mapper.py 文件源码

def parse_arguments(argv):
    """Parses user arguments."""

    parser = argparse.ArgumentParser(description=usage,
                                formatter_class=argparse.RawTextHelpFormatter)
    parser.add_argument('-i',
                        '--input-file',
                        help='Input file with FASTA-like deflines',
                        type=str,
                        required=True)
    parser.add_argument('-o',
                        '--output-file',
                        help='Output file with taxonomies marked. ' +
                             'If not specified results will be written to' +
                             '\'annotated.txt\'',
                        type=str,
                        required=False,
                        default='annotated.txt')

    args = parser.parse_args(argv)

    return args