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# pylint: disable=[R0902, R0903]
"""Module that exposes common db operations"""
import logging
from dataclasses import asdict, astuple
from typing import Any, Dict, List, Optional, Generator, Tuple, Union
from typing_extensions import Protocol
from gn3.db.metadata_audit import MetadataAudit
from gn3.db.probesets import Probeset
from gn3.db.phenotypes import Phenotype
from gn3.db.phenotypes import Publication
from gn3.db.phenotypes import PublishXRef
from gn3.db.metadata_audit import metadata_audit_mapping
from gn3.db.probesets import probeset_mapping
from gn3.db.phenotypes import phenotype_mapping
from gn3.db.phenotypes import publication_mapping
from gn3.db.phenotypes import publish_x_ref_mapping
logger = logging.getLogger(__name__)
TABLEMAP = {
"Phenotype": phenotype_mapping,
"ProbeSet": probeset_mapping,
"Publication": publication_mapping,
"PublishXRef": publish_x_ref_mapping,
"metadata_audit": metadata_audit_mapping,
}
DATACLASSMAP = {
"Phenotype": Phenotype,
"ProbeSet": Probeset,
"Publication": Publication,
"PublishXRef": PublishXRef,
"metadata_audit": MetadataAudit,
}
class Dataclass(Protocol):
"""Type Definition for a Dataclass"""
__dataclass_fields__: Dict
def diff_from_dict(old: Dict, new: Dict) -> Dict:
"""Construct a new dict with a specific structure that contains the difference
between the 2 dicts in the structure:
diff_from_dict({"id": 1, "data": "a"}, {"id": 2, "data": "b"})
Should return:
{"id": {"old": 1, "new": 2}, "data": {"old": "a", "new": "b"}}
"""
dict_ = {}
for key in old.keys():
dict_[key] = {"old": old[key], "new": new[key]}
return dict_
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