endoreg-db 0.8.6.1__py3-none-any.whl → 0.8.8.9__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 +2 -11
- endoreg_db/data/ai_model_meta/default_multilabel_classification.yaml +3 -3
- endoreg_db/data/event_classification/data.yaml +4 -0
- endoreg_db/data/event_classification_choice/data.yaml +9 -0
- endoreg_db/data/examination/examinations/data.yaml +114 -14
- endoreg_db/data/examination/time-type/data.yaml +0 -3
- endoreg_db/data/examination_indication/endoscopy.yaml +108 -173
- endoreg_db/data/examination_indication_classification/endoscopy.yaml +0 -70
- endoreg_db/data/examination_indication_classification_choice/endoscopy.yaml +33 -37
- endoreg_db/data/finding/00_generic.yaml +35 -0
- endoreg_db/data/finding/00_generic_complication.yaml +9 -0
- endoreg_db/data/finding/01_gastroscopy_baseline.yaml +88 -0
- endoreg_db/data/finding/01_gastroscopy_observation.yaml +113 -0
- endoreg_db/data/finding/02_colonoscopy_baseline.yaml +53 -0
- endoreg_db/data/finding/02_colonoscopy_hidden.yaml +119 -0
- endoreg_db/data/finding/02_colonoscopy_observation.yaml +152 -0
- endoreg_db/data/finding_classification/00_generic.yaml +44 -0
- endoreg_db/data/finding_classification/00_generic_histology.yaml +28 -0
- endoreg_db/data/finding_classification/00_generic_lesion.yaml +52 -0
- endoreg_db/data/finding_classification/02_colonoscopy_baseline.yaml +83 -0
- endoreg_db/data/finding_classification/02_colonoscopy_histology.yaml +13 -0
- endoreg_db/data/finding_classification/02_colonoscopy_other.yaml +12 -0
- endoreg_db/data/finding_classification/02_colonoscopy_polyp.yaml +101 -0
- endoreg_db/data/finding_classification_choice/{yes_no_na.yaml → 00_generic.yaml} +5 -1
- endoreg_db/data/finding_classification_choice/{examination_setting_generic_types.yaml → 00_generic_baseline.yaml} +10 -2
- endoreg_db/data/finding_classification_choice/{complication_generic_types.yaml → 00_generic_complication.yaml} +1 -1
- endoreg_db/data/finding_classification_choice/{histology.yaml → 00_generic_histology.yaml} +1 -4
- endoreg_db/data/finding_classification_choice/00_generic_lesion.yaml +158 -0
- endoreg_db/data/finding_classification_choice/{bowel_preparation.yaml → 02_colonoscopy_bowel_preparation.yaml} +1 -30
- endoreg_db/data/finding_classification_choice/{colonoscopy_not_complete_reason.yaml → 02_colonoscopy_generic.yaml} +1 -1
- endoreg_db/data/finding_classification_choice/{histology_polyp.yaml → 02_colonoscopy_histology.yaml} +1 -1
- endoreg_db/data/finding_classification_choice/{colonoscopy_location.yaml → 02_colonoscopy_location.yaml} +23 -4
- endoreg_db/data/finding_classification_choice/02_colonoscopy_other.yaml +34 -0
- endoreg_db/data/finding_classification_choice/02_colonoscopy_polyp_advanced_imaging.yaml +76 -0
- endoreg_db/data/finding_classification_choice/{colon_lesion_paris.yaml → 02_colonoscopy_polyp_morphology.yaml} +26 -8
- endoreg_db/data/finding_classification_choice/02_colonoscopy_size.yaml +27 -0
- endoreg_db/data/finding_classification_type/{colonoscopy_basic.yaml → 00_generic.yaml} +18 -13
- endoreg_db/data/finding_classification_type/02_colonoscopy.yaml +9 -0
- endoreg_db/data/finding_intervention/00_generic_endoscopy.yaml +59 -0
- endoreg_db/data/finding_intervention/00_generic_endoscopy_ablation.yaml +44 -0
- endoreg_db/data/finding_intervention/00_generic_endoscopy_bleeding.yaml +55 -0
- endoreg_db/data/finding_intervention/00_generic_endoscopy_resection.yaml +85 -0
- endoreg_db/data/finding_intervention/00_generic_endoscopy_stenosis.yaml +17 -0
- endoreg_db/data/finding_intervention/00_generic_endoscopy_stent.yaml +9 -0
- endoreg_db/data/finding_intervention/01_gastroscopy.yaml +19 -0
- endoreg_db/data/finding_intervention/04_eus.yaml +39 -0
- endoreg_db/data/finding_intervention/05_ercp.yaml +3 -0
- endoreg_db/data/finding_type/data.yaml +8 -12
- endoreg_db/data/requirement/01_patient_data.yaml +93 -0
- endoreg_db/data/requirement/old/colon_polyp_intervention.yaml +49 -0
- endoreg_db/data/requirement/old/coloreg_colon_polyp.yaml +49 -0
- endoreg_db/data/requirement_operator/new_operators.yaml +36 -0
- endoreg_db/data/requirement_set/01_endoscopy_generic.yaml +29 -12
- endoreg_db/data/requirement_set/01_laboratory.yaml +13 -0
- endoreg_db/data/requirement_set/{endoscopy_bleeding_risk.yaml → 02_endoscopy_bleeding_risk.yaml} +0 -6
- endoreg_db/data/requirement_set/90_coloreg.yaml +190 -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 +4 -2
- endoreg_db/forms/examination_form.py +1 -1
- endoreg_db/helpers/data_loader.py +125 -53
- endoreg_db/helpers/default_objects.py +116 -81
- endoreg_db/import_files/__init__.py +27 -0
- endoreg_db/import_files/context/__init__.py +7 -0
- endoreg_db/import_files/context/default_sensitive_meta.py +81 -0
- endoreg_db/import_files/context/ensure_center.py +17 -0
- endoreg_db/import_files/context/file_lock.py +66 -0
- endoreg_db/import_files/context/import_context.py +43 -0
- endoreg_db/import_files/context/validate_directories.py +56 -0
- endoreg_db/import_files/file_storage/__init__.py +15 -0
- endoreg_db/import_files/file_storage/create_report_file.py +76 -0
- endoreg_db/import_files/file_storage/create_video_file.py +75 -0
- endoreg_db/import_files/file_storage/sensitive_meta_storage.py +39 -0
- endoreg_db/import_files/file_storage/state_management.py +400 -0
- endoreg_db/import_files/file_storage/storage.py +36 -0
- endoreg_db/import_files/import_service.md +26 -0
- endoreg_db/import_files/processing/__init__.py +11 -0
- endoreg_db/import_files/processing/report_processing/report_anonymization.py +94 -0
- endoreg_db/import_files/processing/sensitive_meta_adapter.py +51 -0
- endoreg_db/import_files/processing/video_processing/video_anonymization.py +107 -0
- endoreg_db/import_files/processing/video_processing/video_cleanup_on_error.py +119 -0
- endoreg_db/import_files/pseudonymization/fake.py +52 -0
- endoreg_db/import_files/pseudonymization/k_anonymity.py +182 -0
- endoreg_db/import_files/pseudonymization/k_pseudonymity.py +128 -0
- endoreg_db/import_files/report_import_service.py +141 -0
- endoreg_db/import_files/video_import_service.py +150 -0
- 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_report.py +130 -65
- endoreg_db/management/commands/import_video.py +9 -10
- endoreg_db/management/commands/import_video_with_classification.py +2 -2
- endoreg_db/management/commands/list_routes.py +18 -0
- endoreg_db/management/commands/load_ai_model_data.py +5 -5
- endoreg_db/management/commands/load_ai_model_label_data.py +9 -7
- endoreg_db/management/commands/load_base_db_data.py +5 -134
- endoreg_db/management/commands/load_center_data.py +12 -12
- endoreg_db/management/commands/load_contraindication_data.py +14 -16
- endoreg_db/management/commands/load_disease_classification_choices_data.py +15 -18
- endoreg_db/management/commands/load_disease_classification_data.py +15 -18
- endoreg_db/management/commands/load_disease_data.py +25 -28
- endoreg_db/management/commands/load_endoscope_data.py +20 -27
- endoreg_db/management/commands/load_event_data.py +14 -16
- endoreg_db/management/commands/load_examination_data.py +31 -44
- endoreg_db/management/commands/load_examination_indication_data.py +20 -21
- endoreg_db/management/commands/load_finding_data.py +52 -80
- endoreg_db/management/commands/load_information_source.py +21 -23
- endoreg_db/management/commands/load_lab_value_data.py +17 -26
- endoreg_db/management/commands/load_medication_data.py +13 -12
- endoreg_db/management/commands/load_organ_data.py +15 -19
- endoreg_db/management/commands/load_pdf_type_data.py +19 -18
- endoreg_db/management/commands/load_profession_data.py +14 -17
- endoreg_db/management/commands/load_qualification_data.py +20 -23
- endoreg_db/management/commands/load_report_reader_flag_data.py +17 -19
- endoreg_db/management/commands/load_requirement_data.py +62 -39
- endoreg_db/management/commands/load_requirement_set_tags.py +95 -0
- endoreg_db/management/commands/load_risk_data.py +7 -6
- endoreg_db/management/commands/load_shift_data.py +20 -23
- endoreg_db/management/commands/load_tag_data.py +8 -11
- endoreg_db/management/commands/load_unit_data.py +17 -19
- endoreg_db/management/commands/setup_endoreg_db.py +3 -3
- endoreg_db/management/commands/start_filewatcher.py +46 -37
- endoreg_db/management/commands/storage_management.py +271 -203
- endoreg_db/management/commands/validate_video_files.py +1 -5
- endoreg_db/migrations/0001_initial.py +297 -250
- 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 +129 -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 +8 -9
- endoreg_db/models/label/annotation/image_classification.py +10 -9
- endoreg_db/models/label/annotation/video_segmentation_annotation.py +23 -28
- 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 +98 -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 +194 -194
- endoreg_db/models/media/pdf/report_file.py +25 -29
- endoreg_db/models/media/pdf/report_reader/report_reader_config.py +55 -47
- endoreg_db/models/media/pdf/report_reader/report_reader_flag.py +23 -7
- endoreg_db/models/media/processing_history/__init__.py +5 -0
- endoreg_db/models/media/processing_history/processing_history.py +96 -0
- endoreg_db/models/media/video/__init__.py +1 -0
- endoreg_db/models/media/video/create_from_file.py +139 -77
- endoreg_db/models/media/video/pipe_2.py +8 -9
- endoreg_db/models/media/video/video_file.py +174 -112
- 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 +113 -61
- 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/README.md +1 -0
- 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 +39 -20
- endoreg_db/models/medical/examination/examination_indication.py +30 -95
- endoreg_db/models/medical/examination/examination_time.py +23 -8
- 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 +32 -40
- endoreg_db/models/medical/finding/finding_classification.py +42 -72
- endoreg_db/models/medical/finding/finding_intervention.py +25 -22
- endoreg_db/models/medical/finding/finding_type.py +13 -12
- endoreg_db/models/medical/hardware/endoscope.py +26 -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 +6 -6
- 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 +125 -18
- endoreg_db/models/metadata/pdf_meta.py +31 -24
- endoreg_db/models/metadata/sensitive_meta.py +105 -85
- endoreg_db/models/metadata/sensitive_meta_logic.py +198 -103
- 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 +50 -29
- 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/report/report.py +6 -0
- endoreg_db/models/requirement/requirement.py +329 -361
- 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 +103 -112
- 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 +49 -51
- endoreg_db/models/state/label_video_segment.py +9 -0
- endoreg_db/models/state/raw_pdf.py +101 -68
- endoreg_db/models/state/sensitive_meta.py +6 -2
- endoreg_db/models/state/video.py +110 -90
- endoreg_db/models/upload_job.py +35 -34
- endoreg_db/models/utils.py +28 -25
- endoreg_db/queries/__init__.py +3 -1
- endoreg_db/root_urls.py +21 -2
- endoreg_db/schemas/examination_evaluation.py +1 -1
- endoreg_db/serializers/__init__.py +2 -10
- endoreg_db/serializers/anonymization.py +18 -10
- endoreg_db/serializers/label_video_segment/label_video_segment.py +2 -29
- endoreg_db/serializers/meta/__init__.py +1 -6
- endoreg_db/serializers/meta/sensitive_meta_detail.py +63 -118
- endoreg_db/serializers/misc/file_overview.py +11 -99
- endoreg_db/serializers/misc/sensitive_patient_data.py +50 -26
