endoreg-db 0.8.4.4__py3-none-any.whl → 0.8.8.0__py3-none-any.whl
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- endoreg_db/authz/auth.py +74 -0
- endoreg_db/authz/backends.py +168 -0
- endoreg_db/authz/management/commands/list_routes.py +18 -0
- endoreg_db/authz/middleware.py +83 -0
- endoreg_db/authz/permissions.py +127 -0
- endoreg_db/authz/policy.py +218 -0
- endoreg_db/authz/views_auth.py +66 -0
- endoreg_db/config/env.py +13 -8
- endoreg_db/data/__init__.py +8 -31
- endoreg_db/data/_examples/disease.yaml +55 -0
- endoreg_db/data/_examples/disease_classification.yaml +13 -0
- endoreg_db/data/_examples/disease_classification_choice.yaml +62 -0
- endoreg_db/data/_examples/event.yaml +64 -0
- endoreg_db/data/_examples/examination.yaml +72 -0
- endoreg_db/data/_examples/finding/anatomy_colon.yaml +128 -0
- endoreg_db/data/_examples/finding/colonoscopy.yaml +40 -0
- endoreg_db/data/_examples/finding/colonoscopy_bowel_prep.yaml +56 -0
- endoreg_db/data/_examples/finding/complication.yaml +16 -0
- endoreg_db/data/_examples/finding/data.yaml +105 -0
- endoreg_db/data/_examples/finding/examination_setting.yaml +16 -0
- endoreg_db/data/_examples/finding/medication_related.yaml +18 -0
- endoreg_db/data/_examples/finding/outcome.yaml +12 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_bowel_preparation.yaml +68 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_jnet.yaml +22 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_kudo.yaml +25 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_lesion_circularity.yaml +20 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_lesion_planarity.yaml +24 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_lesion_size.yaml +68 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_lesion_surface.yaml +20 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_location.yaml +80 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_lst.yaml +21 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_nice.yaml +20 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_paris.yaml +26 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_sano.yaml +22 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_summary.yaml +53 -0
- endoreg_db/data/_examples/finding_classification/complication_generic.yaml +25 -0
- endoreg_db/data/_examples/finding_classification/examination_setting_generic.yaml +40 -0
- endoreg_db/data/_examples/finding_classification/histology_colo.yaml +51 -0
- endoreg_db/data/_examples/finding_classification/intervention_required.yaml +26 -0
- endoreg_db/data/_examples/finding_classification/medication_related.yaml +23 -0
- endoreg_db/data/_examples/finding_classification/visualized.yaml +33 -0
- endoreg_db/data/_examples/finding_classification_choice/bowel_preparation.yaml +78 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_circularity_default.yaml +32 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_jnet.yaml +15 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_kudo.yaml +23 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_lst.yaml +15 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_nice.yaml +17 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_paris.yaml +57 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_planarity_default.yaml +49 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_sano.yaml +14 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_surface_intact_default.yaml +36 -0
- endoreg_db/data/_examples/finding_classification_choice/colonoscopy_location.yaml +229 -0
- endoreg_db/data/_examples/finding_classification_choice/colonoscopy_not_complete_reason.yaml +19 -0
- endoreg_db/data/_examples/finding_classification_choice/colonoscopy_size.yaml +82 -0
- endoreg_db/data/_examples/finding_classification_choice/colonoscopy_summary_worst_finding.yaml +15 -0
- endoreg_db/data/_examples/finding_classification_choice/complication_generic_types.yaml +15 -0
- endoreg_db/data/_examples/finding_classification_choice/examination_setting_generic_types.yaml +15 -0
- endoreg_db/data/_examples/finding_classification_choice/histology.yaml +24 -0
- endoreg_db/data/_examples/finding_classification_choice/histology_polyp.yaml +20 -0
- endoreg_db/data/_examples/finding_classification_choice/outcome.yaml +19 -0
- endoreg_db/data/_examples/finding_classification_choice/yes_no_na.yaml +11 -0
- endoreg_db/data/_examples/finding_classification_type/colonoscopy_basic.yaml +48 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy.yaml +43 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy_colonoscopy.yaml +168 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy_egd.yaml +128 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy_ercp.yaml +32 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy_eus_lower.yaml +9 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy_eus_upper.yaml +36 -0
- endoreg_db/data/_examples/finding_intervention_type/endoscopy.yaml +15 -0
- endoreg_db/data/_examples/finding_type/data.yaml +43 -0
- endoreg_db/data/_examples/requirement/age.yaml +26 -0
- endoreg_db/data/_examples/requirement/colonoscopy_baseline_austria.yaml +45 -0
- endoreg_db/data/_examples/requirement/disease_cardiovascular.yaml +79 -0
- endoreg_db/data/_examples/requirement/disease_classification_choice_cardiovascular.yaml +41 -0
- endoreg_db/data/_examples/requirement/disease_hepatology.yaml +12 -0
- endoreg_db/data/_examples/requirement/disease_misc.yaml +12 -0
- endoreg_db/data/_examples/requirement/disease_renal.yaml +96 -0
- endoreg_db/data/_examples/requirement/endoscopy_bleeding_risk.yaml +59 -0
- endoreg_db/data/_examples/requirement/event_cardiology.yaml +251 -0
