package jalview.analysis;
import jalview.analysis.scoremodels.ScoreMatrix;
+import jalview.analysis.scoremodels.ScoreModels;
import jalview.datamodel.AlignmentAnnotation;
import jalview.datamodel.AlignmentI;
import jalview.datamodel.Mapping;
if (type.equals(AlignSeq.PEP))
{
- lookup = ResidueProperties.getDefaultPeptideMatrix();
+ lookup = ScoreModels.getInstance().getDefaultModel(true).getMatrix();
}
else if (type.equals(AlignSeq.DNA))
{
- lookup = ResidueProperties.getDefaultDnaMatrix();
+ lookup = ScoreModels.getInstance().getDefaultModel(false).getMatrix();
}
}