- endoreg_db/serializers/patient_examination/patient_examination.py +3 -3
- endoreg_db/serializers/pdf/anony_text_validation.py +39 -23
- endoreg_db/serializers/requirements/requirement_sets.py +92 -22
- endoreg_db/serializers/video/segmentation.py +2 -1
- endoreg_db/serializers/video/video_file_list.py +65 -34
- endoreg_db/serializers/video/video_processing_history.py +20 -5
- endoreg_db/services/__old/pdf_import.py +1487 -0
- endoreg_db/services/__old/video_import.py +1306 -0
- endoreg_db/services/anonymization.py +128 -89
- endoreg_db/services/lookup_service.py +65 -52
- endoreg_db/services/lookup_store.py +2 -2
- endoreg_db/services/pdf_import.py +0 -1382
- endoreg_db/services/report_import.py +10 -0
- endoreg_db/services/video_import.py +6 -1255
- endoreg_db/tasks/upload_tasks.py +79 -70
- endoreg_db/tasks/video_ingest.py +8 -4
- endoreg_db/urls/__init__.py +5 -32
- endoreg_db/urls/ai.py +32 -0
- endoreg_db/urls/media.py +121 -83
- 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 +142 -40
- endoreg_db/utils/defaults/set_default_center.py +32 -0
- endoreg_db/utils/names.py +22 -16
- endoreg_db/utils/paths.py +110 -46
- endoreg_db/utils/permissions.py +2 -1
- endoreg_db/utils/pipelines/Readme.md +1 -1
- endoreg_db/utils/pipelines/process_video_dir.py +1 -1
- endoreg_db/utils/requirement_operator_logic/_old/model_evaluators.py +655 -0
- endoreg_db/utils/requirement_operator_logic/new_operator_logic.py +97 -0
- 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 +85 -183
- endoreg_db/views/ai/__init__.py +8 -0
- endoreg_db/views/ai/label.py +155 -0
- endoreg_db/views/anonymization/media_management.py +202 -166
- endoreg_db/views/anonymization/overview.py +99 -67
- endoreg_db/views/anonymization/validate.py +182 -44
- endoreg_db/views/media/__init__.py +7 -20
- endoreg_db/views/media/pdf_media.py +197 -174
- endoreg_db/views/media/sensitive_metadata.py +193 -138
- endoreg_db/views/media/video_media.py +89 -82
- endoreg_db/views/meta/__init__.py +0 -8
- endoreg_db/views/misc/__init__.py +1 -7
- endoreg_db/views/misc/upload_views.py +94 -93
- endoreg_db/views/patient/patient.py +5 -4
- endoreg_db/views/report/__init__.py +5 -7
- endoreg_db/views/{pdf → report}/reimport.py +22 -22
- endoreg_db/views/{pdf/pdf_stream.py → report/report_stream.py} +46 -39
- endoreg_db/views/requirement/evaluate.py +188 -187
- endoreg_db/views/requirement/lookup.py +17 -3
- endoreg_db/views/requirement/lookup_store.py +22 -90
- endoreg_db/views/requirement/requirement_utils.py +89 -0
- endoreg_db/views/video/__init__.py +23 -24
- endoreg_db/views/video/correction.py +201 -172
- endoreg_db/views/video/reimport.py +1 -1
- endoreg_db/views/{media/video_segments.py → video/segments_crud.py} +77 -40
- endoreg_db/views/video/{video_meta.py → video_meta_stats.py} +2 -2
- endoreg_db/views/video/video_stream.py +7 -8
- {endoreg_db-0.8.6.1.dist-info → endoreg_db-0.8.8.9.dist-info}/METADATA +7 -3
- {endoreg_db-0.8.6.1.dist-info → endoreg_db-0.8.8.9.dist-info}/RECORD +391 -413
- {endoreg_db-0.8.6.1.dist-info → endoreg_db-0.8.8.9.dist-info}/WHEEL +1 -1
- endoreg_db/data/finding/anatomy_colon.yaml +0 -128
- endoreg_db/data/finding/colonoscopy.yaml +0 -40
- endoreg_db/data/finding/colonoscopy_bowel_prep.yaml +0 -56
- endoreg_db/data/finding/complication.yaml +0 -16
- endoreg_db/data/finding/data.yaml +0 -105
- endoreg_db/data/finding/examination_setting.yaml +0 -16
- endoreg_db/data/finding/medication_related.yaml +0 -18
- endoreg_db/data/finding/outcome.yaml +0 -12
- endoreg_db/data/finding_classification/colonoscopy_bowel_preparation.yaml +0 -95
- endoreg_db/data/finding_classification/colonoscopy_jnet.yaml +0 -22
- endoreg_db/data/finding_classification/colonoscopy_kudo.yaml +0 -25
- endoreg_db/data/finding_classification/colonoscopy_lesion_circularity.yaml +0 -20
- endoreg_db/data/finding_classification/colonoscopy_lesion_planarity.yaml +0 -24
- endoreg_db/data/finding_classification/colonoscopy_lesion_size.yaml +0 -68
- endoreg_db/data/finding_classification/colonoscopy_lesion_surface.yaml +0 -20
- endoreg_db/data/finding_classification/colonoscopy_location.yaml +0 -80
- endoreg_db/data/finding_classification/colonoscopy_lst.yaml +0 -21
- endoreg_db/data/finding_classification/colonoscopy_nice.yaml +0 -20
- endoreg_db/data/finding_classification/colonoscopy_paris.yaml +0 -26
- endoreg_db/data/finding_classification/colonoscopy_sano.yaml +0 -22
- endoreg_db/data/finding_classification/colonoscopy_summary.yaml +0 -53
- endoreg_db/data/finding_classification/complication_generic.yaml +0 -25
- endoreg_db/data/finding_classification/examination_setting_generic.yaml +0 -40
- endoreg_db/data/finding_classification/histology_colo.yaml +0 -51
- endoreg_db/data/finding_classification/intervention_required.yaml +0 -26
- endoreg_db/data/finding_classification/medication_related.yaml +0 -23
- endoreg_db/data/finding_classification/visualized.yaml +0 -33
- endoreg_db/data/finding_classification_choice/colon_lesion_circularity_default.yaml +0 -32
- endoreg_db/data/finding_classification_choice/colon_lesion_jnet.yaml +0 -15
- endoreg_db/data/finding_classification_choice/colon_lesion_kudo.yaml +0 -23
- endoreg_db/data/finding_classification_choice/colon_lesion_lst.yaml +0 -15
- endoreg_db/data/finding_classification_choice/colon_lesion_nice.yaml +0 -17
- endoreg_db/data/finding_classification_choice/colon_lesion_planarity_default.yaml +0 -49
- endoreg_db/data/finding_classification_choice/colon_lesion_sano.yaml +0 -14
- endoreg_db/data/finding_classification_choice/colon_lesion_surface_intact_default.yaml +0 -36
- endoreg_db/data/finding_classification_choice/colonoscopy_size.yaml +0 -82
- endoreg_db/data/finding_classification_choice/colonoscopy_summary_worst_finding.yaml +0 -15
- endoreg_db/data/finding_classification_choice/outcome.yaml +0 -19
- endoreg_db/data/finding_intervention/endoscopy.yaml +0 -43
- endoreg_db/data/finding_intervention/endoscopy_colonoscopy.yaml +0 -168
- endoreg_db/data/finding_intervention/endoscopy_egd.yaml +0 -128
- endoreg_db/data/finding_intervention/endoscopy_ercp.yaml +0 -32
- endoreg_db/data/finding_intervention/endoscopy_eus_lower.yaml +0 -9
- endoreg_db/data/finding_intervention/endoscopy_eus_upper.yaml +0 -36
- endoreg_db/data/finding_morphology_classification_type/colonoscopy.yaml +0 -79
- endoreg_db/data/requirement/age.yaml +0 -26
- endoreg_db/data/requirement/gender.yaml +0 -25
- endoreg_db/management/commands/init_default_ai_model.py +0 -112
- endoreg_db/management/commands/reset_celery_schedule.py +0 -9
- endoreg_db/management/commands/validate_video.py +0 -204
- endoreg_db/migrations/0002_add_video_correction_models.py +0 -52
- endoreg_db/migrations/0003_add_center_display_name.py +0 -30
- endoreg_db/models/administration/permissions/__init__.py +0 -44
- 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/renames.yml +0 -8
- endoreg_db/serializers/_old/raw_pdf_meta_validation.py +0 -223
- endoreg_db/serializers/_old/raw_video_meta_validation.py +0 -179
- endoreg_db/serializers/_old/video.py +0 -71
- endoreg_db/serializers/meta/pdf_file_meta_extraction.py +0 -115
- endoreg_db/serializers/meta/report_meta.py +0 -53
- endoreg_db/serializers/report/__init__.py +0 -9
- endoreg_db/serializers/report/mixins.py +0 -45
- endoreg_db/serializers/report/report.py +0 -105
- endoreg_db/serializers/report/report_list.py +0 -22
- endoreg_db/serializers/report/secure_file_url.py +0 -26
- endoreg_db/serializers/video/video_metadata.py +0 -105
- endoreg_db/services/requirements_object.py +0 -147
- endoreg_db/services/storage_aware_video_processor.py +0 -344
- endoreg_db/urls/files.py +0 -6
- endoreg_db/urls/label_video_segment_validate.py +0 -33
- endoreg_db/urls/label_video_segments.py +0 -46
- 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/utils/requirement_operator_logic/model_evaluators.py +0 -368
- endoreg_db/views/label/__init__.py +0 -5
- endoreg_db/views/label/label.py +0 -15
- endoreg_db/views/label_video_segment/__init__.py +0 -16
- endoreg_db/views/label_video_segment/create_lvs_from_annotation.py +0 -44
- endoreg_db/views/label_video_segment/get_lvs_by_name_and_video.py +0 -50
- endoreg_db/views/label_video_segment/label_video_segment.py +0 -77
- endoreg_db/views/label_video_segment/label_video_segment_by_label.py +0 -174
- endoreg_db/views/label_video_segment/label_video_segment_detail.py +0 -73
- endoreg_db/views/label_video_segment/update_lvs_from_annotation.py +0 -46
- endoreg_db/views/label_video_segment/validate.py +0 -226
- endoreg_db/views/media/segments.py +0 -71
- endoreg_db/views/meta/available_files_list.py +0 -146
- endoreg_db/views/meta/report_meta.py +0 -53
- endoreg_db/views/meta/sensitive_meta_detail.py +0 -148
- endoreg_db/views/misc/secure_file_serving_view.py +0 -80
- endoreg_db/views/misc/secure_file_url_view.py +0 -84
- endoreg_db/views/misc/secure_url_validate.py +0 -79
- endoreg_db/views/patient_examination/DEPRECATED_video_backup.py +0 -164
- endoreg_db/views/patient_finding_location/__init__.py +0 -5
- endoreg_db/views/patient_finding_location/pfl_create.py +0 -70
- endoreg_db/views/patient_finding_morphology/__init__.py +0 -5
- endoreg_db/views/patient_finding_morphology/pfm_create.py +0 -70
- endoreg_db/views/pdf/__init__.py +0 -8
- 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/segmentation.py +0 -274
- endoreg_db/views/video/task_status.py +0 -49
- endoreg_db/views/video/timeline.py +0 -46
- endoreg_db/views/video/video_analyze.py +0 -52
- endoreg_db/views.py +0 -0
- /endoreg_db/data/requirement/{colonoscopy_baseline_austria.yaml → old/colonoscopy_baseline_austria.yaml} +0 -0
- /endoreg_db/data/requirement/{disease_cardiovascular.yaml → old/disease_cardiovascular.yaml} +0 -0
- /endoreg_db/data/requirement/{disease_classification_choice_cardiovascular.yaml → old/disease_classification_choice_cardiovascular.yaml} +0 -0
- /endoreg_db/data/requirement/{disease_hepatology.yaml → old/disease_hepatology.yaml} +0 -0
- /endoreg_db/data/requirement/{disease_misc.yaml → old/disease_misc.yaml} +0 -0
- /endoreg_db/data/requirement/{disease_renal.yaml → old/disease_renal.yaml} +0 -0
- /endoreg_db/data/requirement/{endoscopy_bleeding_risk.yaml → old/endoscopy_bleeding_risk.yaml} +0 -0
- /endoreg_db/data/requirement/{event_cardiology.yaml → old/event_cardiology.yaml} +0 -0
- /endoreg_db/data/requirement/{event_requirements.yaml → old/event_requirements.yaml} +0 -0
- /endoreg_db/data/requirement/{finding_colon_polyp.yaml → old/finding_colon_polyp.yaml} +0 -0
- /endoreg_db/{migrations/__init__.py → data/requirement/old/gender.yaml} +0 -0
- /endoreg_db/data/requirement/{lab_value.yaml → old/lab_value.yaml} +0 -0
- /endoreg_db/data/requirement/{medication.yaml → old/medication.yaml} +0 -0
- /endoreg_db/data/requirement_operator/{age.yaml → _old/age.yaml} +0 -0
- /endoreg_db/data/requirement_operator/{lab_operators.yaml → _old/lab_operators.yaml} +0 -0
- /endoreg_db/data/requirement_operator/{model_operators.yaml → _old/model_operators.yaml} +0 -0
- /endoreg_db/{models/media/video/refactor_plan.md → import_files/pseudonymization/__init__.py} +0 -0
- /endoreg_db/{models/media/video/video_file_frames.py → import_files/pseudonymization/pseudonymize.py} +0 -0
- /endoreg_db/models/{metadata/frame_ocr_result.py → report/__init__.py} +0 -0
- /endoreg_db/{urls/sensitive_meta.py → models/report/images.py} +0 -0
- /endoreg_db/utils/requirement_operator_logic/{lab_value_operators.py → _old/lab_value_operators.py} +0 -0
