From: amwaterhouse <Andrew Waterhouse>
Date: Thu, 16 Jun 2005 09:48:26 +0000 (+0000)
Subject: dont convert to uppercase
X-Git-Tag: Release_2_0~17
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=b1df279000fab2124eddd800faed12e193dab7d1;p=jalview.git

dont convert to uppercase
---

diff --git a/src/jalview/io/FastaFile.java b/src/jalview/io/FastaFile.java
index adfa967..458465e 100755
--- a/src/jalview/io/FastaFile.java
+++ b/src/jalview/io/FastaFile.java
@@ -43,7 +43,6 @@ public class FastaFile extends AlignFile {
         String id = "";
         StringBuffer seq = new StringBuffer();
         int count = 0;
-        boolean flag = false;
 
         int sstart = 0;
         int send = 0;
@@ -60,10 +59,10 @@ public class FastaFile extends AlignFile {
                     if (count != 0) {
                         if (sstart != 0) {
                             seqs.addElement(new Sequence(id,
-                                    seq.toString().toUpperCase(), sstart, send));
+                                    seq.toString(), sstart, send));
                         } else {
                             seqs.addElement(new Sequence(id,
-                                    seq.toString().toUpperCase(), 1,
+                                    seq.toString(), 1,
                                     seq.length()));
                         }
                     }