X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FAnnotationReader.java;h=4325dae83149061842fcd5996ad870dfaa386c4b;hb=9807ea8cc4e867378c52d51b832168d4bc611d29;hp=958aa653650a7e349264f8863a028d04c7ea1607;hpb=2e4078eeb9bc67e7a1d9c6bf9eae4432e08ec222;p=jalview.git

diff --git a/src/jalview/io/AnnotationReader.java b/src/jalview/io/AnnotationReader.java
index 958aa65..4325dae 100755
--- a/src/jalview/io/AnnotationReader.java
+++ b/src/jalview/io/AnnotationReader.java
@@ -13,18 +13,25 @@ public class AnnotationReader
 
     try
     {
-
       BufferedReader in = null;
-      try{
-        URL url = new URL(file);
-        in = new BufferedReader(new InputStreamReader(url.openStream()));
+      java.io.InputStream is = getClass().getResourceAsStream("/" + file);
+      if (is != null)
+      {
+        in = new BufferedReader(new java.io.InputStreamReader(is));
       }
-      catch(java.net.MalformedURLException ex)
+      else
       {
-        in = new BufferedReader(new FileReader(file));
+        try
+        {
+          URL url = new URL(file);
+          in = new BufferedReader(new InputStreamReader(url.openStream()));
+        }
+        catch (java.net.MalformedURLException ex)
+        {
+          in = new BufferedReader(new FileReader(file));
+        }
       }
 
-
       String line, label, description, token;
       int graphStyle, index;
       SequenceI refSeq = null;