- {endoreg_db-0.8.6.1.dist-info → endoreg_db-0.8.8.9.dist-info}/licenses/LICENSE +0 -0
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('raw_probe_data', models.JSONField(blank=True, null=True)),
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],
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),
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migrations.CreateModel(
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name='Finding',
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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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('name', models.CharField(max_length=100, unique=True)),
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('name_de', models.CharField(max_length=100, null=True, unique=True)),
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('name_en', models.CharField(max_length=100, null=True, unique=True)),
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('description', models.TextField(blank=True, null=True)),
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('description_de', models.TextField(blank=True, null=True)),
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('description_en', models.TextField(blank=True, null=True)),
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],
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),
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migrations.CreateModel(
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name='FindingClassification',
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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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('name', models.CharField(max_length=255, unique=True)),
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('name_de', models.CharField(max_length=255, null=True, unique=True)),
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('name_en', models.CharField(max_length=255, null=True, unique=True)),
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('description', models.TextField(blank=True)),
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('description_de', models.TextField(blank=True, null=True)),
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('description_en', models.TextField(blank=True, null=True)),
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],
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),
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migrations.CreateModel(
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name='FindingClassificationChoice',
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fields=[
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@@ -216,6 +226,18 @@ class Migration(migrations.Migration):
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('description', models.TextField(blank=True)),
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],
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),
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migrations.CreateModel(
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name='FindingIntervention',
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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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('name', models.CharField(max_length=100, unique=True)),
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('name_de', models.CharField(max_length=100, null=True, unique=True)),
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('name_en', models.CharField(max_length=100, null=True, unique=True)),
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('description', models.TextField(blank=True, null=True)),
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('description_de', models.TextField(blank=True, null=True)),
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('description_en', models.TextField(blank=True, null=True)),
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],
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),
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migrations.CreateModel(
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name='FindingInterventionType',
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fields=[
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@@ -332,11 +354,24 @@ class Migration(migrations.Migration):
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('distribution_type', models.CharField(choices=[('uniform', 'Uniform'), ('normal', 'Normal'), ('skewed_normal', 'Skewed Normal')], max_length=20)),
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('min_descriptor', models.CharField(max_length=20)),
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('max_descriptor', models.CharField(max_length=20)),
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('min_value', models.FloatField(blank=True, help_text='Lower hard limit for generated values', null=True)),
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('max_value', models.FloatField(blank=True, help_text='Upper hard limit for generated values', null=True)),
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('mean', models.FloatField(blank=True, help_text='Mean used for normal or skewed normal distributions', null=True)),
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('std_dev', models.FloatField(blank=True, help_text='Standard deviation for bell-shaped distributions', null=True)),
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('skewness', models.FloatField(blank=True, help_text='Shape parameter for skewed normal distributions', null=True)),
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],
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options={
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'abstract': False,
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},
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),
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migrations.CreateModel(
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name='Organ',
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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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('name', models.CharField(max_length=100, unique=True)),
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('description', models.TextField(blank=True, null=True)),
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],
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),
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migrations.CreateModel(
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name='PatientLabSampleType',
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fields=[
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@@ -461,24 +496,6 @@ class Migration(migrations.Migration):
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('description', models.TextField(blank=True, null=True)),
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],
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),
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migrations.CreateModel(
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name='RuleAttributeDType',
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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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('name', models.CharField(max_length=255, unique=True)),
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],
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),
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migrations.CreateModel(
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name='RuleType',
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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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('name', models.CharField(max_length=255, unique=True)),
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],
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options={
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'verbose_name': 'Rule Type',
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'verbose_name_plural': 'Rule Types',
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},
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),
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migrations.CreateModel(
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name='ScheduledDays',
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fields=[
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@@ -587,38 +604,6 @@ class Migration(migrations.Migration):
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('name', models.CharField(max_length=255)),
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],
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),
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590
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migrations.CreateModel(
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591
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name='CaseTemplateRule',
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592
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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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('name', models.CharField(max_length=255)),
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('description', models.TextField(blank=True, null=True)),
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('parent_model', models.CharField(blank=True, max_length=255, null=True)),
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('parent_field', models.CharField(blank=True, max_length=255, null=True)),
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('target_field', models.CharField(blank=True, max_length=255, null=True)),
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('target_model', models.CharField(blank=True, max_length=255, null=True)),
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('rule_values', models.JSONField(blank=True, null=True)),
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('extra_parameters', models.JSONField(blank=True, null=True)),
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('chained_rules', models.ManyToManyField(related_name='calling_rules', to='endoreg_db.casetemplaterule')),
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('rule_type', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.casetemplateruletype')),
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('value_type', models.ForeignKey(null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.casetemplaterulevaluetype')),
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('date_value_distribution', models.ForeignKey(null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.datevaluedistribution')),
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('multiple_categorical_value_distribution', models.ForeignKey(null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.multiplecategoricalvaluedistribution')),
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('numerical_value_distribution', models.ForeignKey(null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.numericvaluedistribution')),
