From b380ac1e542a7b3ad9d39df2b1b4a31ef8e7000d Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Fri, 9 Jun 2006 16:37:51 +0000
Subject: [PATCH] Retrieve multiple EMBL ids

---
 src/jalview/gui/SequenceFetcher.java |   32 +++++++++++++++++++++-----------
 1 file changed, 21 insertions(+), 11 deletions(-)

diff --git a/src/jalview/gui/SequenceFetcher.java b/src/jalview/gui/SequenceFetcher.java
index e2b5730..f973fbb 100755
--- a/src/jalview/gui/SequenceFetcher.java
+++ b/src/jalview/gui/SequenceFetcher.java
@@ -119,8 +119,8 @@ public class SequenceFetcher
                                               new Insets(0, 4, 0, 0), 1, 0));
     this.add(textfield, new GridBagConstraints(1, 1, 1, 1, 1.0, 0.0
                                                , GridBagConstraints.CENTER,
-                                               GridBagConstraints.HORIZONTAL,
-                                               new Insets(0, 0, 0, 6), 200, 1));
+                                               GridBagConstraints.NONE,
+                                               new Insets(0, 0, 0, 6), 211, 1));
   }
 
   JComboBox database = new JComboBox();
@@ -183,16 +183,26 @@ public class SequenceFetcher
     else if (database.getSelectedItem().equals("EMBL")
              || database.getSelectedItem().equals("EMBLCDS"))
     {
-      EBIFetchClient dbFetch = new EBIFetchClient();
-      String[] reply = dbFetch.fetchData(
-          database.getSelectedItem().toString().toLowerCase(
-          ) + ":" + textfield.getText(),
-          "fasta", "raw");
+      StringTokenizer st = new StringTokenizer(textfield.getText(), ";");
+      while(st.hasMoreTokens())
+      {
+        EBIFetchClient dbFetch = new EBIFetchClient();
+
+        String[] reply = dbFetch.fetchData(
+            database.getSelectedItem().toString().toLowerCase(
+            ) + ":" + st.nextToken(),
+            "fasta", "raw");
+//
+        if (reply != null)
+        {
+          for (int i = 0; i < reply.length; i++)
+            result.append(reply[i] + "\n");
+        }
+      }
 
-      if(reply!=null)
+      if(result!=null)
       {
-        for (int i = 0; i < reply.length; i++)
-          result.append(reply[i] + "\n");
+        System.out.println(result.toString());
 
         parseResult(result.toString(), null);
       }
@@ -239,7 +249,7 @@ public class SequenceFetcher
   {
     EBIFetchClient ebi = new EBIFetchClient();
     File file = ebi.fetchDataAsFile("uniprot:" + id, "xml", null);
-   // File file = new File("H:/jalview/classes/fer1.xml");
+
     SequenceFeatureFetcher sff = new SequenceFeatureFetcher();
     Vector entries = sff.getUniprotEntries(file);
 
-- 
1.7.10.2