JAL-2418 source formatting

[jalview.git] / src / jalview / datamodel / xdb / embl / EmblFile.java

diff --git a/src/jalview/datamodel/xdb/embl/EmblFile.java b/src/jalview/datamodel/xdb/embl/EmblFile.java
index 87b3079..8a32c13 100644 (file)
--- a/src/jalview/datamodel/xdb/embl/EmblFile.java
+++ b/src/jalview/datamodel/xdb/embl/EmblFile.java
@@ -1,6 +1,6 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2)
- * Copyright (C) 2015 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -46,6 +46,8 @@ public class EmblFile
 
   Vector<EmblError> errors;
 
+  String text;
+
   /**
    * @return the entries
    */
@@ -119,8 +121,9 @@ public class EmblFile
       try
       {
         // uncomment to DEBUG EMBLFile reading
-        if (jalview.bin.Cache.getDefault(jalview.bin.Cache.CASTORLOGLEVEL,
-                "debug").equalsIgnoreCase("DEBUG"))
+        if (jalview.bin.Cache
+                .getDefault(jalview.bin.Cache.CASTORLOGLEVEL, "debug")
+                .equalsIgnoreCase("DEBUG"))
         {
           unmar.setDebug(jalview.bin.Cache.log.isDebugEnabled());
         }
@@ -152,6 +155,10 @@ public class EmblFile
    */
   static void canonicaliseDbRefs(EmblFile record)
   {
+    if (record.getEntries() == null)
+    {
+      return;
+    }
     for (EmblEntry entry : record.getEntries())
     {
       if (entry.getDbRefs() != null)
@@ -183,4 +190,14 @@ public class EmblFile
       }
     }
   }
+
+  public String getText()
+  {
+    return text;
+  }
+
+  public void setText(String text)
+  {
+    this.text = text;
+  }
 }