+ return getAlignmentViewWithComplement(selectedOnly,markGroups,true);
+ }
+
+ @Override
+ public jalview.datamodel.AlignmentView getAlignmentViewWithComplement(
+ boolean selectedOnly, boolean markGroups,boolean withComplment)
+ {
+ AlignmentView complementView = null;
+ if (withComplment)
+ {
+ if (codingComplement != null)
+ {
+ complementView = codingComplement.getAlignmentViewWithComplement(
+ selectedOnly, markGroups, false);
+ }
+ }
+ AlignmentView thisView = new AlignmentView(alignment,
+ alignment.getHiddenColumns(), selectionGroup,