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('single_categorical_value_distribution', models.ForeignKey(null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.singlecategoricalvaluedistribution')),
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],
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),
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migrations.CreateModel(
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name='CaseTemplate',
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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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('name', models.CharField(max_length=255, unique=True)),
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('description', models.TextField(blank=True, null=True)),
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('rules', models.ManyToManyField(to='endoreg_db.casetemplaterule')),
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('secondary_rules', models.ManyToManyField(related_name='secondary_rules', to='endoreg_db.casetemplaterule')),
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('template_type', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='case_templates', to='endoreg_db.casetemplatetype')),
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],
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),
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migrations.CreateModel(
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name='DiseaseClassification',
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fields=[
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@@ -693,12 +678,11 @@ class Migration(migrations.Migration):
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693
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],
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694
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),
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695
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migrations.CreateModel(
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696
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-
name='
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681
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+
name='EventClassification',
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697
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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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699
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('name', models.CharField(max_length=
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('
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('event_classification', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='events', to='endoreg_db.eventclassification')),
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684
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('name', models.CharField(max_length=255, unique=True)),
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('event', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='event_classifications', to='endoreg_db.event')),
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],
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),
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migrations.CreateModel(
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@@ -712,23 +696,35 @@ class Migration(migrations.Migration):
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712
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],
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),
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migrations.CreateModel(
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-
name='
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699
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+
name='Examination',
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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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718
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('name', models.CharField(max_length=
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702
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('name', models.CharField(max_length=100, unique=True)),
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('name_de', models.CharField(max_length=100, null=True, unique=True)),
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('name_en', models.CharField(max_length=100, null=True, unique=True)),
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('description', models.TextField(blank=True, null=True)),
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('
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('description_de', models.TextField(blank=True, null=True)),
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('description_en', models.TextField(blank=True, null=True)),
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('indications', models.ManyToManyField(blank=True, related_name='examinations', to='endoreg_db.examinationindication')),
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('examination_times', models.ManyToManyField(blank=True, related_name='examinations', to='endoreg_db.examinationtime')),
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('examination_types', models.ManyToManyField(blank=True, to='endoreg_db.examinationtype')),
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('findings', models.ManyToManyField(blank=True, related_name='examinations', to='endoreg_db.finding')),
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],
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options={
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'verbose_name': 'Examination',
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'verbose_name_plural': 'Examinations',
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'ordering': ['name'],
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},
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migrations.
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migrations.AddField(
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model_name='examinationindication',
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name='classifications',
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field=models.ManyToManyField(blank=True, related_name='indications', to='endoreg_db.examinationindicationclassification'),
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+
),
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724
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migrations.AddField(
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model_name='examinationindicationclassification',
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726
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+
name='choices',
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+
field=models.ManyToManyField(blank=True, related_name='classifications', to='endoreg_db.examinationindicationclassificationchoice'),
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),
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733
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migrations.CreateModel(
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name='ExaminationRequirementSet',
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@@ -752,25 +748,10 @@ class Migration(migrations.Migration):
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752
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'ordering': ['name'],
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},
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),
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migrations.CreateModel(
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name='ExaminationTime',
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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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('name', models.CharField(max_length=100, unique=True)),
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('start_time', models.TimeField(blank=True, null=True)),
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('end_time', models.TimeField(blank=True, null=True)),
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('time_types', models.ManyToManyField(blank=True, to='endoreg_db.examinationtimetype')),
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],
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options={
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'verbose_name': 'Examination Time',
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'verbose_name_plural': 'Examination Times',
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'ordering': ['name'],
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},
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),
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migrations.AddField(
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model_name='
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name='
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field=models.ManyToManyField(blank=True, to='endoreg_db.
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+
model_name='examinationtime',
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name='time_types',
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field=models.ManyToManyField(blank=True, to='endoreg_db.examinationtimetype'),
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),
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migrations.CreateModel(
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name='Examiner',
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@@ -782,6 +763,9 @@ class Migration(migrations.Migration):
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782
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('email', models.EmailField(blank=True, max_length=255, null=True)),
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('phone', models.CharField(blank=True, max_length=255, null=True)),
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('is_real_person', models.BooleanField(default=True)),
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('post_code', models.CharField(blank=True, max_length=20, null=True)),
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('city', models.CharField(blank=True, max_length=255, null=True)),
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('street', models.CharField(blank=True, max_length=255, null=True)),
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('hash', models.CharField(max_length=255, unique=True)),
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('center', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.center')),
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('gender', models.ForeignKey(null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.gender')),
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@@ -790,62 +774,50 @@ class Migration(migrations.Migration):
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'abstract': False,
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},
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),
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migrations.
