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

diff --git a/src/jalview/ws/SeqSearchWSClient.java b/src/jalview/ws/SeqSearchWSClient.java
index 31fbe85..2e246ab 100644 (file)
--- a/src/jalview/ws/SeqSearchWSClient.java
+++ b/src/jalview/ws/SeqSearchWSClient.java
@@ -1,20 +1,19 @@
 /*\r
- * Jalview - A Sequence Alignment Editor and Viewer (Development Version 2.4.1)\r
- * Copyright (C) 2009 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)\r
+ * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle\r
  * \r
- * This program is free software; you can redistribute it and/or\r
- * modify it under the terms of the GNU General Public License\r
- * as published by the Free Software Foundation; either version 2\r
- * of the License, or (at your option) any later version.\r
+ * This file is part of Jalview.\r
  * \r
- * This program is distributed in the hope that it will be useful,\r
- * but WITHOUT ANY WARRANTY; without even the implied warranty of\r
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the\r
- * GNU General Public License for more details.\r
+ * Jalview is free software: you can redistribute it and/or\r
+ * modify it under the terms of the GNU General Public License \r
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.\r
  * \r
- * You should have received a copy of the GNU General Public License\r
- * along with this program; if not, write to the Free Software\r
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA\r
+ * Jalview is distributed in the hope that it will be useful, but \r
+ * WITHOUT ANY WARRANTY; without even the implied warranty \r
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR \r
+ * PURPOSE.  See the GNU General Public License for more details.\r
+ * \r
+ * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.\r
  */\r
 package jalview.ws;\r
 \r
@@ -52,15 +51,15 @@ public class SeqSearchWSClient extends WSClient
    * retrieved ServiceHandle\r
    * \r
    * @param sh\r
-   *                service handle of type AbstractName(MsaWS)\r
+   *          service handle of type AbstractName(MsaWS)\r
    * @param altitle\r
-   *                DOCUMENT ME!\r
+   *          DOCUMENT ME!\r
    * @param msa\r
-   *                DOCUMENT ME!\r
+   *          DOCUMENT ME!\r
    * @param submitGaps\r
-   *                DOCUMENT ME!\r
+   *          DOCUMENT ME!\r
    * @param preserveOrder\r
-   *                DOCUMENT ME!\r
+   *          DOCUMENT ME!\r
    */\r
 \r
   public SeqSearchWSClient(ext.vamsas.ServiceHandle sh, String altitle,\r
@@ -120,8 +119,8 @@ public class SeqSearchWSClient extends WSClient
       return;\r
     }\r
     String visdb = (db == null || db == "") ? "default" : db; // need a visible\r
-                                                              // name for a\r
-                                                              // sequence db\r
+    // name for a\r
+    // sequence db\r
     boolean profileSearch = msa.getSequences().length > 2 ? true : false;\r
     // single sequence or profile from alignment view\r
     wsInfo.setProgressText("Searching "\r
@@ -161,8 +160,8 @@ public class SeqSearchWSClient extends WSClient
       this.server = (SeqSearchI) loc.getSeqSearchService(new java.net.URL(\r
               WsURL));\r
       ((SeqSearchServiceSoapBindingStub) this.server).setTimeout(60000); // One\r
-                                                                          // minute\r
-                                                                          // timeout\r
+      // minute\r
+      // timeout\r
     } catch (Exception ex)\r
     {\r
       wsInfo.setProgressText("Serious! " + WebServiceName\r