From 800fc039d773d97f2cdcf10aab87ab9189a9cd0f Mon Sep 17 00:00:00 2001
From: jprocter <Jim Procter>
Date: Fri, 27 May 2005 15:02:18 +0000
Subject: [PATCH] better recognition of MSF files.

---
 src/jalview/io/IdentifyFile.java |    5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

diff --git a/src/jalview/io/IdentifyFile.java b/src/jalview/io/IdentifyFile.java
index eebde9b..3dd95b6 100755
--- a/src/jalview/io/IdentifyFile.java
+++ b/src/jalview/io/IdentifyFile.java
@@ -46,8 +46,9 @@ public class IdentifyFile
           reply = "PileUp";
           break;
         }
-        if((data.indexOf("!!")>-1)
-           && (data.indexOf("!!")<data.indexOf("_MULTIPLE_ALIGNMENT ")))
+        if((data.indexOf("//")==0)
+           || ((data.indexOf("!!")>-1)
+           && (data.indexOf("!!")<data.indexOf("_MULTIPLE_ALIGNMENT "))))
         {
           reply = "MSF";
           break;
-- 
1.7.10.2