Function check_missing_files

monai/data/decathlon_datalist.py:196–231

Checks whether some files in the Decathlon datalist are missing. It would be helpful to check missing files before a heavy training run. Args: datalist: a list of data items, every item is a dictionary. usually generated by `load_decathlon_datalist` API. keys: ex

(
    datalist: list[dict], keys: KeysCollection, root_dir: PathLike | None = None, allow_missing_keys: bool = False
)

def check_missing_files(
    datalist: list[dict], keys: KeysCollection, root_dir: PathLike | None = None, allow_missing_keys: bool = False
):
    """Checks whether some files in the Decathlon datalist are missing.
    It would be helpful to check missing files before a heavy training run.

    Args:
        datalist: a list of data items, every item is a dictionary.
            usually generated by `load_decathlon_datalist` API.
        keys: expected keys to check in the datalist.
        root_dir: if not None, provides the root dir for the relative file paths in `datalist`.
        allow_missing_keys: whether allow missing keys in the datalist items.
            if False, raise exception if missing. default to False.

    Returns:
        A list of missing filenames.

    """
    missing_files = []
    for item in datalist:
        for k in ensure_tuple(keys):
            if k not in item:
                if not allow_missing_keys:
                    raise ValueError(f"key `{k}` is missing in the datalist item: {item}")
                continue

            for f in ensure_tuple(item[k]):
                if not isinstance(f, (str, os.PathLike)):
                    raise ValueError(f"filepath of key `{k}` must be a string or a list of strings, but got: {f}.")
                f = Path(f)
                if isinstance(root_dir, (str, os.PathLike)):
                    f = Path(root_dir).joinpath(f)
                if not f.exists():
                    missing_files.append(f)

    return missing_files


def create_cross_validation_datalist(