endoreg-db 0.8.6.1__py3-none-any.whl → 0.8.8.0__py3-none-any.whl
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- endoreg_db/authz/auth.py +74 -0
- endoreg_db/authz/backends.py +168 -0
- endoreg_db/authz/management/commands/list_routes.py +18 -0
- endoreg_db/authz/middleware.py +83 -0
- endoreg_db/authz/permissions.py +127 -0
- endoreg_db/authz/policy.py +218 -0
- endoreg_db/authz/views_auth.py +66 -0
- endoreg_db/config/env.py +13 -8
- endoreg_db/data/__init__.py +8 -31
- endoreg_db/data/_examples/disease.yaml +55 -0
- endoreg_db/data/_examples/disease_classification.yaml +13 -0
- endoreg_db/data/_examples/disease_classification_choice.yaml +62 -0
- endoreg_db/data/_examples/event.yaml +64 -0
- endoreg_db/data/_examples/examination.yaml +72 -0
- endoreg_db/data/_examples/finding/anatomy_colon.yaml +128 -0
- endoreg_db/data/_examples/finding/colonoscopy.yaml +40 -0
- endoreg_db/data/_examples/finding/colonoscopy_bowel_prep.yaml +56 -0
- endoreg_db/data/_examples/finding/complication.yaml +16 -0
- endoreg_db/data/_examples/finding/data.yaml +105 -0
- endoreg_db/data/_examples/finding/examination_setting.yaml +16 -0
- endoreg_db/data/_examples/finding/medication_related.yaml +18 -0
- endoreg_db/data/_examples/finding/outcome.yaml +12 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_bowel_preparation.yaml +68 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_jnet.yaml +22 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_kudo.yaml +25 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_lesion_circularity.yaml +20 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_lesion_planarity.yaml +24 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_lesion_size.yaml +68 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_lesion_surface.yaml +20 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_location.yaml +80 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_lst.yaml +21 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_nice.yaml +20 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_paris.yaml +26 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_sano.yaml +22 -0
- endoreg_db/data/_examples/finding_classification/colonoscopy_summary.yaml +53 -0
- endoreg_db/data/_examples/finding_classification/complication_generic.yaml +25 -0
- endoreg_db/data/_examples/finding_classification/examination_setting_generic.yaml +40 -0
- endoreg_db/data/_examples/finding_classification/histology_colo.yaml +51 -0
- endoreg_db/data/_examples/finding_classification/intervention_required.yaml +26 -0
- endoreg_db/data/_examples/finding_classification/medication_related.yaml +23 -0
- endoreg_db/data/_examples/finding_classification/visualized.yaml +33 -0
- endoreg_db/data/_examples/finding_classification_choice/bowel_preparation.yaml +78 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_circularity_default.yaml +32 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_jnet.yaml +15 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_kudo.yaml +23 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_lst.yaml +15 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_nice.yaml +17 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_paris.yaml +57 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_planarity_default.yaml +49 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_sano.yaml +14 -0
- endoreg_db/data/_examples/finding_classification_choice/colon_lesion_surface_intact_default.yaml +36 -0
- endoreg_db/data/_examples/finding_classification_choice/colonoscopy_location.yaml +229 -0
- endoreg_db/data/_examples/finding_classification_choice/colonoscopy_not_complete_reason.yaml +19 -0
- endoreg_db/data/_examples/finding_classification_choice/colonoscopy_size.yaml +82 -0
- endoreg_db/data/_examples/finding_classification_choice/colonoscopy_summary_worst_finding.yaml +15 -0
- endoreg_db/data/_examples/finding_classification_choice/complication_generic_types.yaml +15 -0
- endoreg_db/data/_examples/finding_classification_choice/examination_setting_generic_types.yaml +15 -0
- endoreg_db/data/_examples/finding_classification_choice/histology.yaml +24 -0
- endoreg_db/data/_examples/finding_classification_choice/histology_polyp.yaml +20 -0
- endoreg_db/data/_examples/finding_classification_choice/outcome.yaml +19 -0
- endoreg_db/data/_examples/finding_classification_choice/yes_no_na.yaml +11 -0
- endoreg_db/data/_examples/finding_classification_type/colonoscopy_basic.yaml +48 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy.yaml +43 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy_colonoscopy.yaml +168 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy_egd.yaml +128 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy_ercp.yaml +32 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy_eus_lower.yaml +9 -0
- endoreg_db/data/_examples/finding_intervention/endoscopy_eus_upper.yaml +36 -0
- endoreg_db/data/_examples/finding_intervention_type/endoscopy.yaml +15 -0
- endoreg_db/data/_examples/finding_type/data.yaml +43 -0
- endoreg_db/data/_examples/requirement/age.yaml +26 -0
- endoreg_db/data/_examples/requirement/colonoscopy_baseline_austria.yaml +45 -0
- endoreg_db/data/_examples/requirement/disease_cardiovascular.yaml +79 -0
- endoreg_db/data/_examples/requirement/disease_classification_choice_cardiovascular.yaml +41 -0
- endoreg_db/data/_examples/requirement/disease_hepatology.yaml +12 -0
- endoreg_db/data/_examples/requirement/disease_misc.yaml +12 -0
- endoreg_db/data/_examples/requirement/disease_renal.yaml +96 -0
- endoreg_db/data/_examples/requirement/endoscopy_bleeding_risk.yaml +59 -0
- endoreg_db/data/_examples/requirement/event_cardiology.yaml +251 -0
- endoreg_db/data/_examples/requirement/event_requirements.yaml +145 -0
- endoreg_db/data/_examples/requirement/finding_colon_polyp.yaml +50 -0
- endoreg_db/data/_examples/requirement/gender.yaml +25 -0
- endoreg_db/data/_examples/requirement/lab_value.yaml +441 -0
- endoreg_db/data/_examples/requirement/medication.yaml +93 -0
- endoreg_db/data/_examples/requirement_operator/age.yaml +13 -0
- endoreg_db/data/_examples/requirement_operator/lab_operators.yaml +129 -0
- endoreg_db/data/_examples/requirement_operator/model_operators.yaml +96 -0
- endoreg_db/data/_examples/requirement_set/01_endoscopy_generic.yaml +48 -0
- endoreg_db/data/_examples/requirement_set/colonoscopy_austria_screening.yaml +57 -0
- endoreg_db/data/_examples/yaml_examples.xlsx +0 -0
- endoreg_db/data/ai_model_meta/default_multilabel_classification.yaml +4 -3
- endoreg_db/data/event_classification/data.yaml +4 -0
- endoreg_db/data/event_classification_choice/data.yaml +9 -0
- endoreg_db/data/finding_classification/colonoscopy_bowel_preparation.yaml +43 -70
- endoreg_db/data/finding_classification/colonoscopy_lesion_size.yaml +22 -52
- endoreg_db/data/finding_classification/colonoscopy_location.yaml +31 -62
- endoreg_db/data/finding_classification/histology_colo.yaml +28 -36
- endoreg_db/data/requirement/colon_polyp_intervention.yaml +49 -0
- endoreg_db/data/requirement/coloreg_colon_polyp.yaml +49 -0
- endoreg_db/data/requirement_set/01_endoscopy_generic.yaml +31 -12
- endoreg_db/data/requirement_set/01_laboratory.yaml +13 -0
- endoreg_db/data/requirement_set/02_endoscopy_bleeding_risk.yaml +46 -0
- endoreg_db/data/requirement_set/90_coloreg.yaml +178 -0
- endoreg_db/data/requirement_set/_old_ +109 -0
- endoreg_db/data/requirement_set_type/data.yaml +21 -0
- endoreg_db/data/setup_config.yaml +4 -4
- endoreg_db/data/tag/requirement_set_tags.yaml +21 -0
- endoreg_db/exceptions.py +5 -2
- endoreg_db/helpers/data_loader.py +1 -1
- endoreg_db/management/commands/create_model_meta_from_huggingface.py +21 -10
- endoreg_db/management/commands/create_multilabel_model_meta.py +299 -129
- endoreg_db/management/commands/import_video.py +9 -10
- endoreg_db/management/commands/import_video_with_classification.py +1 -1
