- Alignment complement=null;
- if (input.hasComplementView())
- {
- Object[] newcompl = input
- .getComplementView()
- .getAlignmentAndHiddenColumns(getRequestingAlignFrame()
- .getViewport().getCodingComplement().getGapCharacter());
- complement = new Alignment((SequenceI[])newcompl[0]);
- complement.setHiddenColumns((HiddenColumns) newcompl[1]);
- complement.setDataset(dataset);
- complement.alignAs(al);
- }