From: Jim Procter <jprocter@dundee.ac.uk>
Date: Sun, 23 Nov 2014 16:31:26 +0000 (+0000)
Subject: JAL-1569 formatting
X-Git-Tag: Jalview_2_9~148^2~8
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=464f98709ffcb68683bff35d7a0e4cdc99fc5daf;hp=77924f33d569a50bf5229b5ecc6504dbe823a9fa;p=jalview.git

JAL-1569 formatting
---

diff --git a/src/jalview/io/StockholmFile.java b/src/jalview/io/StockholmFile.java
index c546930..85f9455 100644
--- a/src/jalview/io/StockholmFile.java
+++ b/src/jalview/io/StockholmFile.java
@@ -199,7 +199,9 @@ public class StockholmFile extends AlignFile
     r = new Regex("# STOCKHOLM ([\\d\\.]+)");
     if (!r.search(nextLine()))
     {
-      throw new IOException(MessageManager.getString("exception.stockholm_invalid_format"));
+      throw new IOException(
+              MessageManager
+                      .getString("exception.stockholm_invalid_format"));
     }
     else
     {
@@ -417,9 +419,11 @@ public class StockholmFile extends AlignFile
         if (!x.search(line))
         {
           // logger.error("Could not parse sequence line: " + line);
-          throw new IOException(MessageManager.formatMessage("exception.couldnt_parse_sequence_line", new String[]{line}));
+          throw new IOException(MessageManager.formatMessage(
+                  "exception.couldnt_parse_sequence_line", new String[]
+                  { line }));
         }
-        String ns = (String) seqs.get(x.stringMatched(1));
+        String ns = seqs.get(x.stringMatched(1));
         if (ns == null)
         {
           ns = "";
@@ -529,7 +533,9 @@ public class StockholmFile extends AlignFile
           }
           else
           {
-            throw new IOException(MessageManager.formatMessage("exception.error_parsing_line", new String[]{line}));
+            throw new IOException(MessageManager.formatMessage(
+                    "exception.error_parsing_line", new String[]
+                    { line }));
           }
         }
         else if (annType.equals("GC"))
@@ -658,7 +664,9 @@ public class StockholmFile extends AlignFile
         }
         else
         {
-          throw new IOException(MessageManager.formatMessage("exception.unknown_annotation_detected", new String[]{annType,annContent}));
+          throw new IOException(MessageManager.formatMessage(
+                  "exception.unknown_annotation_detected", new String[]
+                  { annType, annContent }));
         }
       }
     }