From 9f982f18f80a75d1be6f6c002c8ba81ff8a00a0a Mon Sep 17 00:00:00 2001
From: jprocter <Jim Procter>
Date: Fri, 19 Dec 2008 15:34:58 +0000
Subject: [PATCH] wsdbfetch parameter change again (uniprotkb is dbname for
 uniprot)

---
 src/jalview/ws/dbsources/Uniprot.java |    4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/src/jalview/ws/dbsources/Uniprot.java b/src/jalview/ws/dbsources/Uniprot.java
index f7773d8..814c534 100644
--- a/src/jalview/ws/dbsources/Uniprot.java
+++ b/src/jalview/ws/dbsources/Uniprot.java
@@ -138,11 +138,13 @@ public class Uniprot extends DbSourceProxyImpl implements DbSourceProxy
     startQuery();
     try
     {
+      queries = queries.toUpperCase().replaceAll("(UNIPROT\\|?|UNIPROT_|UNIREF\\d+_|UNIREF\\d+\\|?)","");
       Alignment al = null;
       ebi = new EBIFetchClient();
       StringBuffer result = new StringBuffer();
       // uniprotxml parameter required since december 2007
-      File file = ebi.fetchDataAsFile("uniprot:" + queries, "uniprotxml",
+      // uniprotkb dbname changed introduced december 2008
+      File file = ebi.fetchDataAsFile("uniprotkb:" + queries, "uniprotxml",
               null);
       Vector entries = getUniprotEntries(file);
 
-- 
1.7.10.2