Source code for seqgra.parser.datadefinitionparser

"""
MIT - CSAIL - Gifford Lab - seqgra

Abstract base class for configuration file parser
(using Strategy design pattern)

@author: Konstantin Krismer
"""
from abc import ABC, abstractmethod
from typing import List

from seqgra.model import DataDefinition
from seqgra.model.data import Background
from seqgra.model.data import DataGeneration
from seqgra.model.data import Condition
from seqgra.model.data import SequenceElement


class DataDefinitionParser(ABC):
    @abstractmethod
    def get_grammar_id(self) -> str:
        pass

    @abstractmethod
    def get_name(self) -> str:
        pass

    @abstractmethod
    def get_description(self) -> str:
        pass

    @abstractmethod
    def get_task(self) -> str:
        pass

    @abstractmethod
    def get_sequence_space(self) -> str:
        pass

    @abstractmethod
    def get_seed(self) -> int:
        pass

    @abstractmethod
    def get_background(self, valid_conditions: List[Condition]) -> Background:
        pass

    @abstractmethod
    def get_data_generation(
            self,
            valid_conditions: List[Condition]) -> DataGeneration:
        pass

    @abstractmethod
    def get_conditions(
            self,
            valid_sequence_elements: List[SequenceElement]) -> List[Condition]:
        pass

    @abstractmethod
    def get_sequence_elements(self) -> List[SequenceElement]:
        pass

    @abstractmethod
    def get_data_definition(self) -> DataDefinition:
        pass