- endoreg_db/data/_examples/requirement/event_requirements.yaml +145 -0
- endoreg_db/data/_examples/requirement/finding_colon_polyp.yaml +50 -0
- endoreg_db/data/_examples/requirement/gender.yaml +25 -0
- endoreg_db/data/_examples/requirement/lab_value.yaml +441 -0
- endoreg_db/data/_examples/requirement/medication.yaml +93 -0
- endoreg_db/data/_examples/requirement_operator/age.yaml +13 -0
- endoreg_db/data/_examples/requirement_operator/lab_operators.yaml +129 -0
- endoreg_db/data/_examples/requirement_operator/model_operators.yaml +96 -0
- endoreg_db/data/_examples/requirement_set/01_endoscopy_generic.yaml +48 -0
- endoreg_db/data/_examples/requirement_set/colonoscopy_austria_screening.yaml +57 -0
- endoreg_db/data/_examples/yaml_examples.xlsx +0 -0
- endoreg_db/data/ai_model_meta/default_multilabel_classification.yaml +4 -3
- endoreg_db/data/event_classification/data.yaml +4 -0
- endoreg_db/data/event_classification_choice/data.yaml +9 -0
- endoreg_db/data/finding_classification/colonoscopy_bowel_preparation.yaml +43 -70
- endoreg_db/data/finding_classification/colonoscopy_lesion_size.yaml +22 -52
- endoreg_db/data/finding_classification/colonoscopy_location.yaml +31 -62
- endoreg_db/data/finding_classification/histology_colo.yaml +28 -36
- endoreg_db/data/requirement/colon_polyp_intervention.yaml +49 -0
- endoreg_db/data/requirement/coloreg_colon_polyp.yaml +49 -0
- endoreg_db/data/requirement_set/01_endoscopy_generic.yaml +31 -12
- endoreg_db/data/requirement_set/01_laboratory.yaml +13 -0
- endoreg_db/data/requirement_set/02_endoscopy_bleeding_risk.yaml +46 -0
- endoreg_db/data/requirement_set/90_coloreg.yaml +178 -0
- endoreg_db/data/requirement_set/_old_ +109 -0
- endoreg_db/data/requirement_set_type/data.yaml +21 -0
- endoreg_db/data/setup_config.yaml +4 -4
- endoreg_db/data/tag/requirement_set_tags.yaml +21 -0
- endoreg_db/exceptions.py +5 -2
- endoreg_db/helpers/data_loader.py +1 -1
- endoreg_db/management/commands/create_model_meta_from_huggingface.py +21 -10
- endoreg_db/management/commands/create_multilabel_model_meta.py +299 -129
- endoreg_db/management/commands/import_video.py +9 -10
- endoreg_db/management/commands/import_video_with_classification.py +1 -1
- endoreg_db/management/commands/init_default_ai_model.py +1 -1
- endoreg_db/management/commands/list_routes.py +18 -0
- endoreg_db/management/commands/load_ai_model_data.py +2 -1
- endoreg_db/management/commands/load_center_data.py +12 -12
- endoreg_db/management/commands/load_requirement_data.py +60 -31
- endoreg_db/management/commands/load_requirement_set_tags.py +95 -0
- endoreg_db/management/commands/setup_endoreg_db.py +14 -10
- endoreg_db/management/commands/storage_management.py +271 -203
- endoreg_db/migrations/0001_initial.py +1799 -1300
- endoreg_db/migrations/0002_requirementset_depends_on.py +18 -0
- endoreg_db/migrations/_old/0001_initial.py +1857 -0
- endoreg_db/migrations/_old/0004_employee_city_employee_post_code_employee_street_and_more.py +68 -0
- endoreg_db/migrations/_old/0004_remove_casetemplate_rules_and_more.py +77 -0
- endoreg_db/migrations/_old/0005_merge_20251111_1003.py +14 -0
- endoreg_db/migrations/_old/0006_sensitivemeta_anonymized_text_and_more.py +68 -0
- endoreg_db/migrations/_old/0007_remove_rule_attribute_dtype_remove_rule_rule_type_and_more.py +89 -0
- endoreg_db/migrations/_old/0008_remove_event_event_classification_and_more.py +27 -0
- endoreg_db/migrations/_old/0009_alter_modelmeta_options_and_more.py +21 -0
- endoreg_db/models/__init__.py +78 -123
- endoreg_db/models/administration/__init__.py +21 -42
- endoreg_db/models/administration/ai/active_model.py +2 -2
- endoreg_db/models/administration/ai/ai_model.py +7 -6
- endoreg_db/models/administration/case/__init__.py +1 -15
- endoreg_db/models/administration/case/case.py +3 -3
- endoreg_db/models/administration/case/case_template/__init__.py +2 -14
- endoreg_db/models/administration/case/case_template/case_template.py +2 -124
- endoreg_db/models/administration/case/case_template/case_template_rule.py +2 -268
- endoreg_db/models/administration/case/case_template/case_template_rule_value.py +2 -85
- endoreg_db/models/administration/case/case_template/case_template_type.py +2 -25
- endoreg_db/models/administration/center/center.py +33 -19
- endoreg_db/models/administration/center/center_product.py +12 -9
- endoreg_db/models/administration/center/center_resource.py +25 -19
- endoreg_db/models/administration/center/center_shift.py +21 -17
- endoreg_db/models/administration/center/center_waste.py +16 -8
- endoreg_db/models/administration/person/__init__.py +2 -0
- endoreg_db/models/administration/person/employee/employee.py +10 -5
- endoreg_db/models/administration/person/employee/employee_qualification.py +9 -4
- endoreg_db/models/administration/person/employee/employee_type.py +12 -6
- endoreg_db/models/administration/person/examiner/examiner.py +13 -11
- endoreg_db/models/administration/person/patient/__init__.py +2 -0
- endoreg_db/models/administration/person/patient/patient.py +103 -100
- endoreg_db/models/administration/person/patient/patient_external_id.py +37 -0
- endoreg_db/models/administration/person/person.py +4 -0
- endoreg_db/models/administration/person/profession/__init__.py +8 -4
- endoreg_db/models/administration/person/user/portal_user_information.py +11 -7
- endoreg_db/models/administration/product/product.py +20 -15
- endoreg_db/models/administration/product/product_material.py +17 -18
- endoreg_db/models/administration/product/product_weight.py +12 -8
- endoreg_db/models/administration/product/reference_product.py +23 -55
- endoreg_db/models/administration/qualification/qualification.py +7 -3
