X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fjws2%2Fjabaws2%2FJws2InstanceFactory.java;h=623b8de184e0021a3a4120abf4595fc47039974b;hb=aab74f8748bf49bf6b17ba82f0bc5644d4dc2853;hp=3923bba62e0d7b0755770ccbfd72a2a0f7968a93;hpb=6c54f6a2f72b57aa1f803d68241549e050ae68e8;p=jalview.git

diff --git a/src/jalview/ws/jws2/jabaws2/Jws2InstanceFactory.java b/src/jalview/ws/jws2/jabaws2/Jws2InstanceFactory.java
index 3923bba..623b8de 100644
--- a/src/jalview/ws/jws2/jabaws2/Jws2InstanceFactory.java
+++ b/src/jalview/ws/jws2/jabaws2/Jws2InstanceFactory.java
@@ -1,17 +1,47 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
 package jalview.ws.jws2.jabaws2;
 
-import java.util.HashMap;
-
-import compbio.data.msa.JABAService;
-
 import jalview.ws.jws2.AAConClient;
 import jalview.ws.jws2.RNAalifoldClient;
 import jalview.ws.uimodel.AlignAnalysisUIText;
 
+import java.util.HashMap;
+import java.util.HashSet;
+
+import compbio.data.msa.JABAService;
+
 public class Jws2InstanceFactory
 {
   private static HashMap<String, AlignAnalysisUIText> aaConGUI;
 
+  private static HashSet<String> ignoreGUI;
+
+  private static String category_rewrite(String cat_name)
+  {
+    return (cat_name != null && cat_name.equals("Prediction"))
+            ? "Secondary Structure Prediction"
+            : cat_name;
+  }
+
   private static void init()
   {
     if (aaConGUI == null)
@@ -21,10 +51,25 @@ public class Jws2InstanceFactory
               AAConClient.getAlignAnalysisUITest());
       aaConGUI.put(compbio.ws.client.Services.RNAalifoldWS.toString(),
               RNAalifoldClient.getAlignAnalysisUITest());
+      // ignore list for JABAWS services not supported in jalview ...
+      ignoreGUI = new HashSet<String>();
     }
   }
 
   /**
+   * exclusion list to avoid creating GUI elements for services we don't fully
+   * support
+   * 
+   * @param serviceType
+   * @return
+   */
+  public static boolean ignoreService(String serviceType)
+  {
+    init();
+    return (ignoreGUI.contains(serviceType.toString()));
+  }
+
+  /**
    * construct a service instance and configure it with any additional
    * properties needed so Jalview can access it correctly
    * 
@@ -40,9 +85,8 @@ public class Jws2InstanceFactory
           JABAService service)
   {
     init();
-    Jws2Instance svc = new Jws2Instance(jwsservers, serviceType, name,
-            description, service);
-    
+    Jws2Instance svc = new Jws2Instance(jwsservers, serviceType,
+            category_rewrite(name), description, service);
     svc.aaui = aaConGUI.get(serviceType.toString());
     return svc;
   }