package jalview.workers;
import jalview.analysis.Conservation;
+import jalview.analysis.scoremodels.ScoreModels;
import jalview.api.AlignViewportI;
import jalview.api.AlignmentViewPanel;
import jalview.datamodel.AlignmentAnnotation;
}
try
{
+ // TODO - TDI is there a conservation measure ?
cons = Conservation.calculateConservation("All",
alignment.getSequences(), 0, alWidth - 1, false,
- ConsPercGaps, quality != null);
+ ConsPercGaps, quality != null, alignViewport.is3di() ? ScoreModels.getInstance().getFOLDSEEK3DI():ScoreModels.getInstance().getDefaultModel(true));
} catch (IndexOutOfBoundsException x)
{
// probable race condition. just finish and return without any fuss.