- endoreg_db/models/administration/qualification/qualification_type.py +7 -3
- endoreg_db/models/administration/shift/scheduled_days.py +8 -5
- endoreg_db/models/administration/shift/shift.py +16 -12
- endoreg_db/models/administration/shift/shift_type.py +23 -31
- endoreg_db/models/label/__init__.py +7 -8
- endoreg_db/models/label/annotation/image_classification.py +10 -9
- endoreg_db/models/label/annotation/video_segmentation_annotation.py +8 -5
- endoreg_db/models/label/label.py +15 -15
- endoreg_db/models/label/label_set.py +19 -6
- endoreg_db/models/label/label_type.py +1 -1
- endoreg_db/models/label/label_video_segment/_create_from_video.py +5 -8
- endoreg_db/models/label/label_video_segment/label_video_segment.py +76 -102
- endoreg_db/models/label/video_segmentation_label.py +4 -0
- endoreg_db/models/label/video_segmentation_labelset.py +4 -3
- endoreg_db/models/media/frame/frame.py +22 -22
- endoreg_db/models/media/pdf/raw_pdf.py +249 -177
- endoreg_db/models/media/pdf/report_file.py +25 -29
- endoreg_db/models/media/pdf/report_reader/report_reader_config.py +30 -46
- endoreg_db/models/media/pdf/report_reader/report_reader_flag.py +23 -7
- endoreg_db/models/media/video/__init__.py +1 -0
- endoreg_db/models/media/video/create_from_file.py +48 -56
- endoreg_db/models/media/video/pipe_1.py +30 -33
- endoreg_db/models/media/video/pipe_2.py +8 -9
- endoreg_db/models/media/video/video_file.py +359 -204
- endoreg_db/models/media/video/video_file_ai.py +288 -74
- endoreg_db/models/media/video/video_file_anonymize.py +38 -38
- endoreg_db/models/media/video/video_file_frames/__init__.py +3 -1
- endoreg_db/models/media/video/video_file_frames/_bulk_create_frames.py +6 -8
- endoreg_db/models/media/video/video_file_frames/_create_frame_object.py +7 -9
- endoreg_db/models/media/video/video_file_frames/_delete_frames.py +9 -8
- endoreg_db/models/media/video/video_file_frames/_extract_frames.py +38 -45
- endoreg_db/models/media/video/video_file_frames/_get_frame.py +6 -8
- endoreg_db/models/media/video/video_file_frames/_get_frame_number.py +4 -18
- endoreg_db/models/media/video/video_file_frames/_get_frame_path.py +4 -3
- endoreg_db/models/media/video/video_file_frames/_get_frame_paths.py +7 -6
- endoreg_db/models/media/video/video_file_frames/_get_frame_range.py +6 -8
- endoreg_db/models/media/video/video_file_frames/_get_frames.py +6 -8
- endoreg_db/models/media/video/video_file_frames/_initialize_frames.py +15 -25
- endoreg_db/models/media/video/video_file_frames/_manage_frame_range.py +26 -23
- endoreg_db/models/media/video/video_file_frames/_mark_frames_extracted_status.py +23 -14
- endoreg_db/models/media/video/video_file_io.py +109 -62
- endoreg_db/models/media/video/video_file_meta/get_crop_template.py +3 -3
- endoreg_db/models/media/video/video_file_meta/get_endo_roi.py +5 -3
- endoreg_db/models/media/video/video_file_meta/get_fps.py +37 -34
- endoreg_db/models/media/video/video_file_meta/initialize_video_specs.py +19 -25
- endoreg_db/models/media/video/video_file_meta/text_meta.py +41 -38
- endoreg_db/models/media/video/video_file_meta/video_meta.py +14 -7
- endoreg_db/models/media/video/video_file_segments.py +24 -17
- endoreg_db/models/media/video/video_metadata.py +19 -35
- endoreg_db/models/media/video/video_processing.py +96 -95
- endoreg_db/models/medical/contraindication/__init__.py +13 -3
- endoreg_db/models/medical/disease.py +22 -16
- endoreg_db/models/medical/event.py +31 -18
- endoreg_db/models/medical/examination/__init__.py +13 -6
- endoreg_db/models/medical/examination/examination.py +17 -18
- endoreg_db/models/medical/examination/examination_indication.py +26 -25
- endoreg_db/models/medical/examination/examination_time.py +16 -6
- endoreg_db/models/medical/examination/examination_time_type.py +9 -6
- endoreg_db/models/medical/examination/examination_type.py +3 -4
- endoreg_db/models/medical/finding/finding.py +38 -39
- endoreg_db/models/medical/finding/finding_classification.py +37 -48
- endoreg_db/models/medical/finding/finding_intervention.py +27 -22
- endoreg_db/models/medical/finding/finding_type.py +13 -12
- endoreg_db/models/medical/hardware/endoscope.py +20 -26
- endoreg_db/models/medical/hardware/endoscopy_processor.py +2 -2
- endoreg_db/models/medical/laboratory/lab_value.py +62 -91
- endoreg_db/models/medical/medication/medication.py +22 -10
- endoreg_db/models/medical/medication/medication_indication.py +29 -3
- endoreg_db/models/medical/medication/medication_indication_type.py +25 -14
- endoreg_db/models/medical/medication/medication_intake_time.py +31 -19
- endoreg_db/models/medical/medication/medication_schedule.py +27 -16
- endoreg_db/models/medical/organ/__init__.py +15 -12
- endoreg_db/models/medical/patient/medication_examples.py +1 -5
- endoreg_db/models/medical/patient/patient_disease.py +20 -23
- endoreg_db/models/medical/patient/patient_event.py +19 -22
- endoreg_db/models/medical/patient/patient_examination.py +48 -54
- endoreg_db/models/medical/patient/patient_examination_indication.py +16 -14
- endoreg_db/models/medical/patient/patient_finding.py +122 -139
- endoreg_db/models/medical/patient/patient_finding_classification.py +44 -49
- endoreg_db/models/medical/patient/patient_finding_intervention.py +8 -19
- endoreg_db/models/medical/patient/patient_lab_sample.py +28 -23
- endoreg_db/models/medical/patient/patient_lab_value.py +82 -89
- endoreg_db/models/medical/patient/patient_medication.py +27 -38
- endoreg_db/models/medical/patient/patient_medication_schedule.py +28 -36
- endoreg_db/models/medical/risk/risk.py +7 -6
- endoreg_db/models/medical/risk/risk_type.py +8 -5
- endoreg_db/models/metadata/model_meta.py +60 -29
