import json
from uuid import uuid4
from immuneML.data_model.receptor.Receptor import Receptor
from immuneML.data_model.receptor.receptor_sequence.ReceptorSequence import ReceptorSequence
[docs]class BCKReceptor(Receptor):
FIELDS = {'heavy': object, 'kappa': object, 'identifier': str, 'metadata': dict, 'version': str}
version = "1"
[docs] @classmethod
def create_from_record(cls, record):
if 'version' in record.dtype.names and record['version'] == BCKReceptor.version:
heavy_record = record[['heavy_' + name for name in ReceptorSequence.get_record_names()]]
heavy_record.dtype.names = ReceptorSequence.get_record_names()
kappa_record = record[['kappa_' + name for name in ReceptorSequence.get_record_names()]]
kappa_record.dtype.names = ReceptorSequence.get_record_names()
return BCKReceptor(heavy=ReceptorSequence.create_from_record(heavy_record),
kappa=ReceptorSequence.create_from_record(kappa_record),
identifier=record['identifier'], metadata=json.loads(record['metadata']))
else:
raise NotImplementedError(f"Supported ({BCKReceptor.version}) and available version differ, but there is no converter available.")
[docs] @classmethod
def get_record_names(cls):
return ['heavy_' + name for name in ReceptorSequence.get_record_names()] \
+ ['kappa_' + name for name in ReceptorSequence.get_record_names()] \
+ [name for name in cls.FIELDS if name not in ['heavy', 'kappa']]
def __init__(self, heavy: ReceptorSequence = None, kappa: ReceptorSequence = None, metadata: dict = None, identifier: str = None):
self.heavy = heavy
self.kappa = kappa
self.metadata = metadata
self.identifier = uuid4().hex if identifier is None else identifier
[docs] def get_chains(self):
return ["heavy", "kappa"]
[docs] def get_attribute(self, name: str):
raise NotImplementedError