- endoreg_db/management/commands/init_default_ai_model.py +1 -1
- endoreg_db/management/commands/list_routes.py +18 -0
- endoreg_db/management/commands/load_center_data.py +12 -12
- endoreg_db/management/commands/load_requirement_data.py +60 -31
- endoreg_db/management/commands/load_requirement_set_tags.py +95 -0
- endoreg_db/management/commands/setup_endoreg_db.py +3 -3
- endoreg_db/management/commands/storage_management.py +271 -203
- endoreg_db/migrations/0001_initial.py +1799 -1300
- endoreg_db/migrations/0002_requirementset_depends_on.py +18 -0
- endoreg_db/migrations/_old/0001_initial.py +1857 -0
- endoreg_db/migrations/_old/0004_employee_city_employee_post_code_employee_street_and_more.py +68 -0
- endoreg_db/migrations/_old/0004_remove_casetemplate_rules_and_more.py +77 -0
- endoreg_db/migrations/_old/0005_merge_20251111_1003.py +14 -0
- endoreg_db/migrations/_old/0006_sensitivemeta_anonymized_text_and_more.py +68 -0
- endoreg_db/migrations/_old/0007_remove_rule_attribute_dtype_remove_rule_rule_type_and_more.py +89 -0
- endoreg_db/migrations/_old/0008_remove_event_event_classification_and_more.py +27 -0
- endoreg_db/migrations/_old/0009_alter_modelmeta_options_and_more.py +21 -0
- endoreg_db/models/__init__.py +78 -123
- endoreg_db/models/administration/__init__.py +21 -42
- endoreg_db/models/administration/ai/active_model.py +2 -2
- endoreg_db/models/administration/ai/ai_model.py +7 -6
- endoreg_db/models/administration/case/__init__.py +1 -15
- endoreg_db/models/administration/case/case.py +3 -3
- endoreg_db/models/administration/case/case_template/__init__.py +2 -14
- endoreg_db/models/administration/case/case_template/case_template.py +2 -124
- endoreg_db/models/administration/case/case_template/case_template_rule.py +2 -268
- endoreg_db/models/administration/case/case_template/case_template_rule_value.py +2 -85
- endoreg_db/models/administration/case/case_template/case_template_type.py +2 -25
- endoreg_db/models/administration/center/center.py +33 -19
- endoreg_db/models/administration/center/center_product.py +12 -9
- endoreg_db/models/administration/center/center_resource.py +25 -19
- endoreg_db/models/administration/center/center_shift.py +21 -17
- endoreg_db/models/administration/center/center_waste.py +16 -8
- endoreg_db/models/administration/person/__init__.py +2 -0
- endoreg_db/models/administration/person/employee/employee.py +10 -5
- endoreg_db/models/administration/person/employee/employee_qualification.py +9 -4
- endoreg_db/models/administration/person/employee/employee_type.py +12 -6
- endoreg_db/models/administration/person/examiner/examiner.py +13 -11
- endoreg_db/models/administration/person/patient/__init__.py +2 -0
- endoreg_db/models/administration/person/patient/patient.py +103 -100
- endoreg_db/models/administration/person/patient/patient_external_id.py +37 -0
- endoreg_db/models/administration/person/person.py +4 -0
- endoreg_db/models/administration/person/profession/__init__.py +8 -4
- endoreg_db/models/administration/person/user/portal_user_information.py +11 -7
- endoreg_db/models/administration/product/product.py +20 -15
- endoreg_db/models/administration/product/product_material.py +17 -18
- endoreg_db/models/administration/product/product_weight.py +12 -8
- endoreg_db/models/administration/product/reference_product.py +23 -55
- endoreg_db/models/administration/qualification/qualification.py +7 -3
- endoreg_db/models/administration/qualification/qualification_type.py +7 -3
- endoreg_db/models/administration/shift/scheduled_days.py +8 -5
- endoreg_db/models/administration/shift/shift.py +16 -12
- endoreg_db/models/administration/shift/shift_type.py +23 -31
- endoreg_db/models/label/__init__.py +7 -8
- endoreg_db/models/label/annotation/image_classification.py +10 -9
- endoreg_db/models/label/annotation/video_segmentation_annotation.py +8 -5
- endoreg_db/models/label/label.py +15 -15
- endoreg_db/models/label/label_set.py +19 -6
- endoreg_db/models/label/label_type.py +1 -1
- endoreg_db/models/label/label_video_segment/_create_from_video.py +5 -8
- endoreg_db/models/label/label_video_segment/label_video_segment.py +76 -102
- endoreg_db/models/label/video_segmentation_label.py +4 -0
- endoreg_db/models/label/video_segmentation_labelset.py +4 -3
- endoreg_db/models/media/frame/frame.py +22 -22
- endoreg_db/models/media/pdf/raw_pdf.py +110 -182
- endoreg_db/models/media/pdf/report_file.py +25 -29
- endoreg_db/models/media/pdf/report_reader/report_reader_config.py +30 -46
- endoreg_db/models/media/pdf/report_reader/report_reader_flag.py +23 -7
- endoreg_db/models/media/video/__init__.py +1 -0
- endoreg_db/models/media/video/create_from_file.py +48 -56
- endoreg_db/models/media/video/pipe_2.py +8 -9
- endoreg_db/models/media/video/video_file.py +150 -108
- endoreg_db/models/media/video/video_file_ai.py +288 -74
- endoreg_db/models/media/video/video_file_anonymize.py +38 -38
- endoreg_db/models/media/video/video_file_frames/__init__.py +3 -1
- endoreg_db/models/media/video/video_file_frames/_bulk_create_frames.py +6 -8
- endoreg_db/models/media/video/video_file_frames/_create_frame_object.py +7 -9
- endoreg_db/models/media/video/video_file_frames/_delete_frames.py +9 -8
- endoreg_db/models/media/video/video_file_frames/_extract_frames.py +38 -45
- endoreg_db/models/media/video/video_file_frames/_get_frame.py +6 -8
- endoreg_db/models/media/video/video_file_frames/_get_frame_number.py +4 -18
- endoreg_db/models/media/video/video_file_frames/_get_frame_path.py +4 -3
- endoreg_db/models/media/video/video_file_frames/_get_frame_paths.py +7 -6
- endoreg_db/models/media/video/video_file_frames/_get_frame_range.py +6 -8
- endoreg_db/models/media/video/video_file_frames/_get_frames.py +6 -8
- endoreg_db/models/media/video/video_file_frames/_initialize_frames.py +15 -25
- endoreg_db/models/media/video/video_file_frames/_manage_frame_range.py +26 -23
- endoreg_db/models/media/video/video_file_frames/_mark_frames_extracted_status.py +23 -14
- endoreg_db/models/media/video/video_file_io.py +109 -62
- endoreg_db/models/media/video/video_file_meta/get_crop_template.py +3 -3
- endoreg_db/models/media/video/video_file_meta/get_endo_roi.py +5 -3
- endoreg_db/models/media/video/video_file_meta/get_fps.py +37 -34
- endoreg_db/models/media/video/video_file_meta/initialize_video_specs.py +19 -25
- endoreg_db/models/media/video/video_file_meta/text_meta.py +41 -38
- endoreg_db/models/media/video/video_file_meta/video_meta.py +14 -7
- endoreg_db/models/media/video/video_file_segments.py +24 -17
- endoreg_db/models/media/video/video_metadata.py +19 -35
- endoreg_db/models/media/video/video_processing.py +96 -95
- endoreg_db/models/medical/contraindication/__init__.py +13 -3
- endoreg_db/models/medical/disease.py +22 -16
- endoreg_db/models/medical/event.py +31 -18
- endoreg_db/models/medical/examination/__init__.py +13 -6
- endoreg_db/models/medical/examination/examination.py +17 -18
- endoreg_db/models/medical/examination/examination_indication.py +26 -25
- endoreg_db/models/medical/examination/examination_time.py +16 -6
- endoreg_db/models/medical/examination/examination_time_type.py +9 -6
- endoreg_db/models/medical/examination/examination_type.py +3 -4
- endoreg_db/models/medical/finding/finding.py +38 -39
- endoreg_db/models/medical/finding/finding_classification.py +37 -48
- endoreg_db/models/medical/finding/finding_intervention.py +27 -22
- endoreg_db/models/medical/finding/finding_type.py +13 -12
- endoreg_db/models/medical/hardware/endoscope.py +20 -26
- endoreg_db/models/medical/hardware/endoscopy_processor.py +2 -2
- endoreg_db/models/medical/laboratory/lab_value.py +62 -91
- endoreg_db/models/medical/medication/medication.py +22 -10
- endoreg_db/models/medical/medication/medication_indication.py +29 -3
- endoreg_db/models/medical/medication/medication_indication_type.py +25 -14
- endoreg_db/models/medical/medication/medication_intake_time.py +31 -19