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-
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795
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796
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('name', models.CharField(max_length=100, unique=True)),
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('name_de', models.CharField(max_length=100, null=True, unique=True)),
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('name_en', models.CharField(max_length=100, null=True, unique=True)),
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('description', models.TextField(blank=True, null=True)),
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('description_de', models.TextField(blank=True, null=True)),
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802
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('description_en', models.TextField(blank=True, null=True)),
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803
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('contraindications', models.ManyToManyField(blank=True, related_name='contraindicating_finding_interventions', to='endoreg_db.contraindication')),
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804
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('intervention_types', models.ManyToManyField(blank=True, related_name='interventions', to='endoreg_db.findinginterventiontype')),
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805
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-
],
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777
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+
migrations.AddField(
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model_name='finding',
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779
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+
name='finding_classifications',
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+
field=models.ManyToManyField(blank=True, related_name='findings', to='endoreg_db.findingclassification'),
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806
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),
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807
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migrations.
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808
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-
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809
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-
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810
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811
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('name', models.CharField(max_length=100, unique=True)),
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('name_de', models.CharField(max_length=100, null=True, unique=True)),
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813
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('name_en', models.CharField(max_length=100, null=True, unique=True)),
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814
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('description', models.TextField(blank=True, null=True)),
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815
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('description_de', models.TextField(blank=True, null=True)),
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816
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('description_en', models.TextField(blank=True, null=True)),
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|
817
|
-
('examinations', models.ManyToManyField(blank=True, related_name='findings', to='endoreg_db.examination')),
|
|
818
|
-
('finding_interventions', models.ManyToManyField(blank=True, related_name='findings', to='endoreg_db.findingintervention')),
|
|
819
|
-
('finding_types', models.ManyToManyField(blank=True, related_name='findings', to='endoreg_db.findingtype')),
|
|
820
|
-
],
|
|
782
|
+
migrations.AddField(
|
|
783
|
+
model_name='findingclassification',
|
|
784
|
+
name='choices',
|
|
785
|
+
field=models.ManyToManyField(blank=True, related_name='classifications', to='endoreg_db.findingclassificationchoice'),
|
|
821
786
|
),
|
|
822
|
-
migrations.
|
|
823
|
-
|
|
824
|
-
|
|
825
|
-
|
|
826
|
-
('name', models.CharField(max_length=255, unique=True)),
|
|
827
|
-
('description', models.TextField(blank=True, null=True)),
|
|
828
|
-
('examinations', models.ManyToManyField(blank=True, related_name='indications', to='endoreg_db.examination')),
|
|
829
|
-
('classifications', models.ManyToManyField(blank=True, related_name='indications', to='endoreg_db.examinationindicationclassification')),
|
|
830
|
-
('expected_interventions', models.ManyToManyField(blank=True, related_name='indications', to='endoreg_db.findingintervention')),
|
|
831
|
-
],
|
|
787
|
+
migrations.AddField(
|
|
788
|
+
model_name='findingclassification',
|
|
789
|
+
name='classification_types',
|
|
790
|
+
field=models.ManyToManyField(to='endoreg_db.findingclassificationtype'),
|
|
832
791
|
),
|
|
833
|
-
migrations.
|
|
834
|
-
|
|
835
|
-
|
|
836
|
-
|
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837
|
-
|
|
838
|
-
|
|
839
|
-
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840
|
-
|
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841
|
-
|
|
842
|
-
|
|
843
|
-
|
|
844
|
-
|
|
845
|
-
|
|
846
|
-
|
|
847
|
-
|
|
848
|
-
|
|
792
|
+
migrations.AddField(
|
|
793
|
+
model_name='finding',
|
|
794
|
+
name='caused_by_interventions',
|
|
795
|
+
field=models.ManyToManyField(blank=True, related_name='causes_findings', to='endoreg_db.findingintervention'),
|
|
796
|
+
),
|
|
797
|
+
migrations.AddField(
|
|
798
|
+
model_name='finding',
|
|
799
|
+
name='finding_interventions',
|
|
800
|
+
field=models.ManyToManyField(blank=True, related_name='findings', to='endoreg_db.findingintervention'),
|
|
801
|
+
),
|
|
802
|
+
migrations.AddField(
|
|
803
|
+
model_name='examinationindication',
|
|
804
|
+
name='expected_interventions',
|
|
805
|
+
field=models.ManyToManyField(blank=True, related_name='indications', to='endoreg_db.findingintervention'),
|
|
806
|
+
),
|
|
807
|
+
migrations.AddField(
|
|
808
|
+
model_name='findingintervention',
|
|
809
|
+
name='intervention_types',
|
|
810
|
+
field=models.ManyToManyField(blank=True, related_name='interventions', to='endoreg_db.findinginterventiontype'),
|
|
811
|
+
),
|
|
812
|
+
migrations.AddField(
|
|
813
|
+
model_name='findingclassification',
|
|
814
|
+
name='finding_types',
|
|
815
|
+
field=models.ManyToManyField(blank=True, related_name='finding_classifications', to='endoreg_db.findingtype'),
|
|
816
|
+
),
|
|
817
|
+
migrations.AddField(
|
|
818
|
+
model_name='finding',
|
|
819
|
+
name='finding_types',
|
|
820
|
+
field=models.ManyToManyField(blank=True, related_name='findings', to='endoreg_db.findingtype'),
|
|
849
821
|
),
|
|
850
822
|
migrations.AddField(
|
|
851
823
|
model_name='center',
|
|
@@ -862,6 +834,9 @@ class Migration(migrations.Migration):
|
|
|
862
834
|
('email', models.EmailField(blank=True, max_length=255, null=True)),
|
|
863
835
|
('phone', models.CharField(blank=True, max_length=255, null=True)),
|
|
864
836
|
('is_real_person', models.BooleanField(default=True)),
|
|
837
|
+
('post_code', models.CharField(blank=True, max_length=20, null=True)),
|
|
838
|
+
('city', models.CharField(blank=True, max_length=255, null=True)),
|
|
839
|
+
('street', models.CharField(blank=True, max_length=255, null=True)),
|
|
865
840
|
('employee_type', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='employees', to='endoreg_db.employeetype')),
|
|
866
841
|
('gender', models.ForeignKey(null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.gender')),
|
|
867
842
|
],
|
|
@@ -887,6 +862,36 @@ class Migration(migrations.Migration):
|
|
|
887
862
|
'indexes': [models.Index(fields=['name'], name='endoreg_db__name_febac5_idx'), models.Index(fields=['abbreviation'], name='endoreg_db__abbrevi_5a07c4_idx')],
|
|
888
863
|
},
|
|
889
864
|
),
|
|
865
|
+
migrations.AddField(
|
|
866
|
+
model_name='findingintervention',
|
|
867
|
+
name='information_sources',
|
|
868
|
+
field=models.ManyToManyField(blank=True, related_name='finding_interventions', to='endoreg_db.informationsource'),
|
|
869
|
+
),
|
|
870
|
+
migrations.AddField(
|
|
871
|
+
model_name='findingclassification',
|
|
872
|
+
name='information_sources',
|
|
873
|
+
field=models.ManyToManyField(blank=True, related_name='finding_classifications', to='endoreg_db.informationsource'),
