From fcf8cff64aef84ad7d18fd5d800e5b03593a7d72 Mon Sep 17 00:00:00 2001
From: ebanks <ebanks@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Mon, 2 May 2011 19:03:46 +0000
Subject: [PATCH] We didn't actually support all of these extensions.  Updated
 to be accurate.

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5722 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../sting/gatk/datasources/reference/ReferenceDataSource.java   | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/datasources/reference/ReferenceDataSource.java b/java/src/org/broadinstitute/sting/gatk/datasources/reference/ReferenceDataSource.java
index bba5227ad..75357124e 100644
--- a/java/src/org/broadinstitute/sting/gatk/datasources/reference/ReferenceDataSource.java
+++ b/java/src/org/broadinstitute/sting/gatk/datasources/reference/ReferenceDataSource.java
@@ -181,7 +181,7 @@ public class ReferenceDataSource implements ReferenceDataSourceProgressListener
             index = new CachingIndexedFastaSequenceFile(fastaFile);
 
         } catch (IllegalArgumentException e) {
-            throw new UserException.CouldNotReadInputFile(fastaFile, "Could not read reference sequence.  The FASTA must have one of the following extensions: " + ReferenceSequenceFileFactory.FASTA_EXTENSIONS.toString(), e);
+            throw new UserException.CouldNotReadInputFile(fastaFile, "Could not read reference sequence.  The FASTA must have either a .fasta or .fa extension", e);
         }
         catch (Exception e) {
             throw new UserException.CouldNotReadInputFile(fastaFile, e);