endoreg-db 0.3.6__py3-none-any.whl → 0.8.6.1__py3-none-any.whl
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- endoreg_db/admin.py +92 -3
- endoreg_db/api_urls.py +4 -0
- endoreg_db/apps.py +18 -6
- endoreg_db/assets/dummy_model.ckpt +1 -0
- endoreg_db/codemods/readme.md +88 -0
- endoreg_db/codemods/rename_datetime_fields.py +92 -0
- endoreg_db/config/env.py +101 -0
- endoreg_db/data/__init__.py +144 -65
- endoreg_db/data/ai_model/data.yaml +7 -0
- endoreg_db/data/{label → ai_model_label}/label/data.yaml +88 -62
- endoreg_db/data/ai_model_label/label/polyp_classification.yaml +52 -0
- endoreg_db/data/ai_model_label/label-set/data.yaml +40 -0
- endoreg_db/data/ai_model_label/label-set/polyp_classifications.yaml +25 -0
- endoreg_db/data/{label → ai_model_label}/label-type/data.yaml +6 -6
- endoreg_db/data/ai_model_meta/default_multilabel_classification.yaml +27 -0
- endoreg_db/data/{model_type → ai_model_type}/data.yaml +6 -6
- endoreg_db/data/ai_model_video_segmentation_label/base_segmentation.yaml +176 -0
- endoreg_db/data/ai_model_video_segmentation_labelset/data.yaml +20 -0
- endoreg_db/data/case_template/rule/00_patient_lab_sample_add_default_value.yaml +167 -167
- endoreg_db/data/case_template/rule/01_patient-set-age.yaml +7 -7
- endoreg_db/data/case_template/rule/01_patient-set-gender.yaml +8 -8
- endoreg_db/data/case_template/rule/11_create_patient_lab_sample.yaml +22 -22
- endoreg_db/data/case_template/rule/12_create-patient_medication-anticoagulation.yaml +18 -18
- endoreg_db/data/case_template/rule/13_create-patient_medication_schedule-anticoagulation.yaml +18 -18
- endoreg_db/data/case_template/rule/19_create_patient.yaml +16 -16
- endoreg_db/data/case_template/rule_type/base_types.yaml +35 -35
- endoreg_db/data/case_template/rule_value_type/base_types.yaml +58 -58
- endoreg_db/data/case_template/template/base.yaml +7 -7
- endoreg_db/data/case_template/template_type/pre_endoscopy.yaml +2 -2
- endoreg_db/data/case_template/tmp/_rule_value +13 -13
- endoreg_db/data/case_template/tmp/rule/01_atrial_fibrillation.yaml +21 -21
- endoreg_db/data/case_template/tmp/rule/02_create_object.yaml +9 -9
- endoreg_db/data/case_template/tmp/template/atrial_fibrillation_low_risk.yaml +6 -6
- endoreg_db/data/center/data.yaml +90 -59
- endoreg_db/data/center_resource/green_endoscopy_dashboard_CenterResource.yaml +144 -144
- endoreg_db/data/center_shift/ukw.yaml +9 -0
- endoreg_db/data/center_waste/green_endoscopy_dashboard_CenterWaste.yaml +48 -48
- endoreg_db/data/contraindication/bleeding.yaml +11 -0
- endoreg_db/data/db_summary.csv +58 -0
- endoreg_db/data/db_summary.xlsx +0 -0
- endoreg_db/data/disease/cardiovascular.yaml +37 -37
- endoreg_db/data/disease/hepatology.yaml +4 -4
- endoreg_db/data/disease/misc.yaml +5 -6
- endoreg_db/data/disease/renal.yaml +4 -4
- endoreg_db/data/disease_classification/chronic_kidney_disease.yaml +6 -6
- endoreg_db/data/disease_classification/coronary_vessel_disease.yaml +5 -5
- endoreg_db/data/disease_classification_choice/chronic_kidney_disease.yaml +41 -41
