X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2Fgff%2FInterProScanHelper.java;h=948cdd2d4065eb5555a22b50164f25f613e46555;hb=be762d8d9c71a7aa3121e845c45911c7192b7827;hp=c05593f5a2b6a9951dca3c81e509d4b513a01d65;hpb=e327ac5df98f528afeb347ac9a79085ad0d0975b;p=jalview.git

diff --git a/src/jalview/io/gff/InterProScanHelper.java b/src/jalview/io/gff/InterProScanHelper.java
index c05593f..948cdd2 100644
--- a/src/jalview/io/gff/InterProScanHelper.java
+++ b/src/jalview/io/gff/InterProScanHelper.java
@@ -73,13 +73,19 @@ public class InterProScanHelper extends Gff3Helper
   }
 
   /**
-  * 
-  */
+   * An override that
+   * <ul>
+   * <li>uses Source (column 2) as feature type instead of the default column 3</li>
+   * <li>sets "InterProScan" as the feature group</li>
+   * <li>extracts "signature_desc" attribute as the feature description</li>
+   * </ul>
+   */
   @Override
   protected SequenceFeature buildSequenceFeature(String[] gff,
           Map<String, List<String>> attributes)
   {
-    SequenceFeature sf = super.buildSequenceFeature(gff, attributes);
+    SequenceFeature sf = super.buildSequenceFeature(gff, SOURCE_COL,
+            INTER_PRO_SCAN, attributes);
 
     /*
      * signature_desc is a more informative source of description
@@ -91,13 +97,6 @@ public class InterProScanHelper extends Gff3Helper
       sf.setDescription(description);
     }
 
-    /*
-     * Set sequence feature group as 'InterProScan', and type as the source
-     * database for this match (e.g. 'Pfam')
-     */
-    sf.setType(gff[SOURCE_COL]);
-    sf.setFeatureGroup(INTER_PRO_SCAN);
-
     return sf;
   }