docs: def get_sequence_tooltips(self, pdb_object, pdb_sequence, pdb_sequence_type, pdb_name, pdb_chain, pdb_alignment_lines):
          '''pdb_sequence is a Sequence object. pdb_sequence_type is a type returned by PDB.get_annotated_chain_sequence_string,
             pdb_name is the name of the PDB used throughout this object e.g. 'Scaffold', pdb_chain is the chain of interest,
             pdb_alignment_lines are the lines returned by SequenceAligner._get_alignment_lines.
  
             This function returns a set of tooltips corresponding to the residues in the sequence. The tooltips are the ATOM
             residue IDs. These tooltips can be used to generate useful (and/or interactive using JavaScript) sequence alignments
             in HTML.
             '''
  
          raise Exception('Re-implement using the equivalence classes.')
  
          tooltips = None
          atom_sequence = pdb_object.atom_sequences.get(pdb_chain)
  
          try:
              if pdb_sequence_type == 'SEQRES':
                  seqres_to_atom_map = self.seqres_to_atom_maps.get(pdb_name, {}).get(pdb_chain, {})
                  tooltips = []
                  if seqres_to_atom_map:
                      idx = 1
                      for aligned_residue in pdb_alignment_lines.strip():
                          if aligned_residue != '-':
                              atom_residue = seqres_to_atom_map.get(idx)
                              if atom_residue:
                                  # This is a sanity check to make sure that the tooltips are mapping the correct residues types to
                                  # the correct residues types
                                  assert(aligned_residue == atom_sequence.sequence[atom_residue].ResidueAA)
                              tooltips.append(atom_residue)
                              idx += 1
                      assert(len(tooltips) == len(str(pdb_sequence)))
              elif pdb_sequence_type == 'ATOM':
                  tooltips = []
                  idx = 0
                  for aligned_residue in pdb_alignment_lines.strip():
                      if aligned_residue != '-':
                          # This is a sanity check to make sure that the tooltips are mapping the correct residues types to
                          # the correct residues types
                          assert(aligned_residue == pdb_sequence.sequence[pdb_sequence.order[idx]].ResidueAA)
                          tooltips.append(pdb_sequence.order[idx])
                          idx += 1
                  assert(len(tooltips) == len(str(pdb_sequence)))
          except:
              raise Exception('An error occurred during HTML tooltip creation for the multiple sequence alignment.')
  
          return tooltips