Enable lower case colours

[jalview.git] / src / jalview / gui / SequenceFetcher.java

diff --git a/src/jalview/gui/SequenceFetcher.java b/src/jalview/gui/SequenceFetcher.java
index f3d8e29..2beb3d9 100755 (executable)
--- a/src/jalview/gui/SequenceFetcher.java
+++ b/src/jalview/gui/SequenceFetcher.java
@@ -1,6 +1,6 @@
 /*\r
  * Jalview - A Sequence Alignment Editor and Viewer\r
- * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
+ * Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
  *\r
  * This program is free software; you can redistribute it and/or\r
  * modify it under the terms of the GNU General Public License\r
@@ -301,6 +301,17 @@ public class SequenceFetcher
           onlyPdbEntries.addElement(pdb);\r
         }\r
 \r
+        Enumeration en2 = entry.getAccession().elements();\r
+        while (en2.hasMoreElements())\r
+        {\r
+          sequence[i].getDatasetSequence().addDBRef(new DBRefEntry(DBRefSource.UNIPROT,\r
+                    "0",\r
+                    en2.nextElement().toString()));\r
+        }\r
+\r
+\r
+\r
+\r
         sequence[i].getDatasetSequence().setPDBId(onlyPdbEntries);\r
         if (entry.getFeature() != null)\r
         {\r
@@ -375,14 +386,17 @@ public class SequenceFetcher
       {\r
         if (alignFrame == null)\r
         {\r
-          AlignFrame af = new AlignFrame(new Alignment(sequences));\r
+          AlignFrame af = new AlignFrame(new Alignment(sequences),\r
+                                           AlignFrame.DEFAULT_WIDTH,\r
+                                           AlignFrame.DEFAULT_HEIGHT\r
+);\r
           af.currentFileFormat = format;\r
           if(title==null)\r
             title = "Retrieved from " + database.getSelectedItem();\r
           Desktop.addInternalFrame(af,\r
                                    title,\r
-                                   AlignFrame.NEW_WINDOW_WIDTH,\r
-                                   AlignFrame.NEW_WINDOW_HEIGHT);\r
+                                   AlignFrame.DEFAULT_WIDTH,\r
+                                   AlignFrame.DEFAULT_HEIGHT);\r
           af.statusBar.setText("Successfully pasted alignment file");\r
 \r
           try\r