jalview 2.5 release banner

[jalview.git] / src / jalview / ws / JPredClient.java

diff --git a/src/jalview/ws/JPredClient.java b/src/jalview/ws/JPredClient.java
index 0e33e02..bb691dc 100755 (executable)
--- a/src/jalview/ws/JPredClient.java
+++ b/src/jalview/ws/JPredClient.java
@@ -1,20 +1,19 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Development Version 2.4.1)
- * Copyright (C) 2009 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
+ * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
  * 
- * This program 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 2
- * of the License, or (at your option) any later version.
+ * This file is part of Jalview.
  * 
- * This program 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.
+ * 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.
  * 
- * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
+ * 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/>.
  */
 package jalview.ws;
 
@@ -36,15 +35,15 @@ public class JPredClient extends WSClient
    * crate a new GUI JPred Job
    * 
    * @param sh
-   *                ServiceHandle
+   *          ServiceHandle
    * @param title
-   *                String
+   *          String
    * @param msa
-   *                boolean - true - submit alignment as a sequence profile
+   *          boolean - true - submit alignment as a sequence profile
    * @param alview
-   *                AlignmentView
+   *          AlignmentView
    * @param viewonly
-   *                TODO
+   *          TODO
    */
   public JPredClient(ext.vamsas.ServiceHandle sh, String title,
           boolean msa, AlignmentView alview, AlignFrame parentFrame,
@@ -66,14 +65,14 @@ public class JPredClient extends WSClient
    * and short seqs)
    * 
    * @param title
-   *                String
+   *          String
    * @param msa
-   *                boolean
+   *          boolean
    * @param alview
-   *                AlignmentView
+   *          AlignmentView
    * @param viewonly
-   *                if true then the prediction will be made just on the
-   *                concatenated visible regions
+   *          if true then the prediction will be made just on the concatenated
+   *          visible regions
    */
   private void startJPredClient(String title, boolean msa,
           jalview.datamodel.AlignmentView alview, AlignFrame parentFrame,
@@ -337,7 +336,7 @@ public class JPredClient extends WSClient
     try
     {
       server = loc.getjpred(new java.net.URL(WsURL)); // JBPNote will be set
-                                                      // from properties
+      // from properties
       ((JpredSoapBindingStub) server).setTimeout(60000); // one minute stub
       // ((JpredSoapBindingStub)this.server)._setProperty(org.apache.axis.encoding.C,
       // Boolean.TRUE);