- endoreg_db/models/metadata/model_meta_logic.py +139 -18
- endoreg_db/models/metadata/pdf_meta.py +19 -24
- endoreg_db/models/metadata/sensitive_meta.py +102 -85
- endoreg_db/models/metadata/sensitive_meta_logic.py +383 -43
- endoreg_db/models/metadata/video_meta.py +51 -31
- endoreg_db/models/metadata/video_prediction_logic.py +16 -23
- endoreg_db/models/metadata/video_prediction_meta.py +29 -33
- endoreg_db/models/other/distribution/date_value_distribution.py +89 -29
- endoreg_db/models/other/distribution/multiple_categorical_value_distribution.py +21 -5
- endoreg_db/models/other/distribution/numeric_value_distribution.py +114 -53
- endoreg_db/models/other/distribution/single_categorical_value_distribution.py +4 -3
- endoreg_db/models/other/emission/emission_factor.py +18 -8
- endoreg_db/models/other/gender.py +10 -5
- endoreg_db/models/other/information_source.py +25 -25
- endoreg_db/models/other/material.py +9 -5
- endoreg_db/models/other/resource.py +6 -4
- endoreg_db/models/other/tag.py +10 -5
- endoreg_db/models/other/transport_route.py +13 -8
- endoreg_db/models/other/unit.py +10 -6
- endoreg_db/models/other/waste.py +6 -5
- endoreg_db/models/requirement/requirement.py +580 -272
- endoreg_db/models/requirement/requirement_error.py +85 -0
- endoreg_db/models/requirement/requirement_evaluation/evaluate_with_dependencies.py +268 -0
- endoreg_db/models/requirement/requirement_evaluation/operator_evaluation_models.py +3 -6
- endoreg_db/models/requirement/requirement_evaluation/requirement_type_parser.py +90 -64
- endoreg_db/models/requirement/requirement_operator.py +36 -33
- endoreg_db/models/requirement/requirement_set.py +74 -57
- endoreg_db/models/state/__init__.py +4 -4
- endoreg_db/models/state/abstract.py +2 -2
- endoreg_db/models/state/anonymization.py +12 -0
- endoreg_db/models/state/audit_ledger.py +46 -47
- endoreg_db/models/state/label_video_segment.py +9 -0
- endoreg_db/models/state/raw_pdf.py +40 -46
- endoreg_db/models/state/sensitive_meta.py +6 -2
- endoreg_db/models/state/video.py +58 -53
- endoreg_db/models/upload_job.py +32 -55
- endoreg_db/models/utils.py +1 -2
- endoreg_db/root_urls.py +21 -2
- endoreg_db/serializers/__init__.py +26 -57
- endoreg_db/serializers/anonymization.py +18 -10
- endoreg_db/serializers/meta/report_meta.py +1 -1
- endoreg_db/serializers/meta/sensitive_meta_detail.py +63 -118
- endoreg_db/serializers/misc/__init__.py +1 -1
- endoreg_db/serializers/misc/file_overview.py +33 -91
- endoreg_db/serializers/misc/{vop_patient_data.py → sensitive_patient_data.py} +1 -1
- endoreg_db/serializers/requirements/requirement_sets.py +92 -22
- endoreg_db/serializers/video/segmentation.py +2 -1
- endoreg_db/serializers/video/video_processing_history.py +20 -5
- endoreg_db/serializers/video_examination.py +198 -0
- endoreg_db/services/anonymization.py +75 -73
- endoreg_db/services/lookup_service.py +256 -73
- endoreg_db/services/lookup_store.py +174 -30
- endoreg_db/services/pdf_import.py +711 -310
- endoreg_db/services/storage_aware_video_processor.py +140 -114
- endoreg_db/services/video_import.py +266 -117
- endoreg_db/urls/__init__.py +27 -27
- endoreg_db/urls/label_video_segments.py +2 -0
- endoreg_db/urls/media.py +108 -66
- endoreg_db/urls/root_urls.py +29 -0
- endoreg_db/utils/__init__.py +15 -5
- endoreg_db/utils/ai/multilabel_classification_net.py +116 -20
- endoreg_db/utils/case_generator/__init__.py +3 -0
- endoreg_db/utils/dataloader.py +88 -16
- endoreg_db/utils/defaults/set_default_center.py +32 -0
- endoreg_db/utils/names.py +22 -16
- endoreg_db/utils/permissions.py +2 -1
- endoreg_db/utils/pipelines/process_video_dir.py +1 -1
- endoreg_db/utils/requirement_operator_logic/model_evaluators.py +414 -127
- endoreg_db/utils/setup_config.py +8 -5
- endoreg_db/utils/storage.py +115 -0
- endoreg_db/utils/validate_endo_roi.py +8 -2
- endoreg_db/utils/video/ffmpeg_wrapper.py +184 -188
- endoreg_db/views/__init__.py +5 -12
- endoreg_db/views/anonymization/media_management.py +198 -163
- endoreg_db/views/anonymization/overview.py +4 -1
- endoreg_db/views/anonymization/validate.py +174 -40
- endoreg_db/views/media/__init__.py +2 -0
- endoreg_db/views/media/pdf_media.py +131 -150
- endoreg_db/views/media/sensitive_metadata.py +46 -6
- endoreg_db/views/media/video_media.py +89 -82
- endoreg_db/views/media/video_segments.py +187 -260
- endoreg_db/views/meta/sensitive_meta_detail.py +0 -63
- endoreg_db/views/patient/patient.py +5 -4
- endoreg_db/views/pdf/__init__.py +5 -8
- endoreg_db/views/pdf/pdf_stream.py +186 -0
- endoreg_db/views/pdf/pdf_stream_views.py +0 -127
- endoreg_db/views/pdf/reimport.py +86 -91
- endoreg_db/views/requirement/evaluate.py +188 -187
- endoreg_db/views/requirement/lookup.py +186 -288
- endoreg_db/views/requirement/requirement_utils.py +89 -0
- endoreg_db/views/video/__init__.py +0 -4
- endoreg_db/views/video/correction.py +2 -2
- endoreg_db/views/video/video_examination_viewset.py +202 -289
- {endoreg_db-0.8.4.4.dist-info → endoreg_db-0.8.8.0.dist-info}/METADATA +7 -3
- {endoreg_db-0.8.4.4.dist-info → endoreg_db-0.8.8.0.dist-info}/RECORD +350 -255
- endoreg_db/models/administration/permissions/__init__.py +0 -44
- endoreg_db/models/media/video/refactor_plan.md +0 -0
- endoreg_db/models/media/video/video_file_frames.py +0 -0
- endoreg_db/models/metadata/frame_ocr_result.py +0 -0
- endoreg_db/models/rule/__init__.py +0 -13
- endoreg_db/models/rule/rule.py +0 -27
- endoreg_db/models/rule/rule_applicator.py +0 -224
- endoreg_db/models/rule/rule_attribute_dtype.py +0 -17
- endoreg_db/models/rule/rule_type.py +0 -20
- endoreg_db/models/rule/ruleset.py +0 -17
