X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FSequenceFetcher.java;h=caecbbad5934b7f2c831239ae3a9f55a207d0012;hb=a395b6d73484b2827f3e80295631e69dd8841c47;hp=8b5d3b743b5bb065c1e96d2db7bc56c880e91e29;hpb=85f6e96380285dfda463cd36317c55c4f5184ad8;p=jalview.git

diff --git a/src/jalview/gui/SequenceFetcher.java b/src/jalview/gui/SequenceFetcher.java
index 8b5d3b7..caecbba 100755
--- a/src/jalview/gui/SequenceFetcher.java
+++ b/src/jalview/gui/SequenceFetcher.java
@@ -27,6 +27,7 @@ import jalview.datamodel.DBRefEntry;
 import jalview.datamodel.SequenceI;
 import jalview.fts.core.GFTSPanel;
 import jalview.fts.service.pdb.PDBFTSPanel;
+import jalview.fts.service.threedbeacons.TDBeaconsFTSPanel;
 import jalview.fts.service.uniprot.UniprotFTSPanel;
 import jalview.io.FileFormatI;
 import jalview.io.gff.SequenceOntologyI;
@@ -195,6 +196,11 @@ public class SequenceFetcher extends JPanel implements Runnable
           frame.dispose();
           new UniprotFTSPanel(SequenceFetcher.this);
         }
+        else if ("3d-beacons".equalsIgnoreCase(currentSelection))
+        {
+          frame.dispose();
+          new TDBeaconsFTSPanel(SequenceFetcher.this);
+        }
         else
         {
           otherSourceAction();
@@ -797,8 +803,15 @@ public class SequenceFetcher extends JPanel implements Runnable
   {
     return "Retrieved from " + database.getSelectedItem();
   }
-
-  AlignmentI parseResult(AlignmentI al, String title,
+  /**
+   * constructs an alignment frame given the data and metadata
+   * @param al
+   * @param title
+   * @param currentFileFormat
+   * @param preferredFeatureColours
+   * @return the alignment 
+   */
+  public AlignmentI parseResult(AlignmentI al, String title,
           FileFormatI currentFileFormat,
           FeatureSettingsModelI preferredFeatureColours)
   {
@@ -831,10 +844,7 @@ public class SequenceFetcher extends JPanel implements Runnable
           }
         }
 
-        if (preferredFeatureColours != null)
-        {
-          af.getViewport().applyFeaturesStyle(preferredFeatureColours);
-        }
+        af.getViewport().applyFeaturesStyle(preferredFeatureColours);
         if (Cache.getDefault("HIDE_INTRONS", true))
         {
           af.hideFeatureColumns(SequenceOntologyI.EXON, false);