X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fjws2%2FSequenceAnnotationWSClient.java;h=501e93dd621079f681d49b6301a81cc4f7e3991c;hb=48697417aee5316f9ca530d191b8ace5af961d80;hp=fda9ab51ed3e0615b93a184ff57222ace66a4052;hpb=6642847b7a5154da9d39ee568036f85576b9f171;p=jalview.git

diff --git a/src/jalview/ws/jws2/SequenceAnnotationWSClient.java b/src/jalview/ws/jws2/SequenceAnnotationWSClient.java
index fda9ab5..501e93d 100644
--- a/src/jalview/ws/jws2/SequenceAnnotationWSClient.java
+++ b/src/jalview/ws/jws2/SequenceAnnotationWSClient.java
@@ -26,8 +26,7 @@ import jalview.gui.Desktop;
 import jalview.gui.JvSwingUtils;
 import jalview.util.MessageManager;
 import jalview.ws.api.ServiceWithParameters;
-import jalview.ws.jws2.dm.AAConSettings;
-import jalview.ws.jws2.jabaws2.Jws2Instance;
+import jalview.ws.params.AutoCalcSetting;
 import jalview.ws.params.WsParamSetI;
 import jalview.ws.uimodel.AlignAnalysisUIText;
 
@@ -52,7 +51,7 @@ public class SequenceAnnotationWSClient extends Jws2Client
     // TODO Auto-generated constructor stub
   }
 
-  public SequenceAnnotationWSClient(final Jws2Instance sh,
+  public SequenceAnnotationWSClient(final ServiceWithParameters sh,
           AlignFrame alignFrame, WsParamSetI preset, boolean editParams)
   {
     super(alignFrame, preset, null);
@@ -62,7 +61,7 @@ public class SequenceAnnotationWSClient extends Jws2Client
   // dan think. Do I need to change this method to run RNAalifold through the
   // GUI
 
-  public void initSequenceAnnotationWSClient(final Jws2Instance sh,
+  public void initSequenceAnnotationWSClient(final ServiceWithParameters sh,
           AlignFrame alignFrame, WsParamSetI preset, boolean editParams)
   {
     // dan changed! dan test. comment out if conditional
@@ -83,9 +82,24 @@ public class SequenceAnnotationWSClient extends Jws2Client
       // columns
 
       List<AlignCalcWorkerI> clnts = alignFrame.getViewport()
-              .getCalcManager().getRegisteredWorkersOfClass(clientClass);
-      AbstractJabaCalcWorker worker;
-      if (clnts == null || clnts.size() == 0)
+              .getCalcManager()
+              .getRegisteredWorkersOfClass(SeqAnnotationServiceCalcWorker.class);
+
+      SeqAnnotationServiceCalcWorker worker = null;
+      if (clnts != null)
+      {
+        for (AlignCalcWorkerI _worker : clnts)
+        {
+          worker = (SeqAnnotationServiceCalcWorker) _worker;
+          if (worker.hasService()
+                  && worker.getService().getClass().equals(clientClass))
+          {
+            break;
+          }
+          worker = null;
+        }
+      }
+      if (worker == null)
       {
         if (!processParams(sh, editParams))
         {
@@ -93,12 +107,8 @@ public class SequenceAnnotationWSClient extends Jws2Client
         }
         try
         {
-          worker = (AbstractJabaCalcWorker) (clientClass
-                  .getConstructor(new Class[]
-                  { Jws2Instance.class, AlignFrame.class, WsParamSetI.class,
-                      List.class })
-                  .newInstance(new Object[]
-                  { sh, alignFrame, this.preset, paramset }));
+          worker = new SeqAnnotationServiceCalcWorker(sh, alignFrame, this.preset,
+                  paramset);
         } catch (Exception x)
         {
           x.printStackTrace();
@@ -112,7 +122,6 @@ public class SequenceAnnotationWSClient extends Jws2Client
       }
       else
       {
-        worker = (AbstractJabaCalcWorker) clnts.get(0);
         if (editParams)
         {
           paramset = worker.getArguments();
@@ -129,7 +138,7 @@ public class SequenceAnnotationWSClient extends Jws2Client
         worker.updateParameters(this.preset, paramset);
       }
     }
-    if (sh.getAction().toLowerCase().contains("disorder"))
+    if (!sh.isInteractiveUpdate())
     {
       // build IUPred style client. take sequences, returns annotation per
       // sequence.
@@ -139,11 +148,11 @@ public class SequenceAnnotationWSClient extends Jws2Client
       }
 
       alignFrame.getViewport().getCalcManager().startWorker(
-              new AADisorderClient(sh, alignFrame, preset, paramset));
+              new SeqAnnotationServiceCalcWorker(sh, alignFrame, preset, paramset));
     }
   }
 
-  public SequenceAnnotationWSClient(AAConSettings fave,
+  public SequenceAnnotationWSClient(AutoCalcSetting fave,
           AlignFrame alignFrame, boolean b)
   {
     super(alignFrame, fave.getPreset(), fave.getArgumentSet());
@@ -162,15 +171,19 @@ public class SequenceAnnotationWSClient extends Jws2Client
           final ServiceWithParameters service,
           final AlignFrame alignFrame)
   {
-    if (registerAAConWSInstance(wsmenu, service, alignFrame))
+    if (Jws2ClientFactory.registerAAConWSInstance(wsmenu,
+            service, alignFrame))
     {
       // Alignment dependent analysis calculation WS gui
       return;
     }
     boolean hasparams = service.hasParameters();
-    // Assume name ends in WS
-    String calcName = service.getName().substring(0,
-            service.getName().length() - 2);
+    String calcName = service.getName();
+    if (calcName.endsWith("WS"))
+    {
+      // Remove "WS" suffix
+      calcName = calcName.substring(0, calcName.length() - 2);
+    }
 
     JMenuItem annotservice = new JMenuItem(MessageManager.formatMessage(
             "label.calcname_with_default_settings", new String[]
@@ -181,7 +194,7 @@ public class SequenceAnnotationWSClient extends Jws2Client
       @Override
       public void actionPerformed(ActionEvent e)
       {
-        new SequenceAnnotationWSClient((Jws2Instance) service, alignFrame,
+        new SequenceAnnotationWSClient(service, alignFrame,
                 null, false);
       }
     });
@@ -200,7 +213,7 @@ public class SequenceAnnotationWSClient extends Jws2Client
         @Override
         public void actionPerformed(ActionEvent e)
         {
-          new SequenceAnnotationWSClient((Jws2Instance) service, alignFrame,
+          new SequenceAnnotationWSClient(service, alignFrame,
                   null, true);
         }
       });
@@ -226,7 +239,7 @@ public class SequenceAnnotationWSClient extends Jws2Client
             @Override
             public void actionPerformed(ActionEvent e)
             {
-              new SequenceAnnotationWSClient((Jws2Instance) service,
+              new SequenceAnnotationWSClient(service,
                       alignFrame, preset,
                       false);
             }