HDF5 repeated dataset opening failure

[etotheipluspi]

After a large number of iterations HDF5 whiffs and throws the error:

RuntimeError: Unable to register datatype (Can't insert duplicate key)

More details can be found here:
h5py/h5py#480

The issue is with HDF5, and is resolved in HDF5 1.8.14, which is not the default on most distros.

What is the best way to handle this issue? Should we just include a big warning along with update instructions? Its easy to check the HDF5 version, so if the users machine doesn't support it, we can just tell them to update their HDF5.