import jalview.api.analysis.SimilarityParamsI;
import jalview.datamodel.AlignmentView;
import jalview.datamodel.SequenceI;
import jalview.api.analysis.SimilarityParamsI;
import jalview.datamodel.AlignmentView;
import jalview.datamodel.SequenceI;
public MatrixI findSimilarities(AlignmentView seqData,
SimilarityParamsI options)
{
public MatrixI findSimilarities(AlignmentView seqData,
SimilarityParamsI options)
{
- SequenceI[] sequenceString = seqData.getVisibleAlignment(
- Comparison.GAP_SPACE).getSequencesArray();
+ SequenceI[] sequenceString = seqData
+ .getVisibleAlignment(Comparison.GAP_SPACE).getSequencesArray();