- endoreg_db/data/disease_classification_choice/coronary_vessel_disease.yaml +19 -19
- endoreg_db/data/distribution/date/patient.yaml +6 -6
- endoreg_db/data/distribution/numeric/data.yaml +14 -0
- endoreg_db/data/distribution/single_categorical/patient.yaml +6 -6
- endoreg_db/data/emission_factor/green_endoscopy_dashboard_EmissionFactor.yaml +132 -132
- endoreg_db/data/endoscope/data.yaml +93 -0
- endoreg_db/data/endoscope_type/data.yaml +10 -10
- endoreg_db/data/endoscopy_processor/data.yaml +50 -45
- endoreg_db/data/event/cardiology.yaml +15 -28
- endoreg_db/data/event/neurology.yaml +13 -13
- endoreg_db/data/event/surgery.yaml +12 -12
- endoreg_db/data/event/thrombembolism.yaml +19 -19
- endoreg_db/data/examination/examinations/data.yaml +72 -66
- endoreg_db/data/examination/time/data.yaml +47 -47
- endoreg_db/data/examination/time-type/data.yaml +7 -7
- endoreg_db/data/examination/type/data.yaml +17 -5
- endoreg_db/data/examination_indication/endoscopy.yaml +424 -0
- endoreg_db/data/examination_indication_classification/endoscopy.yaml +160 -0
- endoreg_db/data/examination_indication_classification_choice/endoscopy.yaml +101 -0
- endoreg_db/data/examination_requirement_set/colonoscopy.yaml +15 -0
- endoreg_db/data/finding/anatomy_colon.yaml +128 -0
- endoreg_db/data/finding/colonoscopy.yaml +40 -0
- endoreg_db/data/finding/colonoscopy_bowel_prep.yaml +56 -0
- endoreg_db/data/finding/complication.yaml +16 -0
- endoreg_db/data/finding/data.yaml +105 -0
- endoreg_db/data/finding/examination_setting.yaml +16 -0
- endoreg_db/data/finding/medication_related.yaml +18 -0
- endoreg_db/data/finding/outcome.yaml +12 -0
- endoreg_db/data/finding_classification/colonoscopy_bowel_preparation.yaml +95 -0
- endoreg_db/data/finding_classification/colonoscopy_jnet.yaml +22 -0
- endoreg_db/data/finding_classification/colonoscopy_kudo.yaml +25 -0
- endoreg_db/data/finding_classification/colonoscopy_lesion_circularity.yaml +20 -0
- endoreg_db/data/finding_classification/colonoscopy_lesion_planarity.yaml +24 -0
- endoreg_db/data/finding_classification/colonoscopy_lesion_size.yaml +68 -0
- endoreg_db/data/finding_classification/colonoscopy_lesion_surface.yaml +20 -0
- endoreg_db/data/finding_classification/colonoscopy_location.yaml +80 -0
- endoreg_db/data/finding_classification/colonoscopy_lst.yaml +21 -0
- endoreg_db/data/finding_classification/colonoscopy_nice.yaml +20 -0
- endoreg_db/data/finding_classification/colonoscopy_paris.yaml +26 -0
- endoreg_db/data/finding_classification/colonoscopy_sano.yaml +22 -0
- endoreg_db/data/finding_classification/colonoscopy_summary.yaml +53 -0
- endoreg_db/data/finding_classification/complication_generic.yaml +25 -0
- endoreg_db/data/finding_classification/examination_setting_generic.yaml +40 -0
- endoreg_db/data/finding_classification/histology_colo.yaml +51 -0
- endoreg_db/data/finding_classification/intervention_required.yaml +26 -0
- endoreg_db/data/finding_classification/medication_related.yaml +23 -0
- endoreg_db/data/finding_classification/visualized.yaml +33 -0
- endoreg_db/data/finding_classification_choice/bowel_preparation.yaml +78 -0
