comparison COBRAxy/ras_generator.py @ 400:e94735cb40fa draft

Uploaded

399:172b3959dccf

    Returns:
        Dict[str, ruleUtils.OpList] : dict mapping reaction IDs to rules.
    """
    datFilePath = utils.FilePath.fromStrPath(ARGS.model_upload) # actual file, stored in galaxy as a .dat

    try: filenamePath = utils.FilePath.fromStrPath(ARGS.model_upload_name) # file's name in input, to determine its original ext
    except utils.PathErr as err:
        raise utils.PathErr(filenamePath, f"Please make sure your file's name is a valid file path, {err.msg}")
     
    if filenamePath.ext is utils.FileFormat.PICKLE: return utils.readPickle(datFilePath)

    dict_rule = {}
    for line in utils.readCsv(datFilePath, delimiter = "\t"):
        if line[2] == "":
            dict_rule[line[0]] = ruleUtils.OpList([""])

400:e94735cb40fa

    Returns:
        Dict[str, ruleUtils.OpList] : dict mapping reaction IDs to rules.
    """
    datFilePath = utils.FilePath.fromStrPath(ARGS.model_upload) # actual file, stored in galaxy as a .dat

    #try: filenamePath = utils.FilePath.fromStrPath(ARGS.model_upload_name) # file's name in input, to determine its original ext
    #except utils.PathErr as err:      
    #    utils.logWarning(f"Cannot determine file extension from filename '{ARGS.model_upload_name}'. Assuming tabular format.", ARGS.out_log)
    #    filenamePath = None
     
    #if filenamePath.ext is utils.FileFormat.PICKLE: return utils.readPickle(datFilePath)

    dict_rule = {}
    for line in utils.readCsv(datFilePath, delimiter = "\t"):
        if line[2] == "":
            dict_rule[line[0]] = ruleUtils.OpList([""])