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fix: Use MedCAT's multiprocessing_batch_char_size #8

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Merged
merged 1 commit into from
Jan 6, 2025
Merged

fix: Use MedCAT's multiprocessing_batch_char_size #8

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10 changes: 6 additions & 4 deletions app/model_services/medcat_model.py
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Original file line number Diff line number Diff line change
Expand Up @@ -101,10 +101,12 @@ def annotate(self, text: str) -> Dict:
def batch_annotate(self, texts: List[str]) -> List[Dict]:
batch_size_chars = 500000

docs = self.model.multiprocessing(self._data_iterator(texts),
batch_size_chars=batch_size_chars,
nproc=max(int(cpu_count() / 2), 1),
addl_info=["cui2icd10", "cui2ontologies", "cui2snomed", "cui2athena_ids"])
docs = self.model.multiprocessing_batch_char_size(
self._data_iterator(texts),
batch_size_chars=batch_size_chars,
nproc=max(int(cpu_count() / 2), 1),
addl_info=["cui2icd10", "cui2ontologies", "cui2snomed", "cui2athena_ids"]
)
annotations_list = []
for _, doc in docs.items():
annotations_list.append(self.get_records_from_doc(doc))
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