- endoreg_db/models/medical/medication/medication_schedule.py +27 -16
- endoreg_db/models/medical/organ/__init__.py +15 -12
- endoreg_db/models/medical/patient/medication_examples.py +1 -5
- endoreg_db/models/medical/patient/patient_disease.py +20 -23
- endoreg_db/models/medical/patient/patient_event.py +19 -22
- endoreg_db/models/medical/patient/patient_examination.py +48 -54
- endoreg_db/models/medical/patient/patient_examination_indication.py +16 -14
- endoreg_db/models/medical/patient/patient_finding.py +122 -139
- endoreg_db/models/medical/patient/patient_finding_classification.py +44 -49
- endoreg_db/models/medical/patient/patient_finding_intervention.py +8 -19
- endoreg_db/models/medical/patient/patient_lab_sample.py +28 -23
- endoreg_db/models/medical/patient/patient_lab_value.py +82 -89
- endoreg_db/models/medical/patient/patient_medication.py +27 -38
- endoreg_db/models/medical/patient/patient_medication_schedule.py +28 -36
- endoreg_db/models/medical/risk/risk.py +7 -6
- endoreg_db/models/medical/risk/risk_type.py +8 -5
- endoreg_db/models/metadata/model_meta.py +60 -29
- endoreg_db/models/metadata/model_meta_logic.py +125 -18
- endoreg_db/models/metadata/pdf_meta.py +19 -24
- endoreg_db/models/metadata/sensitive_meta.py +102 -85
- endoreg_db/models/metadata/sensitive_meta_logic.py +192 -173
- endoreg_db/models/metadata/video_meta.py +51 -31
- endoreg_db/models/metadata/video_prediction_logic.py +16 -23
- endoreg_db/models/metadata/video_prediction_meta.py +29 -33
- endoreg_db/models/other/distribution/date_value_distribution.py +89 -29
- endoreg_db/models/other/distribution/multiple_categorical_value_distribution.py +21 -5
- endoreg_db/models/other/distribution/numeric_value_distribution.py +114 -53
- endoreg_db/models/other/distribution/single_categorical_value_distribution.py +4 -3
- endoreg_db/models/other/emission/emission_factor.py +18 -8
- endoreg_db/models/other/gender.py +10 -5
- endoreg_db/models/other/information_source.py +25 -25
- endoreg_db/models/other/material.py +9 -5
- endoreg_db/models/other/resource.py +6 -4
- endoreg_db/models/other/tag.py +10 -5
- endoreg_db/models/other/transport_route.py +13 -8
- endoreg_db/models/other/unit.py +10 -6
- endoreg_db/models/other/waste.py +6 -5
- endoreg_db/models/requirement/requirement.py +580 -272
- endoreg_db/models/requirement/requirement_error.py +85 -0
- endoreg_db/models/requirement/requirement_evaluation/evaluate_with_dependencies.py +268 -0
- endoreg_db/models/requirement/requirement_evaluation/operator_evaluation_models.py +3 -6
- endoreg_db/models/requirement/requirement_evaluation/requirement_type_parser.py +90 -64
- endoreg_db/models/requirement/requirement_operator.py +36 -33
- endoreg_db/models/requirement/requirement_set.py +74 -57
- endoreg_db/models/state/__init__.py +4 -4
- endoreg_db/models/state/abstract.py +2 -2
- endoreg_db/models/state/anonymization.py +12 -0
- endoreg_db/models/state/audit_ledger.py +46 -47
- endoreg_db/models/state/label_video_segment.py +9 -0
- endoreg_db/models/state/raw_pdf.py +40 -46
- endoreg_db/models/state/sensitive_meta.py +6 -2
- endoreg_db/models/state/video.py +58 -53
- endoreg_db/models/upload_job.py +32 -55
- endoreg_db/models/utils.py +1 -2
- endoreg_db/root_urls.py +21 -2
- endoreg_db/serializers/__init__.py +0 -2
- endoreg_db/serializers/anonymization.py +18 -10
- endoreg_db/serializers/meta/report_meta.py +1 -1
- endoreg_db/serializers/meta/sensitive_meta_detail.py +63 -118
- endoreg_db/serializers/misc/file_overview.py +11 -99
- endoreg_db/serializers/requirements/requirement_sets.py +92 -22
- endoreg_db/serializers/video/segmentation.py +2 -1
- endoreg_db/serializers/video/video_processing_history.py +20 -5
- endoreg_db/services/anonymization.py +75 -73
- endoreg_db/services/lookup_service.py +37 -24
- endoreg_db/services/pdf_import.py +166 -68
- endoreg_db/services/storage_aware_video_processor.py +140 -114
- endoreg_db/services/video_import.py +193 -283
- endoreg_db/urls/__init__.py +7 -20
- endoreg_db/urls/media.py +108 -67
- endoreg_db/urls/root_urls.py +29 -0
- endoreg_db/utils/__init__.py +15 -5
- endoreg_db/utils/ai/multilabel_classification_net.py +116 -20
- endoreg_db/utils/case_generator/__init__.py +3 -0
- endoreg_db/utils/dataloader.py +88 -16
- endoreg_db/utils/defaults/set_default_center.py +32 -0
- endoreg_db/utils/names.py +22 -16
- endoreg_db/utils/permissions.py +2 -1
- endoreg_db/utils/pipelines/process_video_dir.py +1 -1
- endoreg_db/utils/requirement_operator_logic/model_evaluators.py +414 -127
- endoreg_db/utils/setup_config.py +8 -5
- endoreg_db/utils/storage.py +115 -0
- endoreg_db/utils/validate_endo_roi.py +8 -2
- endoreg_db/utils/video/ffmpeg_wrapper.py +184 -188
- endoreg_db/views/__init__.py +0 -10
- endoreg_db/views/anonymization/media_management.py +198 -163
- endoreg_db/views/anonymization/overview.py +4 -1
- endoreg_db/views/anonymization/validate.py +174 -40
- endoreg_db/views/media/__init__.py +2 -0
- endoreg_db/views/media/pdf_media.py +131 -152
- endoreg_db/views/media/sensitive_metadata.py +46 -6
- endoreg_db/views/media/video_media.py +89 -82
- endoreg_db/views/media/video_segments.py +2 -3
- endoreg_db/views/meta/sensitive_meta_detail.py +0 -63
- endoreg_db/views/patient/patient.py +5 -4
- endoreg_db/views/pdf/pdf_stream.py +20 -21
- endoreg_db/views/pdf/reimport.py +11 -32
- endoreg_db/views/requirement/evaluate.py +188 -187
- endoreg_db/views/requirement/lookup.py +17 -3
- endoreg_db/views/requirement/requirement_utils.py +89 -0
- endoreg_db/views/video/__init__.py +0 -2
- endoreg_db/views/video/correction.py +2 -2
- {endoreg_db-0.8.6.1.dist-info → endoreg_db-0.8.8.0.dist-info}/METADATA +7 -3
- {endoreg_db-0.8.6.1.dist-info → endoreg_db-0.8.8.0.dist-info}/RECORD +341 -245
- endoreg_db/models/administration/permissions/__init__.py +0 -44
- endoreg_db/models/media/video/video_file_frames.py +0 -0
- endoreg_db/models/metadata/frame_ocr_result.py +0 -0
- endoreg_db/models/rule/__init__.py +0 -13
- endoreg_db/models/rule/rule.py +0 -27
- endoreg_db/models/rule/rule_applicator.py +0 -224
- endoreg_db/models/rule/rule_attribute_dtype.py +0 -17
- endoreg_db/models/rule/rule_type.py +0 -20
- endoreg_db/models/rule/ruleset.py +0 -17
- endoreg_db/serializers/video/video_metadata.py +0 -105
- endoreg_db/urls/report.py +0 -48
- endoreg_db/urls/video.py +0 -61
- endoreg_db/utils/case_generator/case_generator.py +0 -159
- endoreg_db/utils/case_generator/utils.py +0 -30
- endoreg_db/views/report/__init__.py +0 -9
- endoreg_db/views/report/report_list.py +0 -112
- endoreg_db/views/report/report_with_secure_url.py +0 -28
- endoreg_db/views/report/start_examination.py +0 -7
- endoreg_db/views.py +0 -0
- /endoreg_db/data/{requirement_set → _examples/requirement_set}/endoscopy_bleeding_risk.yaml +0 -0
- /endoreg_db/migrations/{0002_add_video_correction_models.py → _old/0002_add_video_correction_models.py} +0 -0
- /endoreg_db/migrations/{0003_add_center_display_name.py → _old/0003_add_center_display_name.py} +0 -0
- /endoreg_db/{models/media/video/refactor_plan.md → views/pdf/pdf_stream_views.py} +0 -0
- {endoreg_db-0.8.6.1.dist-info → endoreg_db-0.8.8.0.dist-info}/WHEEL +0 -0
- {endoreg_db-0.8.6.1.dist-info → endoreg_db-0.8.8.0.dist-info}/licenses/LICENSE +0 -0
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@@ -0,0 +1,49 @@
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- model: endoreg_db.requirement
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fields:
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name: "colonoscopy_default_polyp_resection"
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requirement_types:
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- "patient_finding"
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operators:
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- "models_match_any"
