def test_negative_scalar_index(adata, index: int, obs: bool):
    pos_index = index + (adata.n_obs if obs else adata.n_vars)

    if obs:
        adata_pos_subset = adata[pos_index]
        adata_neg_subset = adata[index]
    else:
        adata_pos_subset = adata[:, pos_index]
        adata_neg_subset = adata[:, index]

    np.testing.assert_array_equal(
        adata_pos_subset.obs_names, adata_neg_subset.obs_names
    )
    np.testing.assert_array_equal(
        adata_pos_subset.var_names, adata_neg_subset.var_names
    )
def ProcessCommandLineArgs(parser, args):
  # TODO(ariblue): Delete this flag entirely at some future data, when the
  # existence of such a flag has been long forgotten.
  if args.output_file:
    parser.error('This flag is deprecated. Please use --output-dir instead.')

  try:
    os.makedirs(args.output_dir)
  except OSError:
    # Do nothing if the output directory already exists. Existing files will
    # get overwritten.
    pass

  args.output_dir = os.path.expanduser(args.output_dir)