JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensing glob

[jalview.git] / src / jalview / ws / seqfetcher / ASequenceFetcher.java

diff --git a/src/jalview/ws/seqfetcher/ASequenceFetcher.java b/src/jalview/ws/seqfetcher/ASequenceFetcher.java
index ba7e062..4dcc657 100644 (file)
--- a/src/jalview/ws/seqfetcher/ASequenceFetcher.java
+++ b/src/jalview/ws/seqfetcher/ASequenceFetcher.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.
  * 
@@ -58,7 +58,9 @@ public class ASequenceFetcher
   public String[] getSupportedDb()
   {
     if (FETCHABLEDBS == null)
+    {
       return null;
+    }
     String[] sf = new String[FETCHABLEDBS.size()];
     Enumeration e = FETCHABLEDBS.keys();
     int i = 0;
@@ -77,7 +79,9 @@ public class ASequenceFetcher
     {
       String db = (String) e.nextElement();
       if (source.compareToIgnoreCase(db) == 0)
+      {
         return true;
+      }
     }
     jalview.bin.Cache.log.warn("isFetchable doesn't know about '" + source
             + "'");
@@ -198,7 +202,9 @@ public class ASequenceFetcher
                    */
                   System.out.println(hdr);
                   if (rrb != null)
+                  {
                     System.out.println(rrb);
+                  }
                   System.out.println("# end of " + hdr);
                 }
 
@@ -303,31 +309,26 @@ public class ASequenceFetcher
    * @param dbSourceProxy
    *          reference for class implementing
    *          jalview.ws.seqfetcher.DbSourceProxy
-   * @throws java.lang.IllegalArgumentException
-   *           if class does not implement jalview.ws.seqfetcher.DbSourceProxy
    */
-  protected void addDBRefSourceImpl(Class dbSourceProxy)
+  protected void addDBRefSourceImpl(
+          Class<? extends DbSourceProxy> dbSourceProxy)
           throws java.lang.IllegalArgumentException
   {
     DbSourceProxy proxy = null;
     try
     {
-      Object proxyObj = dbSourceProxy.getConstructor(null)
-              .newInstance(null);
-      if (!DbSourceProxy.class.isInstance(proxyObj))
-      {
-        throw new IllegalArgumentException(
-                dbSourceProxy.toString()
-                        + " does not implement the jalview.ws.seqfetcher.DbSourceProxy");
-      }
-      proxy = (DbSourceProxy) proxyObj;
+      DbSourceProxy proxyObj = dbSourceProxy.getConstructor().newInstance();
+      proxy = proxyObj;
     } catch (IllegalArgumentException e)
     {
       throw e;
     } catch (Exception e)
     {
       // Serious problems if this happens.
-      throw new Error(MessageManager.getString("error.dbrefsource_implementation_exception"), e);
+      throw new Error(
+              MessageManager
+                      .getString("error.dbrefsource_implementation_exception"),
+              e);
     }
     addDbRefSourceImpl(proxy);
   }
@@ -395,7 +396,11 @@ public class ASequenceFetcher
   {
     if (!jalview.ws.seqfetcher.DbSourceProxy.class.isAssignableFrom(class1))
     {
-      throw new Error(MessageManager.formatMessage("error.implementation_error_dbinstance_must_implement_interface", new String[]{class1.toString()}));
+      throw new Error(
+              MessageManager
+                      .formatMessage(
+                              "error.implementation_error_dbinstance_must_implement_interface",
+                              new String[] { class1.toString() }));
     }
     if (FETCHABLEDBS == null)
     {
@@ -426,6 +431,7 @@ public class ASequenceFetcher
   {
     ArrayList<DbSourceProxy> prlist = new ArrayList<DbSourceProxy>();
     for (String fetchable : getSupportedDb())
+    {
       for (DbSourceProxy pr : getSourceProxy(fetchable))
       {
         if (class1.isInstance(pr))
@@ -433,6 +439,7 @@ public class ASequenceFetcher
           prlist.add(pr);
         }
       }
+    }
     if (prlist.size() == 0)
     {
       return null;