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finding_interventions:
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- "colon_lesion_biopsy"
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- "colon_lesion_polypectomy_cold_snare"
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- "colon_lesion_polypectomy_hot_snare"
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- "colon_lesion_emr"
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- "colon_lesion_esd"
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- "colon_lesion_eftr"
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- model: endoreg_db.requirement
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fields:
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name: "colonoscopy_default_polyp_no_resection"
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requirement_types:
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- "patient_finding"
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operators:
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- "models_match_none"
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finding_interventions:
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- "colon_lesion_biopsy"
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- "colon_lesion_polypectomy_cold_snare"
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- "colon_lesion_polypectomy_hot_snare"
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- "colon_lesion_emr"
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- "colon_lesion_esd"
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- "colon_lesion_eftr"
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# - model: endoreg_db.requirement
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# fields:
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# name: "colonoscopy_finding_colon_polyp_no_resection_reason"
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# requirement_types:
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# - "patient_finding"
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# operators:
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# - "models_match_any"
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# finding_classifications:
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# - "colon_lesion_no_resection_reason"
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# - model: endoreg_db.requirement
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# fields:
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# name: "colonoscopy_polyp_clip_application"
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# requirement_types:
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# - "patient_finding"
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# operators:
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# - "models_match_any"
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# finding_interventions:
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# - "colon_lesion_over_the_scope_clip"
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# - "colon_lesion_clip"
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@@ -0,0 +1,49 @@
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- model: endoreg_db.requirement
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fields:
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name: "colonoscopy_default_size"
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requirement_types:
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- "patient_finding"
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operators:
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- "models_match_any"
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finding_classifications:
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- "colon_lesion_size_mm"
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- "colon_lesion_size_categorical"
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- model: endoreg_db.requirement
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fields:
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name: "colonoscopy_default_location"
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requirement_types:
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- "patient_finding"
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operators:
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- "models_match_any"
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finding_classifications:
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- "colonoscopy_location_default"
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- model: endoreg_db.requirement
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fields:
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name: "colonoscopy_default_polyp_morphology"
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operators:
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- "models_match_any"
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requirement_types:
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- "patient_finding"
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finding_classifications:
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- "colon_lesion_paris"
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- "colon_lesion_lst"
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- "colon_lesion_planarity_default"
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- model: endoreg_db.requirement
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35
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fields:
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name: "colonoscopy_default_polyp_histology"
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requirement_types:
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- "patient_finding"
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operators:
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40
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- "models_match_all"
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41
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finding_classifications:
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42
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- "colonoscopy_polyp_histology"
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43
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- "colonoscopy_polyp_histology_dysplasia"
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44
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- "colonoscopy_histology_dignity"
|
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45
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- "colonoscopy_default_histology_in_sano"
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46
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+
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47
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- models: endoreg_db.requirement
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48
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fields:
|
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49
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name: "colonoscopy_finding_colon_polyp_histo_expected"
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@@ -2,7 +2,7 @@
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2
2
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fields:
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3
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name: "patient_gender_generic"
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4
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name_de: "Patientengeschlecht (männlich/weiblich)"
