kimpy Error:
  Collision of atoms 10 and 258. Their distance is 0!
Traceback (most recent call last):
  File "/disk2/worker/repository/td/VacancyFormationMigration__TD_554849987965_000/runner", line 363, in <module>
    main()
  File "/disk2/worker/repository/td/VacancyFormationMigration__TD_554849987965_000/runner", line 353, in main
    res = instance.getResults()
  File "/disk2/worker/repository/td/VacancyFormationMigration__TD_554849987965_000/runner", line 252, in getResults
    migrationEnergy, formationEnergy = self._getResultsForSize(size)
  File "/disk2/worker/repository/td/VacancyFormationMigration__TD_554849987965_000/runner", line 133, in _getResultsForSize
    minimizer.run(fmax = C.MDMIN_TOL, steps = C.MDMIN_MAX_STEPS)
  File "/usr/local/lib/python2.7/dist-packages/ase/optimize/optimize.py", line 174, in run
    f = self.atoms.get_forces()
  File "/usr/local/lib/python2.7/dist-packages/ase/neb.py", line 159, in get_forces
    energies[i] = images[i].get_potential_energy()
  File "/usr/local/lib/python2.7/dist-packages/ase/atoms.py", line 681, in get_potential_energy
    energy = self._calc.get_potential_energy(self)
  File "/usr/local/lib/python2.7/dist-packages/ase/calculators/calculator.py", line 414, in get_potential_energy
    energy = self.get_property('energy', atoms)
  File "/usr/local/lib/python2.7/dist-packages/ase/calculators/calculator.py", line 459, in get_property
    self.calculate(atoms, [name], system_changes)
  File "/usr/local/lib/python2.7/dist-packages/kimpy/calculator.py", line 297, in calculate
    self.update_kim_and_neigh(atoms)
  File "/usr/local/lib/python2.7/dist-packages/kimpy/calculator.py", line 213, in update_kim_and_neigh
    raise KIMError('nl.build_neighborlist')
kimpy.calculator.KIMError: 
  Calling kimpy KIM API function failed: nl.build_neighborlist
Command exited with non-zero status 1
{"usertime":2.28,"memmax":129772,"memavg":0}