- endoreg_db/serializers/video/video_metadata.py +0 -105
- endoreg_db/urls/report.py +0 -48
- endoreg_db/urls/video.py +0 -61
- endoreg_db/utils/case_generator/case_generator.py +0 -159
- endoreg_db/utils/case_generator/utils.py +0 -30
- endoreg_db/views/pdf/pdf_media.py +0 -239
- endoreg_db/views/report/__init__.py +0 -9
- endoreg_db/views/report/report_list.py +0 -112
- endoreg_db/views/report/report_with_secure_url.py +0 -28
- endoreg_db/views/report/start_examination.py +0 -7
- endoreg_db/views/video/video_media.py +0 -158
- endoreg_db/views.py +0 -0
- /endoreg_db/data/{requirement_set → _examples/requirement_set}/endoscopy_bleeding_risk.yaml +0 -0
- /endoreg_db/migrations/{0002_add_video_correction_models.py → _old/0002_add_video_correction_models.py} +0 -0
- /endoreg_db/migrations/{0003_add_center_display_name.py → _old/0003_add_center_display_name.py} +0 -0
- {endoreg_db-0.8.4.4.dist-info → endoreg_db-0.8.8.0.dist-info}/WHEEL +0 -0
- {endoreg_db-0.8.4.4.dist-info → endoreg_db-0.8.8.0.dist-info}/licenses/LICENSE +0 -0
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# Generated by Django 5.2.7 on 2025-11-05 08:39
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import django.db.models.deletion
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from django.db import migrations, models
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class Migration(migrations.Migration):
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dependencies = [
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('endoreg_db', '0003_add_center_display_name'),
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]
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operations = [
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migrations.AddField(
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model_name='employee',
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name='city',
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field=models.CharField(blank=True, max_length=255, null=True),
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migrations.AddField(
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model_name='employee',
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name='post_code',
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field=models.CharField(blank=True, max_length=20, null=True),
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migrations.AddField(
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model_name='employee',
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name='street',
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field=models.CharField(blank=True, max_length=255, null=True),
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migrations.AddField(
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model_name='examiner',
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name='city',
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field=models.CharField(blank=True, max_length=255, null=True),
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migrations.AddField(
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model_name='examiner',
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name='post_code',
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field=models.CharField(blank=True, max_length=20, null=True),
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migrations.AddField(
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model_name='examiner',
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name='street',
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field=models.CharField(blank=True, max_length=255, null=True),
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),
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migrations.AddField(
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model_name='patient',
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name='city',
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field=models.CharField(blank=True, max_length=255, null=True),
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migrations.AddField(
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model_name='patient',
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name='post_code',
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field=models.CharField(blank=True, max_length=20, null=True),
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migrations.AddField(
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model_name='patient',
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name='street',
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field=models.CharField(blank=True, max_length=255, null=True),
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migrations.CreateModel(
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name='PatientExternalID',
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fields=[
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('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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('external_id', models.CharField(max_length=255, unique=True)),
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('origin', models.CharField(max_length=255)),
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('patient', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='external_ids', to='endoreg_db.patient')),
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# Generated by Django 5.2.7 on 2025-11-10 16:54
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import django.core.validators