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-
name_en: "Patient gender generic"
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name_en: "Patient gender generic"
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6
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description: "Patient gender (generic)"
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7
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requirement_set_type: "any"
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8
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requirements:
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@@ -11,17 +11,35 @@
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11
11
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12
12
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- models: endoreg_db.requirement_set
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13
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fields:
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name: "
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name_de: "
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name_en: "
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description: "
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14
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name: "patient_names_generic"
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name_de: "Patientennamen (Vorname, Nachname)"
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name_en: "Patient names generic"
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description: "Patient names (generic)"
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18
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requirement_set_type: "all"
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19
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requirements:
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-
-
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-
-
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22
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-
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23
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-
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24
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-
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20
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- patient_first_name #TODO
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21
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- patient_last_name #TODO
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22
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+
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23
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- models: endoreg_db.requirement_set
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24
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fields:
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name: "patient_dob_generic"
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name_de: "Patienten-Geburtsdatum"
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27
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name_en: "Patient date of birth generic"
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28
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description: "Patient date of birth (generic)"
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29
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requirement_set_type: "all"
|
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30
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+
requirements:
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31
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+
- patient_date_of_birth_present #TODO
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32
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+
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33
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- models: endoreg_db.requirement_set
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34
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fields:
|
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35
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name: "colonoscopy_basic_patient_history"
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36
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name_de: "Koloskopie - Basis Patientenanamnese"
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name_en: "Colonoscopy - Basic Patient History"
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38
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description: "Colonoscopy - Basic Patient History"
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39
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+
requirement_set_type: "all"
|
|
40
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+
requirements:
|
|
41
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+
- "patient_history_last_colonoscopy_known" #TODO
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42
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- "patient_history_previous_bowel_surgery_known" #TODO
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25
43
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26
44
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- models: endoreg_db.requirement_set
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27
45
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fields:
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@@ -34,7 +52,6 @@
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34
52
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- "patient_age_gte_18"
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35
53
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- "patient_age_lte_100"
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36
54
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|
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37
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-
# - models: endoreg_db.requirement_set
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38
55
|
- models: endoreg_db.requirement_set
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39
56
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fields:
|
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40
57
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name: "generic_patient"
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@@ -45,4 +62,6 @@
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45
62
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links_to_sets:
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46
63
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- "patient_age_generic"
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47
64
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- "patient_gender_generic"
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48
|
-
- "basic_lab_values_normal"
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65
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- "basic_lab_values_normal"
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66
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67
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-
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@@ -0,0 +1,13 @@
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- models: endoreg_db.requirement_set
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fields:
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name: "basic_lab_values_normal"
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name_de: "Basis-Labortests (Unauffällig)"
