columnSelection = av.getColumnSelection();
hconsensus = av.getSequenceConsensusHash();// hconsensus;
hStrucConsensus = av.getRnaStructureConsensusHash(); // hStrucConsensus;
- av_ignoreGapsConsensus = av.getIgnoreGapsConsensus();
+ av_ignoreGapsConsensus = av.isIgnoreGapsConsensus();
}
public int[] getProfileFor(AlignmentAnnotation aa, int column)