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from django.db import migrations, models
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class Migration(migrations.Migration):
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dependencies = [
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('endoreg_db', '0003_add_center_display_name'),
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]
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operations = [
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migrations.RemoveField(
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model_name='casetemplate',
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name='rules',
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migrations.RemoveField(
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model_name='casetemplate',
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name='secondary_rules',
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migrations.RemoveField(
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model_name='casetemplate',
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name='template_type',
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migrations.RemoveField(
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model_name='casetemplaterule',
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name='chained_rules',
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migrations.RemoveField(
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model_name='casetemplaterule',
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name='date_value_distribution',
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migrations.RemoveField(
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model_name='casetemplaterule',
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name='multiple_categorical_value_distribution',
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migrations.RemoveField(
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model_name='casetemplaterule',
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name='numerical_value_distribution',
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),
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migrations.RemoveField(
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model_name='casetemplaterule',
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name='rule_type',
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),
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migrations.RemoveField(
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model_name='casetemplaterule',
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name='single_categorical_value_distribution',
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migrations.RemoveField(
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model_name='casetemplaterule',
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name='value_type',
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migrations.DeleteModel(
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name='CaseTemplateRuleValue',
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migrations.AlterField(
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model_name='modelmeta',
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name='weights',
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field=models.FileField(blank=True, help_text='Path to the model weights file (.safetensors), relative to MEDIA_ROOT.', null=True, upload_to='model_weights', validators=[django.core.validators.FileExtensionValidator(allowed_extensions=['safetensors', 'pth', 'pt'])]),
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migrations.DeleteModel(
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name='CaseTemplate',
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migrations.DeleteModel(
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name='CaseTemplateType',
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migrations.DeleteModel(
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name='CaseTemplateRuleType',
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migrations.DeleteModel(
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name='CaseTemplateRule',
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migrations.DeleteModel(
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name='CaseTemplateRuleValueType',
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# Generated by Django 5.2.7 on 2025-11-11 09:03
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from django.db import migrations
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class Migration(migrations.Migration):
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dependencies = [
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('endoreg_db', '0004_employee_city_employee_post_code_employee_street_and_more'),
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('endoreg_db', '0004_remove_casetemplate_rules_and_more'),
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]
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operations = [
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]
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# Generated by Django 5.2.7 on 2025-11-11 15:54
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import django.db.models.deletion
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from django.db import migrations, models
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class Migration(migrations.Migration):
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dependencies = [