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name_en: "Basic Lab Tests (Normal)"
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6
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description: "Basic lab tests (normal)"
|
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7
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requirement_set_type: "all"
|
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8
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requirements:
|
|
9
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- "lab_value_hb_normal"
|
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10
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- "lab_value_leukocytes_normal"
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11
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- "lab_value_platelets_normal"
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12
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- "lab_value_creatinine_normal"
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13
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- "lab_value_inr_normal"
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@@ -0,0 +1,46 @@
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- models: endoreg_db.requirement_set
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2
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fields:
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3
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name: "endoscopy_bleeding_risk_high"
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4
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name_de: "Endoskopie - Blutungsrisiko: hoch"
|
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5
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name_en: "Endoscopy - Bleeding Risk: High"
|
|
6
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description: "Endoskopie - Blutungsrisiko: hoch"
|
|
7
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# linked_sets: [] # if this rule depends on others
|
|
8
|
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requirement_set_type: "any"
|
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9
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requirements:
|
|
10
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- "endoscopy_intervention_bleeding_risk_high"
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11
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+
|
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12
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- models: endoreg_db.requirement_set
|
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13
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fields:
|
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14
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name: "endoscopy_bleeding_risk_low"
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|
15
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name_de: "Endoskopie - Blutungsrisiko: niedrig"
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16
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name_en: "Endoscopy - Bleeding Risk: Low"
|
|
17
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description: "Endoskopie - Blutungsrisiko: niedrig"
|
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18
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# linked_sets: [] # if this rule depends on others
|
|
19
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requirement_set_type: "any"
|
|
20
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requirements:
|
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21
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- "endoscopy_intervention_bleeding_risk_low"
|
|
22
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links_to_sets: []
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23
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+
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24
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- models: endoreg_db.requirement_set
|
|
25
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fields:
|
|
26
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name: "patient_medication_indication_anticoagulation"
|
|
27
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name_de: "Patientenmedikation - Antikoagulation"
|
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28
|
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name_en: "Patient Medication - Anticoagulation"
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29
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description: "Patient medication - anticoagulation"
|
|
30
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+
requirement_set_type: "any"
|
|
31
|
+
requirements:
|
|
32
|
+
- "indication_non_valvular_af_apixaban_is_defined_in_requirement"
|
|
33
|
+
- "indication_after_hip_apixaban_is_defined_in_requirement"
|
|
34
|
+
- "indication_after_knee_apixaban_is_defined_in_requirement"
|
|
35
|
+
|
|
36
|
+
- models: endoreg_db.requirement_set
|
|
37
|
+
fields:
|
|
38
|
+
name: "high_bleed_risk_endoscopy_w_patient_w_anticoagulation"
|
|
39
|
+
name_de: "Endoskopie - hohes Blutungsrisiko mit generischen Patientenanforderungen"
|
|
40
|
+
name_en: "High Bleed Risk Endoscopy with Generic Patient Requirements"
|
|
41
|
+
description: "High bleed risk endoscopy with generic patient requirements"
|
|
42
|
+
requirement_set_type: "all"
|
|
43
|
+
links_to_sets:
|
|
44
|
+
- "endoscopy_bleeding_risk_high"
|
|
45
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+
- "generic_patient"
|
|
46
|
+
- "patient_medication_indication_anticoagulation"
|
|
@@ -0,0 +1,178 @@
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1
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+
- models: endoreg_db.requirement_set
|
|
2
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+
fields:
|
|
3
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name: "coloreg_patient_data"
|
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4
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+
name_de: "Coloreg Patientendaten"
|
|
5
|
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name_en: "Coloreg Patient Data"
|
|
6
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+
description: "Coloreg Patient Data"
|
|
7
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+
requirement_set_type: "all"
|
|
8
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+
requirements: []
|
|
9
|
+
links_to_sets:
|
|
10
|
+
- "patient_gender_generic"
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11
|
+
- "patient_names_generic"
|
|
12
|
+
- "patient_dob_generic"
|
|
13
|
+
- "colonoscopy_basic_patient_history" # includes previous bowel_surgery_known and last_colonoscopy_known
|
|
14
|
+
tags: [] # not tagged as report_mask_requirement_set, only used in top level requirement set
|
|
15
|
+
|
|
16
|
+
- models: endoreg_db.requirement_set
|
|
17
|
+
fields:
|
|
18
|
+
name: "coloreg_examination_data"
|
|
19
|
+
name_de: "Coloreg Untersuchungsdaten"
|
|
20
|
+
name_en: "Coloreg Examination Data"
|
|
21
|
+
description: "Coloreg Examination Data"
|
|
22
|
+
requirement_set_type: "all"
|
|
23
|
+
requirements:
|
|
24
|
+
- "examination_has_indication" #TODO
|
|
25
|
+
- "examination_has_sedation_information" #TODO
|
|
26
|
+
- "examination_bowel_prep_recorded" #TODO
|
|
27
|
+
links_to_sets:
|
|
28
|
+
- "colonoscopy_deepest_insertion_reached_recorded" #TODO # if not cecum or terminal ileum
|
|
29
|
+
tags: []
|
|
30
|
+
|
|
31
|
+
- models: endoreg_db.requirement_set
|
|
32
|
+
fields:
|
|
33
|
+
name: "coloreg_finding_colon_polyp_location_base"
|
|
34
|
+
name_de: "Coloreg Befund Kolon Polyp Lage"
|
|
35
|
+
name_en: "Coloreg Finding Colon Polyp Location"
|
|
36
|
+
