code: public Partition getAutomorphismPartition(IAtomContainer atomContainer) {
          setup(atomContainer);
          super.refine(refinable.getInitialPartition());
          return super.getAutomorphismPartition();
      }
docs: Get the automorphism partition (equivalence classes) of the atoms.
  
  @param atomContainer the molecule to calculate equivalence classes for
  @return a partition of the atoms into equivalence classes