from typing import List, Tuple, Set from functools import reduce from django.db.models import Q from drugstone.models import Protein, EnsemblGene from drugstone.serializers import ProteinSerializer def query_proteins_by_identifier(node_ids: Set[str], identifier: str) -> Tuple[List[dict], str]: """Queries the django database Protein table given a list of identifiers (node_ids) and a identifier name (identifier). The identifier name represents any protein attribute, e.g. uniprot or symbol. The identifier names vary from the Protein table names since they are the strings which are set by the user in the frontend, for readability they were changes from the original backend attributes. Args: node_ids (list): List of protein or gene identifiers. Note: Do not mix identifiers. identifier (str): Can be one of "symbol", "ensg", "uniprot" Returns: Tuple[List[dict], str]: Returns list of serialized protein entries for all matched IDs Returns name of backend attribute of Protein table """ # query protein table if identifier == 'symbol': protein_attribute = 'symbol' q_list = map(lambda n: Q(gene__iexact=n), node_ids) elif identifier == 'uniprot': protein_attribute = 'uniprot_ac' q_list = map(lambda n: Q(uniprot_code__iexact=n), node_ids) elif identifier == 'ensg': protein_attribute = 'ensg' node_ids = map(lambda n: n.protein_id, EnsemblGene.objects.filter(reduce(lambda a,b: a|b, map(lambda n:Q(name__iexact=n),list(node_ids))))) q_list = map(lambda n: Q(id=n), node_ids) elif identifier == 'entrez': protein_attribute = 'entrez' q_list = map(lambda n: Q(entrez=n), node_ids) if not node_ids: # node_ids is an empty list return [], protein_attribute q_list = reduce(lambda a, b: a | b, q_list) node_objects = Protein.objects.filter(q_list) # serialize nodes = ProteinSerializer(many=True).to_representation(node_objects) return nodes, protein_attribute