description: "Coloreg Finding Colon Polyp Exact Location"
|
|
37
|
+
requirement_set_type: "any"
|
|
38
|
+
requirements:
|
|
39
|
+
- "colon_polyp_has_location" #TODO
|
|
40
|
+
|
|
41
|
+
- models: endoreg_db.requirement_set
|
|
42
|
+
fields:
|
|
43
|
+
name: "coloreg_finding_colon_polyp_rectosigmoid_location"
|
|
44
|
+
name_de: "Coloreg Befund Kolon Polyp Rektosigmoid Lage"
|
|
45
|
+
name_en: "Coloreg Finding Colon Polyp Rectosigmoid Location"
|
|
46
|
+
description: "Coloreg Finding Colon Polyp Rectosigmoid Location"
|
|
47
|
+
requirement_set_type: "all"
|
|
48
|
+
depends_on_sets:
|
|
49
|
+
- "coloreg_finding_colon_polyp_location_base"
|
|
50
|
+
requirements:
|
|
51
|
+
- "coloreg_finding_colon_polyp_rectosigmoid_has_location_cm" #TODO Rektosigmoid muss cm haben
|
|
52
|
+
- "coloreg_finding_colon_polyp_non_rectosigmoid_has_location_cm" #TODO nicht rektosigmoid kann cm haben
|
|
53
|
+
- "coloreg_finding_colon_polyp_non_rectosigmoid_has_location_colon_segment" #TODO nicht rektosigmoid kann Segment haben
|
|
54
|
+
|
|
55
|
+
- models: endoreg_db.requirement_set
|
|
56
|
+
fields:
|
|
57
|
+
name: "coloreg_finding_colon_polyp_size"
|
|
58
|
+
name_de: "Coloreg Befund Kolon Polyp Größe"
|
|
59
|
+
name_en: "Coloreg Finding Colon Polyp Size"
|
|
60
|
+
description: "Coloreg Finding Colon Polyp Size"
|
|
61
|
+
requirement_set_type: "any"
|
|
62
|
+
requirements:
|
|
63
|
+
- "coloreg_finding_colon_polyp_size_measured_in_mm" #TODO
|
|
64
|
+
- "coloreg_finding_colon_polyp_size_categorical" #TODO
|
|
65
|
+
|
|
66
|
+
- models: endoreg_db.requirement_set
|
|
67
|
+
fields:
|
|
68
|
+
name: "coloreg_polyp_small_morphology"
|
|
69
|
+
name_de: "Coloreg Polyp Klein Morphologie"
|
|
70
|
+
name_en: "Coloreg Polyp Small Morphology"
|
|
71
|
+
description: "Coloreg Polyp Small Morphology"
|
|
72
|
+
requirement_set_type: "all"
|
|
73
|
+
requirements:
|
|
74
|
+
- "colon_polyp_size_smaller_10_mm" # any size_cat is <6 or 6 - 9 mm or size_mm is < 10 mm
|
|
75
|
+
- "colonoscopy_default_polyp_morphology_wli" # any (paris / description)
|
|
76
|
+
|
|
77
|
+
- models: endoreg_db.requirement_set
|
|
78
|
+
fields:
|
|
79
|
+
name: "coloreg_polyp_medium_morphology"
|
|
80
|
+
name_de: "Coloreg Polyp Mittel Morphologie"
|
|
81
|
+
name_en: "Coloreg Polyp Medium Morphology"
|
|
82
|
+
description: "Coloreg Polyp Medium Morphology"
|
|
83
|
+
requirement_set_type: "all"
|
|
84
|
+
requirements:
|
|
85
|
+
- "colon_polyp_size_smaller_10_19_mm" # size cat is 10-19 mm or size_mm between 10 and 19 mm
|
|
86
|
+
- "colonoscopy_default_polyp_morphology_wli"
|
|
87
|
+
- "colonoscopy_nbi_polyp_morphology" # (nice)
|
|
88
|
+
|
|
89
|
+
- models: endoreg_db.requirement_set
|
|
90
|
+
fields:
|
|
91
|
+
name: "coloreg_polyp_large_morphology"
|
|
92
|
+
name_de: "Coloreg Polyp Groß Morphologie"
|
|
93
|
+
name_en: "Coloreg Polyp Large Morphology"
|
|
94
|
+
description: "Coloreg Polyp Large Morphology"
|
|
95
|
+
requirement_set_type: "all"
|
|
96
|
+
requirements:
|
|
97
|
+
- "colon_polyp_size_20_mm_or_larger" # size cat is 20+ mm or size_mm >=20 mm
|
|
98
|
+
- "colonoscopy_nbi_polyp_morphology" # (nice)
|
|
99
|
+
- "colonoscopy_large_polyp_morphology" # ( LST )
|
|
100
|
+
|
|
101
|
+
- models: endoreg_db.requirement_set
|
|
102
|
+
fields:
|
|
103
|
+
name: "coloreg_finding_colon_polyp_morphology"
|
|
104
|
+
name_de: "Coloreg Befund Kolon Polyp Morphologie"
|
|
105
|
+
name_en: "Coloreg Finding Colon Polyp Morphology"
|
|
106
|
+
description: "Coloreg Finding Colon Polyp Morphology"
|
|
107
|
+
requirement_set_type: "any"
|
|
108
|
+
depends_on_sets:
|
|
109
|
+
- "coloreg_finding_colon_polyp_size"
|
|
110
|
+
links_to_sets:
|
|
111
|
+
- "coloreg_polyp_small_morphology"
|
|
112
|
+
- "coloreg_polyp_medium_morphology"
|
|
113
|
+
- "coloreg_polyp_large_morphology"
|
|
114
|
+
|
|
115
|
+
- models: endoreg_db.requirement_set
|
|
116
|
+
fields:
|
|
117
|
+
name: "coloreg_finding_colon_polyp_histology_expected_and_available"
|
|
118
|
+
name_de: "Coloreg Befund Kolon Polyp Histologie"
|
|
119
|
+
name_en: "Coloreg Finding Colon Polyp Histology"
|
|
120
|
+
description: "Coloreg Finding Colon Polyp Histology"
|
|
121
|
+
requirement_set_type: "all"
|
|
122
|
+
requirements:
|
|
123
|
+
- "colonoscopy_default_polyp_resection"
|
|
124
|
+
- "colonoscopy_default_polyp_histology"
|
|
125
|
+
|
|
126
|
+
- models: endoreg_db.requirement_set
|
|
127
|
+
fields:
|
|
128
|
+
name: "coloreg_finding_colon_polyp_histology_not_expected"
|
|
129
|
+
name_de: "Coloreg Befund Kolon Polyp Histologie"
|
|
130
|
+
name_en: "Coloreg Finding Colon Polyp Histology"
|
|
131
|
+
description: "Coloreg Finding Colon Polyp Histology"
|
|
132
|
+
requirement_set_type: "all"
|
|
133
|
+
requirements:
|
|
134
|
+
- "colonoscopy_default_polyp_no_resection"
|
|
135
|
+
# - "colonoscopy_finding_colon_polyp_no_resection_reason"
|
|
136
|
+
|
|
137
|
+
- models: endoreg_db.requirement_set
|
|
138
|
+
fields:
|
|
139
|
+
name: "coloreg_finding_colon_polyp_histology"
|
|
140
|
+
name_de: "Coloreg Befund Kolon Polyp Histologie"
|
|
141
|
+
name_en: "Coloreg Finding Colon Polyp Histology"
|
|
142
|
+
description: "Coloreg Finding Colon Polyp Histology"
|
|
143
|
+
requirement_set_type: "any"
|
|
144
|
+
links_to_sets:
|
|
145
|
+
- "coloreg_finding_colon_polyp_histology_expected_and_available"
|
|
146
|
+
- "coloreg_finding_colon_polyp_histology_not_expected"
|
|
147
|
+
|
|
148
|
+
- models: endoreg_db.requirement_set
|
|
149
|
+
fields:
|
|
150
|
+
name: "coloreg_finding_colon_polyp_base_description"
|
|
151
|
+
name_de: "Coloreg Befund Kolon Polyp"
|
|
152
|
+
name_en: "Coloreg Finding Colon Polyp"
|
|
153
|
+
description: "Coloreg Finding Colon Polyp"
|
|
154
|
+
requirement_set_type: "all"
|
|
155
|
+
requirements: []
|
|
156
|
+
links_to_sets:
|
|
157
|
+
- "coloreg_finding_colon_polyp_size"
|
|
158
|
+
- "coloreg_finding_colon_polyp_location_base"
|
|
159
|
+
- "coloreg_finding_colon_polyp_rectosigmoid_location"
|
|
160
|
+
- "coloreg_finding_colon_polyp_morphology"
|
|
161
|
+
- "coloreg_finding_colon_polyp_histology"
|
|
162
|
+
tags: []
|
|
163
|
+
|
|
164
|
+
- models: endoreg_db.requirement_set
|
|
165
|
+
fields:
|
|
166
|
+
name: "colonoscopy_coloreg"
|
|
167
|
+
name_de: "Koloskopie Coloreg"
|
|
168
|
+
name_en: "Colonoscopy Coloreg"
|
|
169
|
+
description: "Colonoscopy Coloreg"
|
|
170
|
+
requirement_set_type: "all"
|
|
171
|
+
links_to_sets:
|
|
172
|
+
- "coloreg_patient_data"
|
|
173
|
+
- "coloreg_examination_data"
|
|
174
|
+
- "coloreg_finding_colon_polyp_base_description"
|
|
175
|
+
tags:
|
|
176
|
+
- "report_mask_requirement_set"
|
|
177
|
+
reqset_exam_links:
|
|
178
|
+
- "colonoscopy_req_sets"
|
|
@@ -0,0 +1,109 @@
|
|
|
1
|
+
- models: endoreg_db.requirement_set
|
|
2
|
+
fields:
|
|
3
|
+
name: "coloreg_patient_data"
|
|
4
|
+
name_de: "Coloreg Patientendaten"
|
|
5
|
+
name_en: "Coloreg Patient Data"
|
|
6
|
+
description: "Coloreg Patient Data"
|
|
7
|
+
requirement_set_type: "all"
|
|
8
|
+
requirements: []
|
|
9
|
+
links_to_sets:
|
|
10
|
+
- "patient_gender_generic"
|
|
11
|
+
- "patient_names_generic"
|
|
12
|
+
- "patient_dob_generic"
|
|
13
|
+
- "colonoscopy_basic_patient_history" # includes previous bowel_surgery_known and last_colonoscopy_known
|
|
14
|
+
tags: [] # not tagged as report_mask_requirement_set, only used in top level requirement set
|
|
15
|
+
|
|
16
|
+
- models: endoreg_db.requirement_set
|
|
17
|
+
fields:
|
|
18
|
+
name: "coloreg_examination_data"
|
|
19
|
+
name_de: "Coloreg Untersuchungsdaten"
|
|
20
|
+
name_en: "Coloreg Examination Data"
|
|
21
|
+
description: "Coloreg Examination Data"
|
|
22
|
+
requirement_set_type: "all"
|
|
23
|
+
requirements:
|
|
24
|
+
- "examination_has_indication" #TODO
|
|
25
|
+
- "examination_has_sedation_information" #TODO
|
|
26
|
+
- "examination_bowel_prep_recorded" #TODO
|
|
27
|
+
links_to_sets:
|
|
28
|
+
