- // instantaneous calculation. Right now that's either AACons or RNAAliFold
- proteinAllowed = service.getAlignAnalysisUI().isPr();
- nucleotidesAllowed = service.getAlignAnalysisUI().isNa();
- alignedSeqs = service.getAlignAnalysisUI().isNeedsAlignedSeqs();
- bySequence = !service.getAlignAnalysisUI().isAA();
- filterNonStandardResidues = service.getAlignAnalysisUI()
- .isFilterSymbols();
- min_valid_seqs = service.getAlignAnalysisUI().getMinimumSequences();