fetchers.py 文件源码

def download_data_from_uniprot(identifier, file_format="fasta", override=False):
    """
    Downloads a UniProt fasta, gff or txt to the filesystem.

    :param identifier: (str) UniProt ID
    :param file_format: (str) endpoint
    :param override: (boolean)
    :return: (side effects)
    """

    file_format = file_format.lstrip('.')
    if file_format in ['txt', 'fasta', 'gff']:
        filename = "{}.{}".format(identifier, file_format)
        outputfile = os.path.join(config.db_root, config.db_uniprot, filename)
        os.makedirs(os.path.join(config.db_root, config.db_uniprot), exist_ok=True)

        url_root = config.http_uniprot
        url_endpoint = "{}.{}".format(identifier, file_format)
        url = url_root + url_endpoint
        Downloader(url=url, outputfile=outputfile,
                   decompress=True, override=override)
    else:
        raise ValueError("File format {} is not currently implemented..."
                         "".format(file_format))
    return