ContactMatrixI matrix = new PAEContactMatrix(sm.getSequence(),
(Map<String, Object>) pae_obj);
- matrix.setGroupSet(GroupSet.makeGroups(matrix,5f, true));
+ matrix.setGroupSet(GroupSet.makeGroups(matrix, 5f, true));
AlignmentAnnotation cmannot = sm.getSequence().addContactList(matrix);
sm.getSequence().addAlignmentAnnotation(cmannot);