- "colonoscopy_deepest_insertion_reached_recorded" #TODO # if not cecum or terminal ileum
|
|
29
|
+
tags: []
|
|
30
|
+
|
|
31
|
+
- models: endoreg_db.requirement_set
|
|
32
|
+
fields:
|
|
33
|
+
name: "coloreg_finding_colon_polyp_location"
|
|
34
|
+
name_de: "Coloreg Befund Kolon Polyp Lage"
|
|
35
|
+
name_en: "Coloreg Finding Colon Polyp Location"
|
|
36
|
+
description: "Coloreg Finding Colon Polyp Exact Location"
|
|
37
|
+
requirement_set_type: "any"
|
|
38
|
+
requirements:
|
|
39
|
+
- "coloreg_finding_colon_polyp_rectosigmoid_has_location_distance_from_anal_verge" #TODO
|
|
40
|
+
- "coloreg_finding_colon_polyp_non_rectosigmoid_has_location_distance_from_anal_verge" #TODO
|
|
41
|
+
- "coloreg_finding_colon_polyp_non_rectosigmoid_has_location_colon_segment" #TODO
|
|
42
|
+
|
|
43
|
+
- models: endoreg_db.requirement_set
|
|
44
|
+
fields:
|
|
45
|
+
name: "coloreg_finding_colon_polyp_size"
|
|
46
|
+
name_de: "Coloreg Befund Kolon Polyp Größe"
|
|
47
|
+
name_en: "Coloreg Finding Colon Polyp Size"
|
|
48
|
+
description: "Coloreg Finding Colon Polyp Size"
|
|
49
|
+
requirement_set_type: "any"
|
|
50
|
+
requirements:
|
|
51
|
+
- "coloreg_finding_colon_polyp_size_measured_in_mm" #TODO
|
|
52
|
+
- "coloreg_finding_colon_polyp_size_categorical" #TODO
|
|
53
|
+
|
|
54
|
+
- models: endoreg_db.requirement_set
|
|
55
|
+
fields:
|
|
56
|
+
name: "coloreg_finding_colon_polyp_small_base"
|
|
57
|
+
name_de: "Coloreg Befund Kolon Polyp Klein"
|
|
58
|
+
name_en: "Coloreg Finding Colon Polyp Small"
|
|
59
|
+
description: "Coloreg Finding Colon Polyp Small"
|
|
60
|
+
requirement_set_type: "all"
|
|
61
|
+
requirements:
|
|
62
|
+
- "coloreg_finding_colon_polyp_size_smaller_10_mm" #TODO any; size_cat or size_mm
|
|
63
|
+
- "coloreg_finding_colon_polyp_location" # either location_categorical or location_cm (any)
|
|
64
|
+
- "colonoscopy_default_polyp_morphology_wli" # any (paris / description)
|
|
65
|
+
- "colonoscopy_default_polyp_histology" # all
|
|
66
|
+
|
|
67
|
+
- models: endoreg_db.requirement_set
|
|
68
|
+
fields:
|
|
69
|
+
name: "coloreg_finding_colon_polyp_medium_base"
|
|
70
|
+
name_de: "Coloreg Befund Kolon Polyp Mittel"
|
|
71
|
+
name_en: "Coloreg Finding Colon Polyp Medium"
|
|
72
|
+
description: "Coloreg Finding Colon Polyp Medium"
|
|
73
|
+
requirement_set_type: "all"
|
|
74
|
+
requirements:
|
|
75
|
+
- "coloreg_finding_colon_polyp_size_between_10_and_19_mm" #TODO size >=10mm
|
|
76
|
+
- "coloreg_finding_colon_polyp_location"
|
|
77
|
+
- "colonoscopy_default_polyp_morphology_wli"
|
|
78
|
+
- "colonoscopy_advanced_polyp_morphology"
|
|
79
|
+
- "colonoscopy_default_polyp_histology"
|
|
80
|
+
|
|
81
|
+
- models: endoreg_db.requirement_set
|
|
82
|
+
fields:
|
|
83
|
+
name: "coloreg_finding_colon_polyp_base_description"
|
|
84
|
+
name_de: "Coloreg Befund Kolon Polyp"
|
|
85
|
+
name_en: "Coloreg Finding Colon Polyp"
|
|
86
|
+
description: "Coloreg Finding Colon Polyp"
|
|
87
|
+
requirement_set_type: "any"
|
|
88
|
+
requirements: []
|
|
89
|
+
links_to_sets:
|
|
90
|
+
- "coloreg_finding_colon_polyp_small_base" #TODO size <10mm, requires size, location, paris / description, histology
|
|
91
|
+
- "coloreg_finding_colon_polyp_medium_base" #TODO size >=10mm, requires size, location, paris / description, advanced morphology, histology
|
|
92
|
+
- "coloreg_finding_colon_polyp_large_base" #TODO size >=20mm, requires size, location, LST / description, advanced morphology, histology
|
|
93
|
+
tags: []
|
|
94
|
+
|
|
95
|
+
- models: endoreg_db.requirement_set
|
|
96
|
+
fields:
|
|
97
|
+
name: "colonoscopy_coloreg"
|
|
98
|
+
name_de: "Koloskopie Coloreg"
|
|
99
|
+
name_en: "Colonoscopy Coloreg"
|
|
100
|
+
description: "Colonoscopy Coloreg"
|
|
101
|
+
requirement_set_type: "all"
|
|
102
|
+
links_to_sets:
|
|
103
|
+
- "coloreg_patient_data"
|
|
104
|
+
- "coloreg_examination_data"
|
|
105
|
+
- "coloreg_finding_colon_polyp_base_description"
|
|
106
|
+
tags:
|
|
107
|
+
- "report_mask_requirement_set"
|
|
108
|
+
reqset_exam_links:
|
|
109
|
+
- "colonoscopy_req_sets"
|
|
@@ -18,3 +18,24 @@
|
|
|
18
18
|
name_de: "keine"
|
|
19
19
|
name_en: "none"
|
|
20
20
|
description: "No requirement is true"
|
|
21
|
+
|
|
22
|
+
- model: endoreg_db.requirement_set_type
|
|
23
|
+
fields:
|
|
24
|
+
name: "exactly_1"
|
|
25
|
+
name_de: "genau eins"
|
|
26
|
+
name_en: "exactly one"
|
|
27
|
+
description: "Exactly one requirement is true"
|
|
28
|
+
|
|
29
|
+
- model: endoreg_db.requirement_set_type
|
|
30
|
+
fields:
|
|
31
|
+
name: "at_least_1"
|
|
32
|
+
name_de: "mindestens eins"
|
|
33
|
+
name_en: "at least one"
|
|
34
|
+
description: "At least one requirement is true"
|
|
35
|
+
|
|
36
|
+
- model: endoreg_db.requirement_set_type
|
|
37
|
+
fields:
|
|
38
|
+
name: "at_most_1"
|
|
39
|
+
name_de: "höchstens eins"
|
|
40
|
+
name_en: "at most one"
|
|
41
|
+
description: "At most one requirement is true"
|
|
@@ -9,15 +9,15 @@ default_models:
|
|
|
9
9
|
huggingface_fallback:
|
|
10
10
|
enabled: true
|
|
11
11
|
repo_id: "wg-lux/colo_segmentation_RegNetX800MF_base"
|
|
12
|
-
filename: "colo_segmentation_RegNetX800MF_base.
|
|
12
|
+
filename: "colo_segmentation_RegNetX800MF_base.safetensors"
|
|
13
13
|
labelset_name: "multilabel_classification_colonoscopy_default"
|
|
14
14
|
|
|
15
15
|
# Local weights search patterns
|
|
16
16
|
weights_search_patterns:
|
|
17
17
|
# Primary model weight filename patterns (supports wildcards)
|
|
18
|
-
- "colo_segmentation_RegNetX800MF_*.
|
|
19
|
-
- "image_multilabel_classification_colonoscopy_default_*.
|
|
20
|
-
- "*_colonoscopy_*.
|
|
18
|
+
- "colo_segmentation_RegNetX800MF_*.safetensors"
|
|
19
|
+
- "image_multilabel_classification_colonoscopy_default_*.safetensors"
|
|
20
|
+
- "*_colonoscopy_*.safetensors"
|
|
21
21
|
|
|
22
22
|
# Search directories for local weights (relative to project root)
|
|
23
23
|
weights_search_dirs:
|
|
@@ -9,3 +9,24 @@
|
|
|
9
9
|
- model: endoreg_db.tag
|
|
10
10
|
fields:
|
|
11
11
|
name: "colonoscopy_austria"
|
|
12
|
+
|
|
13
|
+
# User role tags for requirement set filtering
|
|
14
|
+
- model: endoreg_db.tag
|
|
15
|
+
fields:
|
|
16
|
+
name: "Gastroenterologist"
|
|
17
|
+
|
|
18
|
+
- model: endoreg_db.tag
|
|
19
|
+
fields:
|
|
20
|
+
name: "Student"
|
|
21
|
+
|
|
22
|
+
- model: endoreg_db.tag
|
|
23
|
+
fields:
|
|
24
|
+
name: "Professor"
|
|
25
|
+
|
|
26
|
+
- model: endoreg_db.tag
|
|
27
|
+
fields:
|
|
28
|
+
name: "Terminology Expert"
|
|
29
|
+
|
|
30
|
+
- model: endoreg_db.tag
|
|
31
|
+
fields:
|
|
32
|
+
name: "Default Prototype"
|
endoreg_db/exceptions.py
CHANGED
|
@@ -1,3 +1,6 @@
|
|
|
1
|
+
import logging
|
|
2
|
+
|
|
3
|
+
logger = logging.getLogger(__name__)
|
|
1
4
|
|
|
2
5
|
|
|
3
6
|
class InsufficientStorageError(Exception):
|
|
@@ -7,7 +10,7 @@ class InsufficientStorageError(Exception):
|
|
|
7
10
|
super().__init__(message)
|
|
8
11
|
self.required_space = required_space
|
|
9
12
|
self.available_space = available_space
|
|
10
|
-
|
|
13
|
+
|
|
11
14
|
|
|
12
15
|
class TranscodingError(Exception):
|
|
13
16
|
"""Raised when video transcoding fails."""
|
|
@@ -16,4 +19,4 @@ class TranscodingError(Exception):
|
|
|
16
19
|
|
|
17
20
|
class VideoProcessingError(Exception):
|
|
18
21
|
"""Base class for video processing errors."""
|
|
19
|
-
pass
|
|
22
|
+
pass
|
|
@@ -12,7 +12,7 @@ def load_default_ai_model():
|
|
|
12
12
|
This function constructs the path to the default AI model checkpoint and invokes the
|
|
13
13
|
Django management command `create_multilabel_model_meta` to register the model.
|
|
14
14
|
"""
|
|
15
|
-
model_path = f"{ASSET_DIR.as_posix()}/colo_segmentation_RegNetX800MF_6.
|
|
15
|
+
model_path = f"{ASSET_DIR.as_posix()}/colo_segmentation_RegNetX800MF_6.safetensors"
|
|
16
16
|
# Pass arguments individually to call_command
|
|
17
17
|
call_command(
|
|
18
18
|
"create_multilabel_model_meta",
|