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('endoreg_db', '0005_merge_20251111_1003'),
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]
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operations = [
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migrations.AddField(
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model_name='sensitivemeta',
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name='anonymized_text',
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field=models.TextField(blank=True, null=True),
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),
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migrations.AddField(
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model_name='sensitivemeta',
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name='casenumber',
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field=models.CharField(blank=True, max_length=255, null=True),
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),
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migrations.AddField(
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model_name='sensitivemeta',
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name='examination_time',
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field=models.TimeField(blank=True, null=True),
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),
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migrations.AddField(
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model_name='sensitivemeta',
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name='external_id',
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field=models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.patientexternalid'),
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),
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migrations.AddField(
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model_name='sensitivemeta',
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name='file_path',
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field=models.CharField(blank=True, max_length=1024, null=True),
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),
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migrations.AddField(
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model_name='sensitivemeta',
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name='text',
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field=models.TextField(blank=True, null=True),
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),
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migrations.AlterField(
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model_name='patientexternalid',
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name='external_id',
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field=models.CharField(max_length=255),
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),
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migrations.AlterField(
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model_name='sensitivemeta',
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name='center',
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field=models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.center'),
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),
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migrations.AlterField(
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model_name='sensitivemeta',
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name='examiners',
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field=models.ManyToManyField(blank=True, help_text='Pseudo-anonymized examiner(s)', to='endoreg_db.examiner'),
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),
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migrations.AlterField(
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model_name='sensitivemeta',
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name='patient_dob',
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field=models.DateTimeField(blank=True, help_text='Date of birth (can be auto-generated).', null=True),
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),
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migrations.AddConstraint(
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model_name='patientexternalid',
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constraint=models.UniqueConstraint(fields=('origin', 'external_id'), name='uniq_patient_external_id_per_origin'),
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),
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]
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# Generated by Django 5.2.7 on 2025-11-12 15:57
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import django.core.validators
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import django.db.models.deletion
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from django.db import migrations, models
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class Migration(migrations.Migration):
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dependencies = [
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('endoreg_db', '0006_sensitivemeta_anonymized_text_and_more'),
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]
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operations = [
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migrations.RemoveField(
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model_name='rule',
