From 20468f2b9a2938c35692d979f764b15bf878b882 Mon Sep 17 00:00:00 2001 From: jprocter Date: Wed, 22 Aug 2007 13:43:28 +0000 Subject: [PATCH] quick fix for exceptions due to invalid embl refs --- src/jalview/gui/SequenceFetcher.java | 12 +++++++----- 1 file changed, 7 insertions(+), 5 deletions(-) diff --git a/src/jalview/gui/SequenceFetcher.java b/src/jalview/gui/SequenceFetcher.java index 10e1b59..2f92333 100755 --- a/src/jalview/gui/SequenceFetcher.java +++ b/src/jalview/gui/SequenceFetcher.java @@ -228,10 +228,10 @@ extends JPanel implements Runnable while(st.hasMoreTokens()) { EBIFetchClient dbFetch = new EBIFetchClient(); - + String qry = database.getSelectedItem().toString().toLowerCase( + ) + ":" + st.nextToken(); File reply = dbFetch.fetchDataAsFile( - database.getSelectedItem().toString().toLowerCase( - ) + ":" + st.nextToken(), + qry, "emblxml",null); jalview.datamodel.xdb.embl.EmblFile efile=null; @@ -264,12 +264,14 @@ extends JPanel implements Runnable } } } else { - result=null; + result.append("# no response for "+qry); } } if (seqs!=null && seqs.length>0) { if (parseResult(new Alignment(seqs), null, null)!=null) - result.append("# Successfully parsed the "+database.getSelectedItem()+" Queries into an Alignment"); + { + result.append("# Successfully parsed the "+database.getSelectedItem()+" Queries into an Alignment"); + } } } else if (database.getSelectedItem().equals("PDB")) -- 1.7.10.2