|
|
874
|
+
),
|
|
875
|
+
migrations.AddField(
|
|
876
|
+
model_name='finding',
|
|
877
|
+
name='information_sources',
|
|
878
|
+
field=models.ManyToManyField(blank=True, related_name='findings', to='endoreg_db.informationsource'),
|
|
879
|
+
),
|
|
880
|
+
migrations.AddField(
|
|
881
|
+
model_name='examinationtime',
|
|
882
|
+
name='information_sources',
|
|
883
|
+
field=models.ManyToManyField(blank=True, related_name='examination_times', to='endoreg_db.informationsource'),
|
|
884
|
+
),
|
|
885
|
+
migrations.AddField(
|
|
886
|
+
model_name='examinationindication',
|
|
887
|
+
name='information_sources',
|
|
888
|
+
field=models.ManyToManyField(blank=True, related_name='examination_indications', to='endoreg_db.informationsource'),
|
|
889
|
+
),
|
|
890
|
+
migrations.AddField(
|
|
891
|
+
model_name='examination',
|
|
892
|
+
name='information_sources',
|
|
893
|
+
field=models.ManyToManyField(blank=True, related_name='examinations', to='endoreg_db.informationsource'),
|
|
894
|
+
),
|
|
890
895
|
migrations.CreateModel(
|
|
891
896
|
name='InformationSourceType',
|
|
892
897
|
fields=[
|
|
@@ -942,30 +947,6 @@ class Migration(migrations.Migration):
|
|
|
942
947
|
'verbose_name_plural': 'Label Video Segment States',
|
|
943
948
|
},
|
|
944
949
|
),
|
|
945
|
-
migrations.CreateModel(
|
|
946
|
-
name='LabValue',
|
|
947
|
-
fields=[
|
|
948
|
-
('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
|
|
949
|
-
('name', models.CharField(max_length=255, unique=True)),
|
|
950
|
-
('abbreviation', models.CharField(blank=True, max_length=10, null=True)),
|
|
951
|
-
('numeric_precision', models.IntegerField(default=3)),
|
|
952
|
-
('default_normal_range', models.JSONField(blank=True, null=True)),
|
|
953
|
-
('normal_range_age_dependent', models.BooleanField(default=False)),
|
|
954
|
-
('normal_range_gender_dependent', models.BooleanField(default=False)),
|
|
955
|
-
('normal_range_special_case', models.BooleanField(default=False)),
|
|
956
|
-
('bound_adjustment_factor', models.FloatField(default=0.1, help_text='Factor for adjusting bounds when generating increased/decreased values, e.g., 0.1 for 10%.')),
|
|
957
|
-
('default_date_value_distribution', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='default_date_value_distribution', to='endoreg_db.datevaluedistribution')),
|
|
958
|
-
('default_multiple_categorical_value_distribution', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='default_multiple_categorical_value_distribution', to='endoreg_db.multiplecategoricalvaluedistribution')),
|
|
959
|
-
('default_numerical_value_distribution', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='default_numerical_value_distribution', to='endoreg_db.numericvaluedistribution')),
|
|
960
|
-
('default_single_categorical_value_distribution', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='default_single_categorical_value_distribution', to='endoreg_db.singlecategoricalvaluedistribution')),
|
|
961
|
-
('default_unit', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.unit')),
|
|
962
|
-
],
|
|
963
|
-
),
|
|
964
|
-
migrations.AddField(
|
|
965
|
-
model_name='findingintervention',
|
|
966
|
-
name='required_lab_values',
|
|
967
|
-
field=models.ManyToManyField(blank=True, related_name='required_by_finding_interventions', to='endoreg_db.labvalue'),
|
|
968
|
-
),
|
|
969
950
|
migrations.AddField(
|
|
970
951
|
model_name='center',
|
|
971
952
|
name='last_names',
|
|
@@ -1012,7 +993,7 @@ class Migration(migrations.Migration):
|
|
|
1012
993
|
('name', models.CharField(help_text="User-defined name for this specific model metadata set (e.g., 'segmentation_base').", max_length=255)),
|
|
1013
994
|
('version', models.CharField(help_text="Version identifier for this metadata set (e.g., '1', '2a').", max_length=255)),
|
|
1014
995
|
('activation', models.CharField(default='sigmoid', help_text="Output activation function (e.g., 'sigmoid', 'softmax', 'none').", max_length=50)),
|
|
1015
|
-
('weights', models.FileField(blank=True, help_text='Path to the model weights file (.
|
|
996
|
+
('weights', 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'])])),
|
|
1016
997
|
('mean', models.CharField(default='0.45211223,0.27139644,0.19264949', help_text='Comma-separated mean values for input normalization.', max_length=255)),
|
|
1017
998
|
('std', models.CharField(default='0.31418097,0.21088019,0.16059452', help_text='Comma-separated standard deviation values for input normalization.', max_length=255)),
|
|
1018
999
|
('size_x', models.IntegerField(default=716, help_text='Expected input image width.')),
|
|
@@ -1025,6 +1006,12 @@ class Migration(migrations.Migration):
|
|
|
1025
1006
|
('labelset', models.ForeignKey(help_text='The set of labels this model version predicts.', on_delete=django.db.models.deletion.CASCADE, related_name='model_metadata', to='endoreg_db.labelset')),
|
|
1026
1007
|
('model', models.ForeignKey(help_text='The base AI model architecture this metadata belongs to.', on_delete=django.db.models.deletion.CASCADE, related_name='metadata_versions', to='endoreg_db.aimodel')),
|
|
1027
1008
|
],
|
|
1009
|
+
options={
|
|
1010
|
+
'verbose_name': 'Model Metadata',
|
|
1011
|
+
'verbose_name_plural': 'Model Metadata',
|
|
1012
|
+
'ordering': ['-date_created'],
|
|
1013
|
+
'unique_together': {('name', 'version', 'model')},
|
|
1014
|
+
},
|
|
1028
1015
|
),
|
|
1029
1016
|
migrations.AddField(
|
|
1030
1017
|
model_name='aimodel',
|
|
@@ -1045,12 +1032,22 @@ class Migration(migrations.Migration):
|
|
|
1045
1032
|
field=models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='ai_models', to='endoreg_db.modeltype'),
|
|
1046
1033
|
),
|
|
1047
1034
|
migrations.CreateModel(
|
|
1048
|
-
name='
|
|
1035
|
+
name='LabValue',
|
|
1049
1036
|
fields=[
|
|
1050
1037
|
('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
|
|
1051
|
-
('name', models.CharField(max_length=
|
|
1052
|
-
('
|
|
1053
|
-
('
|
|
1038
|
+
('name', models.CharField(max_length=255, unique=True)),
|
|
1039
|
+
('abbreviation', models.CharField(blank=True, max_length=10, null=True)),
|
|
1040
|
+
('numeric_precision', models.IntegerField(default=3)),
|
|
1041
|
+
('default_normal_range', models.JSONField(blank=True, null=True)),
|
|
1042
|
+
('normal_range_age_dependent', models.BooleanField(default=False)),
|
|
1043
|
+
('normal_range_gender_dependent', models.BooleanField(default=False)),
|
|
1044
|
+
('normal_range_special_case', models.BooleanField(default=False)),
|
|
1045
|
+
('bound_adjustment_factor', models.FloatField(default=0.1, help_text='Factor for adjusting bounds when generating increased/decreased values, e.g., 0.1 for 10%.')),
|
|
1046
|
+
('default_date_value_distribution', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='default_date_value_distribution', to='endoreg_db.datevaluedistribution')),
|
|
1047
|
+
('default_multiple_categorical_value_distribution', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='default_multiple_categorical_value_distribution', to='endoreg_db.multiplecategoricalvaluedistribution')),
|
|
1048
|
+
('default_numerical_value_distribution', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='default_numerical_value_distribution', to='endoreg_db.numericvaluedistribution')),
|
|
1049
|
+
('default_single_categorical_value_distribution', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='default_single_categorical_value_distribution', to='endoreg_db.singlecategoricalvaluedistribution')),
|
|
1050
|
+
('default_unit', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.unit')),
|
|
1054
1051
|
],
|
|
1055
1052
|
),
|
|
1056
1053
|
migrations.CreateModel(
|
|
@@ -1060,6 +1057,9 @@ class Migration(migrations.Migration):
|
|
|
1060
1057
|
('email', models.EmailField(blank=True, max_length=255, null=True)),
|
|
1061
1058
|
('phone', models.CharField(blank=True, max_length=255, null=True)),
|
|
1062
1059
|
('is_real_person', models.BooleanField(default=True)),
|
|
1060
|
+
('post_code', models.CharField(blank=True, max_length=20, null=True)),
|
|
1061
|
+
('city', models.CharField(blank=True, max_length=255, null=True)),
|
|
1062
|
+
('street', models.CharField(blank=True, max_length=255, null=True)),
|
|
1063
1063
|
('first_name', models.CharField(max_length=100)),
|
|
1064
1064
|
('last_name', models.CharField(max_length=100)),
|
|
1065
1065
|
('dob', models.DateField(blank=True, null=True)),
|
|
@@ -1149,7 +1149,7 @@ class Migration(migrations.Migration):
|
|
|
1149
1149
|
('text', models.TextField(blank=True, null=True)),
