service",
-                      new String[]
-                      { sh.serviceType }), MessageManager
+                      new String[] { sh.serviceType }), MessageManager
               .getString("label.internal_jalview_error"),
               JOptionPane.WARNING_MESSAGE);
 
@@ -120,8 +119,8 @@ public class MsaWSClient extends Jws2Client
     if ((wsInfo = setWebService(sh, false)) == null)
     {
       JOptionPane.showMessageDialog(Desktop.desktop, MessageManager
-              .formatMessage("label.msa_service_is_unknown", new String[]
-              { sh.serviceType }), MessageManager
+              .formatMessage("label.msa_service_is_unknown",
+                      new String[] { sh.serviceType }), MessageManager
               .getString("label.internal_jalview_error"),
               JOptionPane.WARNING_MESSAGE);
 
@@ -130,7 +129,6 @@ public class MsaWSClient extends Jws2Client
 
     startMsaWSClient(altitle, msa, submitGaps, preserveOrder, seqdataset);
 
-
   }
 
   public MsaWSClient()
@@ -195,8 +193,6 @@ public class MsaWSClient extends Jws2Client
     System.out.println("A".matches("(-*[a-zA-Z]-*){1}[a-zA-Z-]*"));
   }
 
-
-
   protected String getServiceActionKey()
   {
     return "MsaWS";
@@ -251,8 +247,7 @@ public class MsaWSClient extends Jws2Client
       {
         action = "Realign ";
         msawsmenu = new JMenu(MessageManager.formatMessage(
-                "label.realign_with_params", new String[]
-                { svcname }));
+                "label.realign_with_params", new String[] { svcname }));
         msawsmenu.setToolTipText(MessageManager
                 .getString("label.align_sequences_to_existing_alignment"));
         rmsawsmenu.add(msawsmenu);
@@ -260,11 +255,11 @@ public class MsaWSClient extends Jws2Client
       final boolean withGaps = submitGaps;
 
       JMenuItem method = new JMenuItem(MessageManager.formatMessage(
-              "label.calcname_with_default_settings", new String[]
-              { calcName }));
-      method.setToolTipText(MessageManager.formatMessage(
-              "label.action_with_default_settings", new String[]
-              { action }));
+              "label.calcname_with_default_settings",
+              new String[] { calcName }));
+      method.setToolTipText(MessageManager
+              .formatMessage("label.action_with_default_settings",
+                      new String[] { action }));
 
       method.addActionListener(new ActionListener()
       {
@@ -274,9 +269,9 @@ public class MsaWSClient extends Jws2Client
 
           if (msa != null)
           {
-          new MsaWSClient(service, alignFrame.getTitle(), msa, withGaps,
-                  true, alignFrame.getViewport().getAlignment()
-                          .getDataset(), alignFrame);
+            new MsaWSClient(service, alignFrame.getTitle(), msa, withGaps,
+                    true, alignFrame.getViewport().getAlignment()
+                            .getDataset(), alignFrame);
           }
 
         }
@@ -299,8 +294,9 @@ public class MsaWSClient extends Jws2Client
             if (msa != null)
             {
               new MsaWSClient(service, null, null, true, alignFrame
-                    .getTitle(), msa, withGaps, true, alignFrame
-                    .getViewport().getAlignment().getDataset(), alignFrame);
+                      .getTitle(), msa, withGaps, true, alignFrame
+                      .getViewport().getAlignment().getDataset(),
+                      alignFrame);
             }
 
           }
@@ -309,9 +305,10 @@ public class MsaWSClient extends Jws2Client
         List<WsParamSetI> presets = service.getParamStore().getPresets();
         if (presets != null && presets.size() > 0)
         {
-          JMenu presetlist = new JMenu(MessageManager.formatMessage(
-                  "label.run_with_preset_params", new String[]
-                  { calcName }));
+          JMenu presetlist = new JMenu(
+                  MessageManager.formatMessage(
+                          "label.run_with_preset_params",
+                          new String[] { calcName }));
 
           final int showToolTipFor = ToolTipManager.sharedInstance()
                   .getDismissDelay();
@@ -333,7 +330,8 @@ public class MsaWSClient extends Jws2Client
               @Override
               public void mouseExited(MouseEvent e)
               {
-                ToolTipManager.sharedInstance().setDismissDelay(showToolTipFor);
+                ToolTipManager.sharedInstance().setDismissDelay(
+                        showToolTipFor);
               }
 
             });
@@ -356,9 +354,9 @@ public class MsaWSClient extends Jws2Client
                 if (msa != null)
                 {
                   MsaWSClient msac = new MsaWSClient(service, preset,
-                          alignFrame.getTitle(),
-                        msa, false, true, alignFrame.getViewport()
-                                .getAlignment().getDataset(), alignFrame);
+                          alignFrame.getTitle(), msa, false, true,
+                          alignFrame.getViewport().getAlignment()
+                                  .getDataset(), alignFrame);
                 }
 
               }