acfcce3331c3148df9f98cfc27704bb06ae08a77,clairvoyante/evaluate.py,,,#,110

Before Change

            logging.info("\t".join([str(ed[i][j]) for j in range(6)]))


if __name__ == "__main__":

    parser = argparse.ArgumentParser(
            description="Evaluate trained Clairvoyante model" )

    parser.add_argument("--bin_fn", type=str, default = None,
            help="Binary tensor input generated by tensor2Bin.py, tensor_fn, var_fn and bed_fn will be ignored")

    parser.add_argument("--tensor_fn", type=str, default = "vartensors",
            help="Tensor input")

    parser.add_argument("--var_fn", type=str, default = "truthvars",
            help="Truth variants list input")

    parser.add_argument("--bed_fn", type=str, default = None,
            help="High confident genome regions input in the BED format")

    parser.add_argument("--chkpnt_fn", type=str, default = None,
            help="Input a checkpoint for testing")

    parser.add_argument("--v3", type=param.str2bool, nargs="?", const=True, default = True,
            help="Use Clairvoyante version 3")

    parser.add_argument("--v2", type=param.str2bool, nargs="?", const=True, default = False,
            help="Use Clairvoyante version 2")

    parser.add_argument("--slim", type=param.str2bool, nargs="?", const=True, default = False,
            help="Train using the slim version of Clairvoyante, optional")

    args = parser.parse_args()

    if len(sys.argv[1:]) == 0:
        parser.print_help()
        sys.exit(1)

    Run(args)

After Change

    Run(args)


if __name__ == "__main__":
    main()

Instances