|
|
1150
1150
|
('date', models.DateField(blank=True, null=True)),
|
|
1151
1151
|
('time', models.TimeField(blank=True, null=True)),
|
|
1152
|
-
('file', models.FileField(blank=True, null=True, upload_to=
|
|
1152
|
+
('file', models.FileField(blank=True, null=True, upload_to='pdfs')),
|
|
1153
1153
|
('center', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.center')),
|
|
1154
1154
|
('type', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.documenttype')),
|
|
1155
1155
|
('examiners', models.ManyToManyField(blank=True, to='endoreg_db.examiner')),
|
|
@@ -1169,6 +1169,15 @@ class Migration(migrations.Migration):
|
|
|
1169
1169
|
('patient_examination', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='indications', to='endoreg_db.patientexamination')),
|
|
1170
1170
|
],
|
|
1171
1171
|
),
|
|
1172
|
+
migrations.CreateModel(
|
|
1173
|
+
name='PatientExternalID',
|
|
1174
|
+
fields=[
|
|
1175
|
+
('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
|
|
1176
|
+
('external_id', models.CharField(max_length=255)),
|
|
1177
|
+
('origin', models.CharField(max_length=255)),
|
|
1178
|
+
('patient', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='external_ids', to='endoreg_db.patient')),
|
|
1179
|
+
],
|
|
1180
|
+
),
|
|
1172
1181
|
migrations.CreateModel(
|
|
1173
1182
|
name='PatientFinding',
|
|
1174
1183
|
fields=[
|
|
@@ -1375,11 +1384,12 @@ class Migration(migrations.Migration):
|
|
|
1375
1384
|
('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
|
|
1376
1385
|
('name', models.CharField(max_length=100, unique=True)),
|
|
1377
1386
|
('description', models.TextField(blank=True, null=True)),
|
|
1378
|
-
('
|
|
1379
|
-
('
|
|
1380
|
-
('
|
|
1381
|
-
('
|
|
1382
|
-
('
|
|
1387
|
+
('operator_instructions', models.TextField(help_text='semicolon-separated list of target attributes for the requirement')),
|
|
1388
|
+
('numeric_value', models.FloatField(blank=True, help_text='Numeric value for the requirement. ons.', null=True)),
|
|
1389
|
+
('numeric_value_min', models.FloatField(blank=True, help_text='Minimum numeric value for the requirement. ons.', null=True)),
|
|
1390
|
+
('numeric_value_max', models.FloatField(blank=True, help_text='Maximum numeric value for the requirement. ons.', null=True)),
|
|
1391
|
+
('string_value', models.CharField(blank=True, help_text='String value for the requirement. ons.', max_length=100, null=True)),
|
|
1392
|
+
('string_values', models.TextField(blank=True, help_text=" ','-separated list of string values for the requirement.ons.", null=True)),
|
|
1383
1393
|
('disease_classification_choices', models.ManyToManyField(blank=True, related_name='required_in', to='endoreg_db.diseaseclassificationchoice')),
|
|
1384
1394
|
('diseases', models.ManyToManyField(blank=True, related_name='required_in', to='endoreg_db.disease')),
|
|
1385
1395
|
('events', models.ManyToManyField(blank=True, related_name='required_in', to='endoreg_db.event')),
|
|
@@ -1395,7 +1405,7 @@ class Migration(migrations.Migration):
|
|
|
1395
1405
|
('medication_intake_times', models.ManyToManyField(blank=True, related_name='required_in', to='endoreg_db.medicationintaketime')),
|
|
1396
1406
|
('medication_schedules', models.ManyToManyField(blank=True, related_name='required_in', to='endoreg_db.medicationschedule')),
|
|
1397
1407
|
('medications', models.ManyToManyField(blank=True, related_name='required_in', to='endoreg_db.medication')),
|
|
1398
|
-
('
|
|
1408
|
+
('operator', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='required_in', to='endoreg_db.requirementoperator')),
|
|
1399
1409
|
('requirement_types', models.ManyToManyField(blank=True, related_name='linked_requirements', to='endoreg_db.requirementtype')),
|
|
1400
1410
|
('unit', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='required_in', to='endoreg_db.unit')),
|
|
1401
1411
|
],
|
|
@@ -1412,45 +1422,28 @@ class Migration(migrations.Migration):
|
|
|
1412
1422
|
('risk_type', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='risks', to='endoreg_db.risktype')),
|
|
1413
1423
|
],
|
|
1414
1424
|
),
|
|
1415
|
-
migrations.CreateModel(
|
|
1416
|
-
name='Rule',
|
|
1417
|
-
fields=[
|
|
1418
|
-
('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
|
|
1419
|
-
('name', models.CharField(max_length=255, unique=True)),
|
|
1420
|
-
('description', models.TextField(blank=True, null=True)),
|
|
1421
|
-
('attribute_key', models.CharField(max_length=255)),
|
|
1422
|
-
('attribute_dtype', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.ruleattributedtype')),
|
|
1423
|
-
('rule_type', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.ruletype')),
|
|
1424
|
-
],
|
|
1425
|
-
options={
|
|
1426
|
-
'verbose_name': 'Rule',
|
|
1427
|
-
'verbose_name_plural': 'Rules',
|
|
1428
|
-
},
|
|
1429
|
-
),
|
|
1430
|
-
migrations.CreateModel(
|
|
1431
|
-
name='Ruleset',
|
|
1432
|
-
fields=[
|
|
1433
|
-
('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
|
|
1434
|
-
('name', models.CharField(max_length=255, unique=True)),
|
|
1435
|
-
('rules', models.ManyToManyField(to='endoreg_db.rule')),
|
|
1436
|
-
],
|
|
1437
|
-
),
|
|
1438
1425
|
migrations.CreateModel(
|
|
1439
1426
|
name='SensitiveMeta',
|
|
1440
1427
|
fields=[
|
|
1441
1428
|
('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
|
|
1442
1429
|
('examination_date', models.DateField(blank=True, null=True)),
|
|
1430
|
+
('examination_time', models.TimeField(blank=True, null=True)),
|
|
1431
|
+
('casenumber', models.CharField(blank=True, max_length=255, null=True)),
|
|
1432
|
+
('file_path', models.CharField(blank=True, max_length=1024, null=True)),
|
|
1443
1433
|
('patient_first_name', models.CharField(blank=True, max_length=255, null=True)),
|
|
1444
1434
|
('patient_last_name', models.CharField(blank=True, max_length=255, null=True)),
|
|
1445
|
-
('patient_dob', models.DateTimeField(blank=True, help_text='Date of birth (can be auto-generated
|
|
1435
|
+
('patient_dob', models.DateTimeField(blank=True, help_text='Date of birth (can be auto-generated).', null=True)),
|
|
1446
1436
|
('examiner_first_name', models.CharField(blank=True, editable=False, max_length=255, null=True)),
|
|
1447
1437
|
('examiner_last_name', models.CharField(blank=True, editable=False, max_length=255, null=True)),
|
|
1448
|
-
('examination_hash', models.CharField(blank=True, db_index=True, editable=False, max_length=64, null=True)),
|
|
1449
1438
|
('patient_hash', models.CharField(blank=True, db_index=True, editable=False, max_length=64, null=True)),
|
|
1439
|
+
('examination_hash', models.CharField(blank=True, db_index=True, editable=False, max_length=64, null=True)),
|
|
1450
1440
|
('endoscope_type', models.CharField(blank=True, max_length=255, null=True)),
|
|
1451
1441
|
('endoscope_sn', models.CharField(blank=True, max_length=255, null=True)),
|
|
1442
|
+
('text', models.TextField(blank=True, null=True)),
|
|
1443
|
+
('anonymized_text', models.TextField(blank=True, null=True)),
|
|
1452
1444
|
('center', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.center')),
|
|
1453
|
-
('examiners', models.ManyToManyField(blank=True, help_text='Pseudo-anonymized examiner(s)
|
|
1445
|
+
('examiners', models.ManyToManyField(blank=True, help_text='Pseudo-anonymized examiner(s)', to='endoreg_db.examiner')),
|
|
1446
|
+
('external_id', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.patientexternalid')),
|
|
1454
1447
|
('patient_gender', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.gender')),
|
|
1455
1448
|
('pseudo_examination', models.ForeignKey(blank=True, help_text='FK to the pseudo-anonymized PatientExamination record.', null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.patientexamination')),
|
|
1456
1449
|
('pseudo_patient', models.ForeignKey(blank=True, help_text='FK to the pseudo-anonymized Patient record.', null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.patient')),
|
|
@@ -1465,8 +1458,8 @@ class Migration(migrations.Migration):
|
|
|
1465
1458
|
('date_created', models.DateTimeField(auto_now_add=True)),
|
|
1466
1459
|
('date_modified', models.DateTimeField(auto_now=True)),
|
|
1467
1460
|
('anonymized', models.BooleanField(default=False, help_text='True if the PDF has been anonymized.')),
|
|
1468
|
-
('file', models.FileField(upload_to='
|
|
1469
|
-
('anonymized_file', models.FileField(blank=True, null=True, upload_to='
|
|
1461
|
+
('file', models.FileField(upload_to='pdfs', validators=[django.core.validators.FileExtensionValidator(allowed_extensions=['pdf'])])),
|
|
1462
|
+