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name='attribute_dtype',
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),
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migrations.RemoveField(
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model_name='rule',
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name='rule_type',
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),
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migrations.RemoveField(
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model_name='ruleset',
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name='rules',
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),
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migrations.AddField(
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model_name='numericvaluedistribution',
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name='max_value',
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field=models.FloatField(blank=True, help_text='Upper hard limit for generated values', null=True),
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),
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migrations.AddField(
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model_name='numericvaluedistribution',
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name='mean',
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field=models.FloatField(blank=True, help_text='Mean used for normal or skewed normal distributions', null=True),
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),
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migrations.AddField(
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model_name='numericvaluedistribution',
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name='min_value',
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field=models.FloatField(blank=True, help_text='Lower hard limit for generated values', null=True),
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),
|
|
42
|
+
migrations.AddField(
|
|
43
|
+
model_name='numericvaluedistribution',
|
|
44
|
+
name='skewness',
|
|
45
|
+
field=models.FloatField(blank=True, help_text='Shape parameter for skewed normal distributions', null=True),
|
|
46
|
+
),
|
|
47
|
+
migrations.AddField(
|
|
48
|
+
model_name='numericvaluedistribution',
|
|
49
|
+
name='std_dev',
|
|
50
|
+
field=models.FloatField(blank=True, help_text='Standard deviation for bell-shaped distributions', null=True),
|
|
51
|
+
),
|
|
52
|
+
migrations.AlterField(
|
|
53
|
+
model_name='anonymexaminationreport',
|
|
54
|
+
name='file',
|
|
55
|
+
field=models.FileField(blank=True, null=True, upload_to='pdfs'),
|
|
56
|
+
),
|
|
57
|
+
migrations.AlterField(
|
|
58
|
+
model_name='anonymhistologyreport',
|
|
59
|
+
name='file',
|
|
60
|
+
field=models.FileField(blank=True, null=True, upload_to='pdfs'),
|
|
61
|
+
),
|
|
62
|
+
migrations.AlterField(
|
|
63
|
+
model_name='rawpdffile',
|
|
64
|
+
name='anonymized_file',
|
|
65
|
+
field=models.FileField(blank=True, null=True, upload_to='pdfs', validators=[django.core.validators.FileExtensionValidator(allowed_extensions=['pdf'])]),
|
|
66
|
+
),
|
|
67
|
+
migrations.AlterField(
|
|
68
|
+
model_name='rawpdffile',
|
|
69
|
+
name='file',
|
|
70
|
+
field=models.FileField(upload_to='pdfs', validators=[django.core.validators.FileExtensionValidator(allowed_extensions=['pdf'])]),
|
|
71
|
+
),
|
|
72
|
+
migrations.AlterField(
|
|
73
|
+
model_name='sensitivemeta',
|
|
74
|
+
name='center',
|
|
75
|
+
field=models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.center'),
|
|
76
|
+
),
|
|
77
|
+
migrations.DeleteModel(
|
|
78
|
+
name='RuleAttributeDType',
|
|
79
|
+
),
|
|
80
|
+
migrations.DeleteModel(
|
|
81
|
+
name='RuleType',
|
|
82
|
+
),
|
|
83
|
+
migrations.DeleteModel(
|
|
84
|
+
name='Rule',
|
|
85
|
+
),
|
|
86
|
+
migrations.DeleteModel(
|
|
87
|
+
name='Ruleset',
|
|
88
|
+
),
|
|
89
|
+
]
|
|
@@ -0,0 +1,27 @@
|
|
|
1
|
+
# Generated by Django 5.2.7 on 2025-11-13 09:13
|
|
2
|
+
|
|
3
|
+
import django.db.models.deletion
|
|
4
|
+
from django.db import migrations, models
|
|
5
|
+
|
|
6
|
+
|
|
7
|
+
class Migration(migrations.Migration):
|
|
8
|
+
dependencies = [
|
|
9
|
+
("endoreg_db", "0007_remove_rule_attribute_dtype_remove_rule_rule_type_and_more"),
|
|
10
|
+
]
|
|
11
|
+
|
|
12
|
+
operations = [
|
|
13
|
+
migrations.RemoveField(
|
|
14
|
+
model_name="event",
|
|
15
|
+
name="event_classification",
|
|
16
|
+
),
|
|
17
|
+
migrations.RemoveField(
|
|
18
|
+
model_name="organ",
|
|
19
|
+
name="location_choices",
|
|
20
|
+
),
|
|
21
|
+
migrations.AddField(
|
|
22
|
+
model_name="eventclassification",
|
|
23
|
+
name="event",
|
|
24
|
+
field=models.ForeignKey(default=1, on_delete=django.db.models.deletion.CASCADE, related_name="event_classifications", to="endoreg_db.event"),
|
|
25
|
+
preserve_default=False,
|
|
26
|
+
),
|
|
27
|
+
]
|
|
@@ -0,0 +1,21 @@
|
|
|
1
|
+
# Generated by Django 5.2.7 on 2025-11-16 16:47
|
|
2
|
+
|
|
3
|
+
from django.db import migrations
|
|
4
|
+
|
|
5
|
+
|
|
6
|
+
class Migration(migrations.Migration):
|
|
7
|
+
|
|
8
|
+
dependencies = [
|
|
9
|
+
('endoreg_db', '0008_remove_event_event_classification_and_more'),
|
|
10
|
+
]
|
|
11
|
+
|
|
12
|
+
operations = [
|
|
13
|
+
migrations.AlterModelOptions(
|
|
14
|
+
name='modelmeta',
|
|
15
|
+
options={'ordering': ['-date_created'], 'verbose_name': 'Model Metadata', 'verbose_name_plural': 'Model Metadata'},
|
|
16
|
+
),
|
|
17
|
+
migrations.AlterUniqueTogether(
|
|
18
|
+
name='modelmeta',
|
|
19
|
+
unique_together={('name', 'version', 'model')},
|
|
20
|
+
),
|
|
21
|
+
]
|