Jalview 2.8 Source Header

[jalview.git] / src / jalview / ws / jws2 / ParameterUtils.java

diff --git a/src/jalview/ws/jws2/ParameterUtils.java b/src/jalview/ws/jws2/ParameterUtils.java
index f66027d..80d71b5 100644 (file)
--- a/src/jalview/ws/jws2/ParameterUtils.java
+++ b/src/jalview/ws/jws2/ParameterUtils.java
@@ -1,13 +1,13 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, 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 
@@ -28,15 +28,17 @@ import compbio.metadata.*;
 
 public class ParameterUtils
 {
-  public static List<String> writeParameterSet(List<Option> optSet, String pseparator)
+  public static List<String> writeParameterSet(List<Option> optSet,
+          String pseparator)
   {
     List<String> pset = new ArrayList<String>();
-    for (Option o:optSet)
+    for (Option o : optSet)
     {
       pset.add(o.toCommand(pseparator));
     }
     return pset;
   }
+
   /**
    * Converts options supplied via parameters file into {@code Option} objects
    * (Refactored from compbio.ws.client.Jws2Client)
@@ -48,11 +50,11 @@ public class ParameterUtils
    * @return List of Options of type T
    * 
    */
-/*  @SuppressWarnings(value =
-  { "true" })
-  public static <T> List<Option<T>> processParameters(List<String> params,
-          RunnerConfig<T> options, String pseparator)
-  */
+  /*
+   * @SuppressWarnings(value = { "true" }) public static <T> List<Option<T>>
+   * processParameters(List<String> params, RunnerConfig<T> options, String
+   * pseparator)
+   */
   public static List<Option> processParameters(List<String> params,
           RunnerConfig options, String pseparator)
   {
@@ -85,7 +87,8 @@ public class ParameterUtils
       {
         try
         {
-          o.setDefaultValue(isParameter(param, pseparator) ? getParamValue(param, pseparator) : param);
+          o.setDefaultValue(isParameter(param, pseparator) ? getParamValue(
+                  param, pseparator) : param);
         } catch (WrongParameterException e)
         {
           System.out.println("Problem setting value for the parameter: "
@@ -97,7 +100,6 @@ public class ParameterUtils
     }
     return chosenOptions;
   }
-  
 
   static String getParamName(String fullName, String pseparator)
   {