('anonymized_file', models.FileField(blank=True, null=True, upload_to='pdfs', validators=[django.core.validators.FileExtensionValidator(allowed_extensions=['pdf'])])),
|
|
1470
1463
|
('state_report_processing_required', models.BooleanField(default=True)),
|
|
1471
1464
|
('state_report_processed', models.BooleanField(default=False)),
|
|
1472
1465
|
('raw_meta', models.JSONField(blank=True, null=True)),
|
|
@@ -1489,7 +1482,7 @@ class Migration(migrations.Migration):
|
|
|
1489
1482
|
('text', models.TextField(blank=True, null=True)),
|
|
1490
1483
|
('date', models.DateField(blank=True, null=True)),
|
|
1491
1484
|
('time', models.TimeField(blank=True, null=True)),
|
|
1492
|
-
('file', models.FileField(blank=True, null=True, upload_to=
|
|
1485
|
+
('file', models.FileField(blank=True, null=True, upload_to='pdfs')),
|
|
1493
1486
|
('center', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.center')),
|
|
1494
1487
|
('type', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.documenttype')),
|
|
1495
1488
|
('examiners', models.ManyToManyField(blank=True, to='endoreg_db.examiner')),
|
|
@@ -1540,7 +1533,7 @@ class Migration(migrations.Migration):
|
|
|
1540
1533
|
('description', models.TextField(blank=True, null=True)),
|
|
1541
1534
|
('start_time', models.TimeField()),
|
|
1542
1535
|
('end_time', models.TimeField()),
|
|
1543
|
-
('estimated_presence_fraction', models.DecimalField(decimal_places=4, default=0
|
|
1536
|
+
('estimated_presence_fraction', models.DecimalField(decimal_places=4, default=Decimal('0'), max_digits=5)),
|
|
1544
1537
|
('center', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='center_shifts', to='endoreg_db.center')),
|
|
1545
1538
|
('scheduled_days', models.ManyToManyField(related_name='center_shifts', to='endoreg_db.scheduleddays')),
|
|
1546
1539
|
('shift', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='center_shifts', to='endoreg_db.shift')),
|
|
@@ -1552,6 +1545,7 @@ class Migration(migrations.Migration):
|
|
|
1552
1545
|
('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
|
|
1553
1546
|
('name', models.CharField(max_length=100, unique=True)),
|
|
1554
1547
|
('description', models.TextField(blank=True, null=True)),
|
|
1548
|
+
('depends_on', models.ManyToManyField(blank=True, help_text="Andere RequirementSets, die zuerst erfüllt sein müssen, bevor dieses Set geprüft wird ('after').", related_name='dependents', to='endoreg_db.requirementset')),
|
|
1555
1549
|
('information_sources', models.ManyToManyField(blank=True, related_name='requirement_sets', to='endoreg_db.informationsource')),
|
|
1556
1550
|
('links_to_sets', models.ManyToManyField(blank=True, related_name='links_from_sets', to='endoreg_db.requirementset')),
|
|
1557
1551
|
('reqset_exam_links', models.ManyToManyField(blank=True, related_name='requirement_set', to='endoreg_db.examinationrequirementset')),
|
|
@@ -1726,6 +1720,22 @@ class Migration(migrations.Migration):
|
|
|
1726
1720
|
name='video_meta',
|
|
1727
1721
|
field=models.OneToOneField(blank=True, null=True, on_delete=django.db.models.deletion.SET_NULL, related_name='video_file', to='endoreg_db.videometa'),
|
|
1728
1722
|
),
|
|
1723
|
+
migrations.CreateModel(
|
|
1724
|
+
name='VideoMetadata',
|
|
1725
|
+
fields=[
|
|
1726
|
+
('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
|
|
1727
|
+
('sensitive_frame_count', models.IntegerField(blank=True, help_text='Number of frames detected as containing sensitive information', null=True)),
|
|
1728
|
+
('sensitive_ratio', models.FloatField(blank=True, help_text='Ratio of sensitive frames to total frames (0.0-1.0)', null=True)),
|
|
1729
|
+
('sensitive_frame_ids', models.TextField(blank=True, help_text='JSON array of sensitive frame indices (0-based)', null=True)),
|
|
1730
|
+
('analyzed_at', models.DateTimeField(auto_now=True, help_text='Timestamp of last analysis')),
|
|
1731
|
+
('video', models.OneToOneField(help_text='Video file this metadata belongs to', on_delete=django.db.models.deletion.CASCADE, related_name='metadata', to='endoreg_db.videofile')),
|
|
1732
|
+
],
|
|
1733
|
+
options={
|
|
1734
|
+
'verbose_name': 'Video Metadata',
|
|
1735
|
+
'verbose_name_plural': 'Video Metadata',
|
|
1736
|
+
'db_table': 'video_metadata',
|
|
1737
|
+
},
|
|
1738
|
+
),
|
|
1729
1739
|
migrations.CreateModel(
|
|
1730
1740
|
name='VideoPredictionMeta',
|
|
1731
1741
|
fields=[
|
|
@@ -1742,6 +1752,27 @@ class Migration(migrations.Migration):
|
|
|
1742
1752
|
name='prediction_meta',
|
|
1743
1753
|
field=models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.SET_NULL, related_name='label_video_segments', to='endoreg_db.videopredictionmeta'),
|
|
1744
1754
|
),
|
|
1755
|
+
migrations.CreateModel(
|
|
1756
|
+
name='VideoProcessingHistory',
|
|
1757
|
+
fields=[
|
|
1758
|
+
('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
|
|
1759
|
+
('operation', models.CharField(choices=[('mask_overlay', 'Mask Overlay'), ('frame_removal', 'Frame Removal'), ('analysis', 'Sensitivity Analysis'), ('reprocessing', 'Full Reprocessing')], help_text='Type of processing operation', max_length=50)),
|
|
1760
|
+
('status', models.CharField(choices=[('pending', 'Pending'), ('running', 'Running'), ('success', 'Success'), ('failure', 'Failure'), ('cancelled', 'Cancelled')], default='pending', help_text='Current status of the operation', max_length=20)),
|
|
1761
|
+
('config', models.JSONField(default=dict, help_text='Operation configuration (mask settings, frame list, etc.)')),
|
|
1762
|
+
('output_file', models.CharField(blank=True, help_text='Path to output file (relative to MEDIA_ROOT)', max_length=500)),
|
|
1763
|
+
('details', models.TextField(blank=True, help_text='Additional details or error messages')),
|
|
1764
|
+
('task_id', models.CharField(blank=True, help_text='Celery task ID for progress tracking', max_length=100)),
|
|
1765
|
+
('created_at', models.DateTimeField(auto_now_add=True, help_text='When the operation was started')),
|
|
1766
|
+
('completed_at', models.DateTimeField(blank=True, help_text='When the operation completed (success or failure)', null=True)),
|
|
1767
|
+
('video', models.ForeignKey(help_text='Video file this operation was performed on', on_delete=django.db.models.deletion.CASCADE, related_name='processing_history', to='endoreg_db.videofile')),
|
|
1768
|
+
],
|
|
1769
|
+
options={
|
|
1770
|
+
'verbose_name': 'Video Processing History',
|
|
1771
|
+
'verbose_name_plural': 'Video Processing Histories',
|
|
1772
|
+
'db_table': 'video_processing_history',
|
|
1773
|
+
'ordering': ['-created_at'],
|
|
1774
|
+
},
|
|
1775
|
+
),
|
|
1745
1776
|
migrations.CreateModel(
|
|
1746
1777
|
name='VideoSegmentationAnnotation',
|
|
1747
1778
|
fields=[
|
|
@@ -1802,6 +1833,10 @@ class Migration(migrations.Migration):
|
|
|
1802
1833
|
'indexes': [models.Index(fields=['frame', 'label'], name='endoreg_db__frame_i_47f916_idx'), models.Index(fields=['frame'], name='endoreg_db__frame_i_92c75a_idx')],
|
|
1803
1834
|
},
|
|
1804
1835
|
),
|
|
1836
|
+
migrations.AddConstraint(
|
|
1837
|
+
model_name='patientexternalid',
|
|
1838
|
+
constraint=models.UniqueConstraint(fields=('origin', 'external_id'), name='uniq_patient_external_id_per_origin'),
|
|
1839
|
+
),
|
|
1805
1840
|
migrations.AddIndex(
|
|
1806
1841
|
model_name='patientfinding',
|
|
1807
1842
|
index=models.Index(fields=['patient_examination', 'finding'], name='endoreg_db__patient_54869f_idx'),
|
|
@@ -1850,6 +1885,18 @@ class Migration(migrations.Migration):
|
|
|
1850
1885
|
model_name='labelvideosegment',
|
|
1851
1886
|
constraint=models.CheckConstraint(condition=models.Q(('start_frame_number__lt', models.F('end_frame_number'))), name='segment_start_lt_end'),
|
|
1852
1887
|
),
|
|
1888
|
+
migrations.AddIndex(
|
|
1889
|
+
model_name='videoprocessinghistory',
|
|
1890
|
+
index=models.Index(fields=['video', '-created_at'], name='video_proce_video_i_98ffe0_idx'),
|
|
1891
|
+
),
|
|
1892
|
+
migrations.AddIndex(
|
|
1893
|
+
model_name='videoprocessinghistory',
|
|
1894
|
+
index=models.Index(fields=['task_id'], name='video_proce_task_id_ec8b15_idx'),
|
|
1895
|
+
),
|
|
1896
|
+
migrations.AddIndex(
|
|
1897
|
+
model_name='videoprocessinghistory',
|
|
1898
|
+
index=models.Index(fields=['status'], name='video_proce_status_6f71fd_idx'),
|
|
1899
|
+
),
|
|
1853
1900
|
migrations.AddConstraint(
|
|
1854
1901
|
model_name='videosegmentationannotation',
|
|
1855
1902
|
constraint=models.CheckConstraint(condition=models.Q(('start_time__lt', models.F('stop_time'))), name='start_time_less_than_stop_time'),
|