X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Futil%2FGroupUrlLink.java;h=e2e83a4d672caf531f60306603e1a888137263df;hb=4d7f98a6dd54d9863ba449ec79dcd95d25ed863d;hp=4900fc8fca3a2c625d61506c8438d825d7c30390;hpb=619cc880371f3228e6a1fb33c6bfb6e7a7e2622c;p=jalview.git

diff --git a/src/jalview/util/GroupUrlLink.java b/src/jalview/util/GroupUrlLink.java
index 4900fc8..e2e83a4 100644
--- a/src/jalview/util/GroupUrlLink.java
+++ b/src/jalview/util/GroupUrlLink.java
@@ -24,7 +24,6 @@ import jalview.datamodel.Sequence;
 import jalview.datamodel.SequenceI;
 
 import java.util.Hashtable;
-import java.util.Vector;
 
 public class GroupUrlLink
 {
@@ -83,8 +82,7 @@ public class GroupUrlLink
   {
     if (tokens == null)
     {
-      tokens = new String[]
-      { "SEQUENCEIDS", "SEQUENCES", "DATASETID" };
+      tokens = new String[] { "SEQUENCEIDS", "SEQUENCES", "DATASETID" };
     }
   }
 
@@ -392,11 +390,12 @@ public class GroupUrlLink
     Hashtable rstrings = new Hashtable();
     rstrings.put(tokens[0], idstrings);
     rstrings.put(tokens[1], seqstrings);
-    rstrings.put(tokens[2], new String[]
-    { dsstring });
+    rstrings.put(tokens[2], new String[] { dsstring });
     if (idstrings.length != seqstrings.length)
     {
-      throw new Error(MessageManager.getString("error.idstring_seqstrings_only_one_per_sequence"));
+      throw new Error(
+              MessageManager
+                      .getString("error.idstring_seqstrings_only_one_per_sequence"));
     }
     return rstrings;
   }
@@ -423,9 +422,8 @@ public class GroupUrlLink
     Object[] stubs = makeUrlsIf(false, rstrings, b);
     if (stubs != null)
     {
-      return new Object[]
-      { stubs[0], stubs[1], rstrings, new boolean[]
-      { b } };
+      return new Object[] { stubs[0], stubs[1], rstrings,
+          new boolean[] { b } };
     }
     // TODO Auto-generated method stub
     return null;
@@ -486,14 +484,19 @@ public class GroupUrlLink
         {
           if (maxs != idseq[i].length)
           {
-            throw new Error(MessageManager.formatMessage("error.cannot_have_mixed_length_replacement_vectors",
-            			new String[]{(mtch[i]), Integer.valueOf(idseq[i].length).toString(),Integer.valueOf(maxs).toString()}));
+            throw new Error(MessageManager.formatMessage(
+                    "error.cannot_have_mixed_length_replacement_vectors",
+                    new String[] { (mtch[i]),
+                        Integer.valueOf(idseq[i].length).toString(),
+                        Integer.valueOf(maxs).toString() }));
           }
         }
       }
       else
       {
-        throw new Error(MessageManager.getString("error.cannot_have_zero_length_vector_replacement_strings"));
+        throw new Error(
+                MessageManager
+                        .getString("error.cannot_have_zero_length_vector_replacement_strings"));
       }
     }
     // iterate through input, collating segments to be inserted into url
@@ -689,9 +692,7 @@ public class GroupUrlLink
     {
       // just return the essential info about what the URL would be generated
       // from
-      return new Object[]
-      { new int[]
-      { seqsmatched }, thismatched };
+      return new Object[] { new int[] { seqsmatched }, thismatched };
     }
     // otherwise, create the URL completely.
 
@@ -706,10 +707,8 @@ public class GroupUrlLink
       }
     }
 
-    return new Object[]
-    { new int[]
-    { seqsmatched }, thismatched, matched, new String[]
-    { submiturl.toString() } };
+    return new Object[] { new int[] { seqsmatched }, thismatched, matched,
+        new String[] { submiturl.toString() } };
   }
 
   /**
@@ -817,8 +816,7 @@ public class GroupUrlLink
   public static void main(String argv[])
   {
     // note - JAL-1383 - these services are all dead
-    String[] links = new String[]
-    {
+    String[] links = new String[] {
         "EnVision2|IDS|http://www.ebi.ac.uk/enfin-srv/envision2/pages/linkin.jsf?workflow=Enfin%20Default%20Workflow&datasetName=linkInDatasetFromJalview&input=$SEQUENCEIDS$&inputType=0|,",
         "EnVision2|Seqs|http://www.ebi.ac.uk/enfin-srv/envision2/pages/linkin.jsf?workflow=Enfin%20Default%20Workflow&datasetName=linkInDatasetFromJalview&input=$SEQUENCES$&inputType=1|,",
         "EnVision2|IDS|http://www.ebi.ac.uk/enfin-srv/envision2/pages/linkin.jsf?workflow=Enfin%20Default%20Workflow&datasetName=$DATASETID$&input=$SEQUENCEIDS$&inputType=0|,",
@@ -834,8 +832,8 @@ public class GroupUrlLink
      */
     };
 
-    SequenceI[] seqs = new SequenceI[]
-    { new Sequence("StupidLabel:gi|9234|pdb|102L|A",
+    SequenceI[] seqs = new SequenceI[] { new Sequence(
+            "StupidLabel:gi|9234|pdb|102L|A",
             "asdiasdpasdpadpwpadasdpaspdw"), };
     String[][] seqsandids = formStrings(seqs);
     for (int i = 0; i < links.length; i++)