def tidy_input(cmd_line_args):
    """
    :param cmd_line_args: vars(args())
    :return: input arguments, with all keys made uppercase
    """

    out_args = {}
    for arg in cmd_line_args:
        if cmd_line_args[arg]:
            if isinstance(cmd_line_args[arg], str):
                out_args[arg] = cmd_line_args[arg].upper()
            else:
                out_args[arg] = cmd_line_args[arg]

    out_args['codon_usage'] = cmd_line_args['codon_usage']
    if cmd_line_args['name']:
        out_args['name'] = cmd_line_args['name']
    else:
        out_args['name'] = ''

    return out_args