X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fjws2%2FMsaWSClient.java;h=b7230595f95f80244f812ae1b318d3f382932bf0;hb=849ce08f4fdfc619cf1e2f45d6e97884ecac595f;hp=c83ef0fd26a3f8a505481338c5f4eb7d9e7d79a7;hpb=3afeb8ae2ef300c3ac29025d2d2da93b0afb4be8;p=jalview.git

diff --git a/src/jalview/ws/jws2/MsaWSClient.java b/src/jalview/ws/jws2/MsaWSClient.java
index c83ef0f..b723059 100644
--- a/src/jalview/ws/jws2/MsaWSClient.java
+++ b/src/jalview/ws/jws2/MsaWSClient.java
@@ -20,10 +20,11 @@
  */
 package jalview.ws.jws2;
 
-import jalview.datamodel.Alignment;
+import jalview.datamodel.AlignmentI;
 import jalview.datamodel.AlignmentView;
 import jalview.gui.AlignFrame;
 import jalview.gui.Desktop;
+import jalview.gui.JvOptionPane;
 import jalview.gui.JvSwingUtils;
 import jalview.util.MessageManager;
 import jalview.ws.jws2.jabaws2.Jws2Instance;
@@ -37,7 +38,6 @@ import java.util.List;
 
 import javax.swing.JMenu;
 import javax.swing.JMenuItem;
-import javax.swing.JOptionPane;
 import javax.swing.ToolTipManager;
 
 import compbio.data.msa.MsaWS;
@@ -58,7 +58,7 @@ public class MsaWSClient extends Jws2Client
 
   public MsaWSClient(Jws2Instance sh, String altitle,
           jalview.datamodel.AlignmentView msa, boolean submitGaps,
-          boolean preserveOrder, Alignment seqdataset,
+          boolean preserveOrder, AlignmentI seqdataset,
           AlignFrame _alignFrame)
   {
     this(sh, null, null, false, altitle, msa, submitGaps, preserveOrder,
@@ -68,7 +68,7 @@ public class MsaWSClient extends Jws2Client
 
   public MsaWSClient(Jws2Instance sh, WsParamSetI preset, String altitle,
           jalview.datamodel.AlignmentView msa, boolean submitGaps,
-          boolean preserveOrder, Alignment seqdataset,
+          boolean preserveOrder, AlignmentI seqdataset,
           AlignFrame _alignFrame)
   {
     this(sh, preset, null, false, altitle, msa, submitGaps, preserveOrder,
@@ -95,7 +95,7 @@ public class MsaWSClient extends Jws2Client
   public MsaWSClient(Jws2Instance sh, WsParamSetI preset,
           List<Argument> arguments, boolean editParams, String altitle,
           jalview.datamodel.AlignmentView msa, boolean submitGaps,
-          boolean preserveOrder, Alignment seqdataset,
+          boolean preserveOrder, AlignmentI seqdataset,
           AlignFrame _alignFrame)
   {
     super(_alignFrame, preset, arguments);
@@ -107,22 +107,22 @@ public class MsaWSClient extends Jws2Client
     if (!(sh.service instanceof MsaWS))
     {
       // redundant at mo - but may change
-      JOptionPane.showMessageDialog(Desktop.desktop, MessageManager
+      JvOptionPane.showMessageDialog(Desktop.desktop, MessageManager
               .formatMessage("label.service_called_is_not_msa_service",
                       new String[] { sh.serviceType }), MessageManager
               .getString("label.internal_jalview_error"),
-              JOptionPane.WARNING_MESSAGE);
+              JvOptionPane.WARNING_MESSAGE);
 
       return;
     }
     server = (MsaWS) sh.service;
     if ((wsInfo = setWebService(sh, false)) == null)
     {
-      JOptionPane.showMessageDialog(Desktop.desktop, MessageManager
+      JvOptionPane.showMessageDialog(Desktop.desktop, MessageManager
               .formatMessage("label.msa_service_is_unknown",
                       new String[] { sh.serviceType }), MessageManager
               .getString("label.internal_jalview_error"),
-              JOptionPane.WARNING_MESSAGE);
+              JvOptionPane.WARNING_MESSAGE);
 
       return;
     }
@@ -138,7 +138,7 @@ public class MsaWSClient extends Jws2Client
   }
 
   private void startMsaWSClient(String altitle, AlignmentView msa,
-          boolean submitGaps, boolean preserveOrder, Alignment seqdataset)
+          boolean submitGaps, boolean preserveOrder, AlignmentI seqdataset)
   {
     // if (!locateWebService())
     // {
@@ -180,10 +180,10 @@ public class MsaWSClient extends Jws2Client
     }
     else
     {
-      JOptionPane.showMessageDialog(alignFrame,
+      JvOptionPane.showMessageDialog(alignFrame,
               MessageManager.getString("info.invalid_msa_input_mininfo"),
               MessageManager.getString("info.invalid_msa_notenough"),
-              JOptionPane.INFORMATION_MESSAGE);
+              JvOptionPane.INFORMATION_MESSAGE);
       wsInfo.setVisible(false);
     }
   }
@@ -338,13 +338,14 @@ public class MsaWSClient extends Jws2Client
               }
 
             });
-            String tooltip = JvSwingUtils.wrapTooltip(
-                    true,
+            String tooltip = JvSwingUtils
+                    .wrapTooltip(
+                            true,
                             "<strong>"
-                            + (preset.isModifiable() ? MessageManager
-                                    .getString("label.user_preset")
-                                    : MessageManager
-                                            .getString("label.service_preset"))
+                                    + (preset.isModifiable() ? MessageManager
+                                            .getString("label.user_preset")
+                                            : MessageManager
+                                                    .getString("label.service_preset"))
                                     + "</strong><br/>"
                                     + preset.getDescription());
             methodR.setToolTipText(tooltip);