- endoreg_db/data/finding_classification_choice/colon_lesion_circularity_default.yaml +32 -0
- endoreg_db/data/finding_classification_choice/colon_lesion_jnet.yaml +15 -0
- endoreg_db/data/finding_classification_choice/colon_lesion_kudo.yaml +23 -0
- endoreg_db/data/finding_classification_choice/colon_lesion_lst.yaml +15 -0
- endoreg_db/data/finding_classification_choice/colon_lesion_nice.yaml +17 -0
- endoreg_db/data/finding_classification_choice/colon_lesion_paris.yaml +57 -0
- endoreg_db/data/finding_classification_choice/colon_lesion_planarity_default.yaml +49 -0
- endoreg_db/data/finding_classification_choice/colon_lesion_sano.yaml +14 -0
- endoreg_db/data/finding_classification_choice/colon_lesion_surface_intact_default.yaml +36 -0
- endoreg_db/data/finding_classification_choice/colonoscopy_location.yaml +229 -0
- endoreg_db/data/finding_classification_choice/colonoscopy_not_complete_reason.yaml +19 -0
- endoreg_db/data/finding_classification_choice/colonoscopy_size.yaml +82 -0
- endoreg_db/data/finding_classification_choice/colonoscopy_summary_worst_finding.yaml +15 -0
- endoreg_db/data/finding_classification_choice/complication_generic_types.yaml +15 -0
- endoreg_db/data/finding_classification_choice/examination_setting_generic_types.yaml +15 -0
- endoreg_db/data/finding_classification_choice/histology.yaml +24 -0
- endoreg_db/data/finding_classification_choice/histology_polyp.yaml +20 -0
- endoreg_db/data/finding_classification_choice/outcome.yaml +19 -0
- endoreg_db/data/finding_classification_choice/yes_no_na.yaml +11 -0
- endoreg_db/data/finding_classification_type/colonoscopy_basic.yaml +48 -0
- endoreg_db/data/finding_intervention/endoscopy.yaml +43 -0
- endoreg_db/data/finding_intervention/endoscopy_colonoscopy.yaml +168 -0
- endoreg_db/data/finding_intervention/endoscopy_egd.yaml +128 -0
- endoreg_db/data/finding_intervention/endoscopy_ercp.yaml +32 -0
- endoreg_db/data/finding_intervention/endoscopy_eus_lower.yaml +9 -0
- endoreg_db/data/finding_intervention/endoscopy_eus_upper.yaml +36 -0
- endoreg_db/data/finding_intervention_type/endoscopy.yaml +15 -0
- endoreg_db/data/finding_morphology_classification_type/colonoscopy.yaml +79 -0
- endoreg_db/data/finding_type/data.yaml +43 -0
- endoreg_db/data/gender/data.yaml +42 -18
- endoreg_db/data/information_source/annotation.yaml +6 -0
- endoreg_db/data/information_source/data.yaml +30 -30
- endoreg_db/data/information_source/endoscopy_guidelines.yaml +7 -0
- endoreg_db/data/information_source/medication.yaml +5 -5
- endoreg_db/data/information_source/prediction.yaml +7 -0
- endoreg_db/data/information_source_type/data.yaml +8 -0
- endoreg_db/data/lab_value/cardiac_enzymes.yaml +37 -31
- endoreg_db/data/lab_value/coagulation.yaml +54 -49
- endoreg_db/data/lab_value/electrolytes.yaml +228 -190
- endoreg_db/data/lab_value/gastrointestinal_function.yaml +133 -121
- endoreg_db/data/lab_value/hematology.yaml +184 -169
- endoreg_db/data/lab_value/hormones.yaml +59 -53
- endoreg_db/data/lab_value/lipids.yaml +53 -44
