X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fbin%2FJalview.java;h=df9501df17baff43e54350562dbb32bf1163ed53;hb=8eb35a7bab22595255245c5136dd780816b98f26;hp=362b15eb1fb880171a91d11df281be28c544bd5f;hpb=c9f21b2f940ed83ee018f7651302e7d3cea489c5;p=jalview.git

diff --git a/src/jalview/bin/Jalview.java b/src/jalview/bin/Jalview.java
index 362b15e..df9501d 100755
--- a/src/jalview/bin/Jalview.java
+++ b/src/jalview/bin/Jalview.java
@@ -1,13 +1,13 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
- * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
+ * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
  * 
  * 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 
@@ -17,6 +17,10 @@
  */
 package jalview.bin;
 
+import java.awt.FlowLayout;
+import java.awt.Frame;
+import java.awt.event.ActionEvent;
+import java.awt.event.ActionListener;
 import java.io.BufferedReader;
 import java.io.File;
 import java.io.FileOutputStream;
@@ -24,7 +28,6 @@ import java.io.IOException;
 import java.io.OutputStreamWriter;
 import java.io.PrintWriter;
 import java.lang.reflect.Constructor;
-import java.net.MalformedURLException;
 import java.net.URI;
 import java.net.URL;
 import java.net.URLDecoder;
@@ -67,6 +70,11 @@ public class Jalview
       }
     });
   }
+  /**
+   * Put protein=true for get a protein example
+   */
+  private static boolean protein=false;
+
 
   /**
    * main class for Jalview application
@@ -157,7 +165,7 @@ public class Jalview
     {
       headless = true;
     }
-
+    System.setProperty("http.agent", "Jalview Desktop/"+Cache.getDefault("VERSION", "Unknown"));
     try
     {
       Cache.initLogger();
@@ -216,6 +224,7 @@ public class Jalview
           }
         }
       }
+      desktop.checkForNews();
     }
 
     String file = null, protocol = null, format = null, data = null;
@@ -515,8 +524,15 @@ public class Jalview
     // We'll only open the default file if the desktop is visible.
     // And the user
     // ////////////////////
+  
+
+ 
+    
+    
+
+    
     if (!headless && file == null && vamsasImport == null
-            && jalview.bin.Cache.getDefault("SHOW_STARTUP_FILE", true))
+            && jalview.bin.Cache.getDefault("SHOW_STARTUP_FILE", true) && protein == true)
     {
       file = jalview.bin.Cache.getDefault(
               "STARTUP_FILE",
@@ -589,7 +605,8 @@ public class Jalview
       desktop.setInBatchMode(false);
     }
   }
-
+  
+  
   private static void startUsageStats(final Desktop desktop)
   {
     /**
@@ -901,6 +918,21 @@ public class Jalview
  * @author Andrew Waterhouse and JBP documented.
  * 
  */
+
+class rnabuttonlistener  implements ActionListener{
+	  public void actionPerformed(ActionEvent arg0) {
+		  System.out.println("Good idea ! ");
+
+	  }
+}
+
+class pbuttonlistener  implements ActionListener{
+	  public void actionPerformed(ActionEvent arg0) {
+		
+    	  
+	  }
+}
+
 class ArgsParser
 {
   Vector vargs = null;
@@ -1039,4 +1071,7 @@ class FeatureFetcher
   {
     return queued == 0 && running == 0;
   }
+  
+  
+  
 };