feat: add measured detection review loop
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@@ -5,10 +5,11 @@ from uuid import UUID
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from geoalchemy2.shape import to_shape
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from shapely.geometry import mapping
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from sqlalchemy import or_
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from sqlalchemy.orm import Session
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from app.core.errors import AppError
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from app.models import Detection, QualityCheck, Segmentation, VectorFeature
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from app.models import Detection, DetectionReview, QualityCheck, Segmentation, VectorFeature
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class QualityEvidenceService:
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@@ -21,8 +22,9 @@ class QualityEvidenceService:
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findings = quality_check.findings_json or {}
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features: list[dict[str, Any]] = []
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warnings: list[str] = []
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candidate_index = QualityEvidenceService._candidate_feature_index(db, quality_check)
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reference_index = QualityEvidenceService._reference_feature_index(db, quality_check)
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candidate_ids, reference_ids = QualityEvidenceService._evidence_identifiers(findings)
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candidate_index = QualityEvidenceService._candidate_feature_index(db, quality_check, candidate_ids)
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reference_index = QualityEvidenceService._reference_feature_index(db, quality_check, reference_ids)
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for evidence in QualityEvidenceService._evidence_items(findings.get("match_evidence")):
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candidate_id = QualityEvidenceService._string_value(evidence.get("candidate_feature_id"))
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@@ -89,6 +91,8 @@ class QualityEvidenceService:
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else:
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warnings.append(f"False-negative evidence feature not found: {reference_id}")
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QualityEvidenceService._annotate_reviews(db, quality_check, features)
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return {
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"quality_check_id": str(quality_check.id),
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"project_id": str(quality_check.project_id),
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@@ -117,34 +121,129 @@ class QualityEvidenceService:
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return text or None
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@staticmethod
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def _candidate_feature_index(db: Session, quality_check: QualityCheck) -> dict[str, Any]:
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def _evidence_identifiers(findings: dict[str, Any]) -> tuple[set[str], set[str]]:
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candidate_ids: set[str] = set()
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reference_ids: set[str] = set()
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for evidence in QualityEvidenceService._evidence_items(findings.get("match_evidence")):
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candidate_id = QualityEvidenceService._string_value(evidence.get("candidate_feature_id"))
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reference_id = QualityEvidenceService._string_value(evidence.get("reference_feature_id"))
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if candidate_id:
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candidate_ids.add(candidate_id)
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if reference_id:
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reference_ids.add(reference_id)
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for evidence in QualityEvidenceService._evidence_items(findings.get("false_positive_evidence")):
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candidate_id = QualityEvidenceService._string_value(evidence.get("candidate_feature_id"))
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if candidate_id:
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candidate_ids.add(candidate_id)
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for evidence in QualityEvidenceService._evidence_items(findings.get("false_negative_evidence")):
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reference_id = QualityEvidenceService._string_value(evidence.get("reference_feature_id"))
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if reference_id:
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reference_ids.add(reference_id)
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return candidate_ids, reference_ids
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@staticmethod
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def _uuid_identifiers(identifiers: set[str]) -> list[UUID]:
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values: list[UUID] = []
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for identifier in identifiers:
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try:
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values.append(UUID(identifier))
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except (TypeError, ValueError):
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continue
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return values
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@staticmethod
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def _vector_feature_rows(db: Session, dataset_id: UUID, identifiers: set[str]) -> list[VectorFeature]:
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if not identifiers:
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return []
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conditions = [VectorFeature.source_feature_id.in_(identifiers)]
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uuid_identifiers = QualityEvidenceService._uuid_identifiers(identifiers)
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if uuid_identifiers:
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conditions.append(VectorFeature.id.in_(uuid_identifiers))
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return (
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db.query(VectorFeature)
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.filter(VectorFeature.dataset_id == dataset_id, or_(*conditions))
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.all()
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)
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@staticmethod
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def _candidate_feature_index(
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db: Session,
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quality_check: QualityCheck,
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identifiers: set[str],
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) -> dict[str, Any]:
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index: dict[str, Any] = {}
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if not identifiers:
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return index
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uuid_identifiers = QualityEvidenceService._uuid_identifiers(identifiers)
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if quality_check.candidate_dataset_id:
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for row in db.query(VectorFeature).filter(VectorFeature.dataset_id == quality_check.candidate_dataset_id).all():
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for row in QualityEvidenceService._vector_feature_rows(db, quality_check.candidate_dataset_id, identifiers):
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QualityEvidenceService._add_index_keys(index, row)
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for row in db.query(Detection).filter(Detection.dataset_id == quality_check.candidate_dataset_id).all():
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QualityEvidenceService._add_index_keys(index, row)
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for row in db.query(Segmentation).filter(Segmentation.dataset_id == quality_check.candidate_dataset_id).all():
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QualityEvidenceService._add_index_keys(index, row)
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if quality_check.analysis_run_id:
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for row in db.query(Detection).filter(Detection.analysis_run_id == quality_check.analysis_run_id).all():
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if uuid_identifiers:
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for row in db.query(Detection).filter(
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Detection.dataset_id == quality_check.candidate_dataset_id,
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Detection.id.in_(uuid_identifiers),
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).all():
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QualityEvidenceService._add_index_keys(index, row)
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for row in db.query(Segmentation).filter(Segmentation.analysis_run_id == quality_check.analysis_run_id).all():
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for row in db.query(Segmentation).filter(
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Segmentation.dataset_id == quality_check.candidate_dataset_id,
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Segmentation.id.in_(uuid_identifiers),
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).all():
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QualityEvidenceService._add_index_keys(index, row)
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elif quality_check.analysis_run_id:
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for row in db.query(Detection).filter(Detection.analysis_run_id == quality_check.analysis_run_id).all():
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if quality_check.analysis_run_id and uuid_identifiers:
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for row in db.query(Detection).filter(
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Detection.analysis_run_id == quality_check.analysis_run_id,
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Detection.id.in_(uuid_identifiers),
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).all():
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QualityEvidenceService._add_index_keys(index, row)
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for row in db.query(Segmentation).filter(Segmentation.analysis_run_id == quality_check.analysis_run_id).all():
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for row in db.query(Segmentation).filter(
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Segmentation.analysis_run_id == quality_check.analysis_run_id,
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Segmentation.id.in_(uuid_identifiers),
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).all():
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QualityEvidenceService._add_index_keys(index, row)
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return index
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@staticmethod
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def _reference_feature_index(db: Session, quality_check: QualityCheck) -> dict[str, Any]:
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def _reference_feature_index(
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db: Session,
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quality_check: QualityCheck,
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identifiers: set[str],
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) -> dict[str, Any]:
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index: dict[str, Any] = {}
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for row in db.query(VectorFeature).filter(VectorFeature.dataset_id == quality_check.reference_dataset_id).all():
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for row in QualityEvidenceService._vector_feature_rows(db, quality_check.reference_dataset_id, identifiers):
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QualityEvidenceService._add_index_keys(index, row)
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return index
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@staticmethod
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def _annotate_reviews(
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db: Session,
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quality_check: QualityCheck,
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features: list[dict[str, Any]],
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) -> None:
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if quality_check.check_type != "detections_vs_reference":
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return
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reviews = db.query(DetectionReview).filter(DetectionReview.quality_check_id == quality_check.id).all()
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review_index = {(row.evidence_role, row.evidence_feature_id): row for row in reviews}
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for feature in features:
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properties = feature.get("properties")
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if not isinstance(properties, dict):
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continue
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role = QualityEvidenceService._string_value(properties.get("qa_evidence_role"))
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if role == "false_positive":
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evidence_id = QualityEvidenceService._string_value(properties.get("candidate_feature_id"))
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elif role == "false_negative":
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evidence_id = QualityEvidenceService._string_value(properties.get("reference_feature_id"))
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else:
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continue
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review = review_index.get((role, evidence_id or ""))
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properties.update(
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{
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"review_decision": review.decision if review else "unreviewed",
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"review_notes": review.notes if review else None,
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"reviewed_by": review.reviewed_by if review else None,
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"reviewed_at": review.updated_at.isoformat() if review and review.updated_at else None,
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}
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)
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@staticmethod
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def _add_index_keys(index: dict[str, Any], row: Any) -> None:
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for key in QualityEvidenceService._row_identifiers(row):
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