Package org.moltools.lib.seq

Examples of org.moltools.lib.seq.ChangeableNucleotideSequence.edit()

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          oldseq = pa.seqString(); //but first store the old sequence
          //remove nucleotides form the non-fixed end of the arm
          switch (fixedEnd) {
            case TemplateHandler.THREEPRIME:
              try {
                cns.edit(new SimpleSequenceEdit(1, 1, "")); //$NON-NLS-1$
              }
              catch (SequenceFormatException e) {
                throw new UnsupportedOperationException("Invalid sequence"); //$NON-NLS-1$
              }
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              }

              break;
            case TemplateHandler.FIVEPRIME:
              try {
                cns.edit(new SimpleSequenceEdit(pa.length(), 1, "")); //$NON-NLS-1$
              }
              catch (SequenceFormatException e) {
                throw new UnsupportedOperationException("Invalid sequence"); //$NON-NLS-1$
              }
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