From 7ded526868584025a14ec3ed4c147679f92bc09f Mon Sep 17 00:00:00 2001
From: tjc <tjc@ee4ac58c-ac51-4696-9907-e4b3aa274f04>
Date: Mon, 16 Mar 2009 14:20:20 +0000
Subject: [PATCH] fix for multiple fasta GFF files
git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@10110 ee4ac58c-ac51-4696-9907-e4b3aa274f04
---
uk/ac/sanger/artemis/io/GFFDocumentEntry.java | 9 +++++----
1 file changed, 5 insertions(+), 4 deletions(-)
diff --git a/uk/ac/sanger/artemis/io/GFFDocumentEntry.java b/uk/ac/sanger/artemis/io/GFFDocumentEntry.java
index c390395e1..bab78c6fc 100644
--- a/uk/ac/sanger/artemis/io/GFFDocumentEntry.java
+++ b/uk/ac/sanger/artemis/io/GFFDocumentEntry.java
@@ -20,7 +20,7 @@
* along with this program; if not, write to the Free Software
* Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA.
*
- * $Header: //tmp/pathsoft/artemis/uk/ac/sanger/artemis/io/GFFDocumentEntry.java,v 1.60 2008-11-20 16:39:49 tjc Exp $
+ * $Header: //tmp/pathsoft/artemis/uk/ac/sanger/artemis/io/GFFDocumentEntry.java,v 1.61 2009-03-16 14:20:20 tjc Exp $
*/
package uk.ac.sanger.artemis.io;
@@ -46,7 +46,7 @@ import org.gmod.schema.sequence.FeatureLoc;
* A DocumentEntry that can read an GFF entry from a Document.
*
* @author Kim Rutherford
- * @version $Id: GFFDocumentEntry.java,v 1.60 2008-11-20 16:39:49 tjc Exp $
+ * @version $Id: GFFDocumentEntry.java,v 1.61 2009-03-16 14:20:20 tjc Exp $
**/
public class GFFDocumentEntry extends SimpleDocumentEntry
@@ -163,8 +163,9 @@ public class GFFDocumentEntry extends SimpleDocumentEntry
{
this_feature = original_features.featureAt(i);
final String key = this_feature.getKey().getKeyString();
- if(GeneUtils.isHiddenFeature(key) ||
- GeneUtils.isObsolete((GFFStreamFeature)this_feature))
+ if(this_feature instanceof GFFStreamFeature &&
+ (GeneUtils.isHiddenFeature(key) ||
+ GeneUtils.isObsolete((GFFStreamFeature)this_feature)))
((GFFStreamFeature)this_feature).setVisible(false);
if(key.equals("gene") || key.equals("pseudogene"))
--
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