Source code for wfcommons.wfchef.recipes.genome.recipe

#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Copyright (c) 2021 The WfCommons Team.
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.

import pathlib
from logging import Logger
from typing import Optional, Set
import pathlib 
from wfcommons.wfchef.wfchef_abstract_recipe import BaseMethod, WfChefWorkflowRecipe

this_dir = pathlib.Path(__file__).resolve().parent




class GenomeRecipe(WfChefWorkflowRecipe):
    """A Genome workflow recipe class for creating synthetic workflow instances.

    :param data_footprint: The upper bound for the workflow total data footprint (in bytes).
    :type data_footprint: int
    :param num_tasks: The upper bound for the total number of tasks in the workflow.
    :type num_tasks: int
    :param exclude_graphs:
    :type exclude_graphs: Set
    :param runtime_factor: The factor of which tasks runtime will be increased/decreased.
    :type runtime_factor: float
    :param input_file_size_factor: The factor of which tasks input files size will be increased/decreased.
    :type input_file_size_factor: float
    :param output_file_size_factor: The factor of which tasks output files size will be increased/decreased.
    :type output_file_size_factor: float
    :param logger: The logger where to log information/warning or errors (optional).
    :type logger: Logger
    """

    def __init__(self,
                 data_footprint: Optional[int] = 0,
                 num_tasks: Optional[int] = 3,
                 exclude_graphs: Set[str]|None = None,
                 runtime_factor: Optional[float] = 1.0,
                 input_file_size_factor: Optional[float] = 1.0,
                 output_file_size_factor: Optional[float] = 1.0,
                 logger: Optional[Logger] = None,
                 base_method: BaseMethod = BaseMethod.ERROR_TABLE,
                 **kwargs) -> None:
        if exclude_graphs is None:
            exclude_graphs = set()
        super().__init__(
            name="Genome", 
            data_footprint=data_footprint, 
            num_tasks=num_tasks, 
            exclude_graphs=exclude_graphs, 
            runtime_factor=runtime_factor, 
            input_file_size_factor=input_file_size_factor,
            output_file_size_factor=output_file_size_factor, 
            logger=logger, 
            this_dir=this_dir, 
            base_method=base_method,
            **kwargs
        )