Source code for immuneML.dsl.definition_parsers.EncodingParser

import inspect

from immuneML.dsl.ObjectParser import ObjectParser
from immuneML.dsl.symbol_table.SymbolTable import SymbolTable
from immuneML.dsl.symbol_table.SymbolType import SymbolType
from immuneML.encodings.DatasetEncoder import DatasetEncoder
from immuneML.util.Logger import log
from immuneML.util.ParameterValidator import ParameterValidator
from immuneML.util.ReflectionHandler import ReflectionHandler


[docs] class EncodingParser:
[docs] @staticmethod def parse(encodings: dict, symbol_table: SymbolTable): for key in encodings.keys(): encoder, params = EncodingParser.parse_encoder(key, encodings[key]) symbol_table.add(key, SymbolType.ENCODING, encoder, {"encoder_params": params}) return symbol_table, encodings
@staticmethod @log def parse_encoder(key: str, specs: dict): class_path = "encodings" valid_encoders = ReflectionHandler.all_nonabstract_subclass_basic_names(DatasetEncoder, "Encoder", class_path) encoder = ObjectParser.get_class(specs, valid_encoders, "Encoder", class_path, "EncodingParser", key) params = ObjectParser.get_all_params(specs, class_path, encoder.__name__[:-7], key) required_params = [p for p in list(inspect.signature(encoder.__init__).parameters.keys()) if p != "self"] ParameterValidator.assert_all_in_valid_list(params.keys(), required_params, "EncoderParser", f"{key}/{encoder.__name__.replace('Encoder', '')}") return encoder, params
[docs] @staticmethod def parse_encoder_internal(short_class_name: str, encoder_params: dict): encoder_class = ReflectionHandler.get_class_by_name(f"{short_class_name}Encoder", "encodings") params = ObjectParser.get_all_params({short_class_name: encoder_params}, "encodings", short_class_name) return encoder_class, params, params