- endoreg_db/data/lab_value/misc.yaml +76 -30
- endoreg_db/data/lab_value/renal_function.yaml +12 -11
- endoreg_db/data/log_type/data.yaml +57 -0
- endoreg_db/data/lx_client_tag/base.yaml +54 -0
- endoreg_db/data/lx_client_type/base.yaml +30 -0
- endoreg_db/data/lx_permission/base.yaml +24 -0
- endoreg_db/data/lx_permission/endoreg.yaml +52 -0
- endoreg_db/data/medication/anticoagulation.yaml +64 -64
- endoreg_db/data/medication/tah.yaml +69 -69
- endoreg_db/data/medication_indication/anticoagulation.yaml +115 -120
- endoreg_db/data/medication_indication_type/data.yaml +10 -10
- endoreg_db/data/medication_indication_type/thrombembolism.yaml +40 -40
- endoreg_db/data/medication_intake_time/base.yaml +30 -30
- endoreg_db/data/medication_schedule/apixaban.yaml +94 -94
- endoreg_db/data/medication_schedule/ass.yaml +12 -12
- endoreg_db/data/medication_schedule/enoxaparin.yaml +26 -26
- endoreg_db/data/names_first/first_names.yaml +54 -0
- endoreg_db/data/names_last/last_names.yaml +51 -0
- endoreg_db/data/network_device/data.yaml +59 -0
- endoreg_db/data/network_device_type/data.yaml +12 -0
- endoreg_db/data/organ/data.yaml +29 -0
- endoreg_db/data/patient_lab_sample_type/generic.yaml +5 -5
- endoreg_db/data/pdf_type/data.yaml +46 -28
- endoreg_db/data/product/green_endoscopy_dashboard_Product.yaml +66 -66
- endoreg_db/data/product_group/green_endoscopy_dashboard_ProductGroup.yaml +33 -33
- endoreg_db/data/product_material/green_endoscopy_dashboard_ProductMaterial.yaml +308 -308
- endoreg_db/data/product_weight/green_endoscopy_dashboard_ProductWeight.yaml +88 -88
- endoreg_db/data/profession/data.yaml +70 -70
- endoreg_db/data/qualification/endoscopy.yaml +36 -0
- endoreg_db/data/qualification/m2.yaml +39 -0
- endoreg_db/data/qualification/outpatient_clinic.yaml +35 -0
- endoreg_db/data/qualification/sonography.yaml +36 -0
- endoreg_db/data/qualification_type/base.yaml +29 -0
- endoreg_db/data/reference_product/green_endoscopy_dashboard_ReferenceProduct.yaml +55 -55
- endoreg_db/data/report_reader_flag/rkh-histology-generic.yaml +10 -0
- endoreg_db/data/report_reader_flag/ukw-examination-generic.yaml +30 -26
- endoreg_db/data/report_reader_flag/ukw-histology-generic.yaml +24 -19
- endoreg_db/data/requirement/age.yaml +26 -0
- endoreg_db/data/requirement/colonoscopy_baseline_austria.yaml +45 -0
- endoreg_db/data/requirement/disease_cardiovascular.yaml +79 -0
- endoreg_db/data/requirement/disease_classification_choice_cardiovascular.yaml +41 -0
- endoreg_db/data/requirement/disease_hepatology.yaml +12 -0
- endoreg_db/data/requirement/disease_misc.yaml +12 -0
- endoreg_db/data/requirement/disease_renal.yaml +96 -0
- endoreg_db/data/requirement/endoscopy_bleeding_risk.yaml +59 -0
- endoreg_db/data/requirement/event_cardiology.yaml +251 -0
- endoreg_db/data/requirement/event_requirements.yaml +145 -0
- endoreg_db/data/requirement/finding_colon_polyp.yaml +50 -0
- endoreg_db/data/requirement/gender.yaml +25 -0
- endoreg_db/data/requirement/lab_value.yaml +441 -0
- endoreg_db/data/requirement/medication.yaml +93 -0
- endoreg_db/data/requirement_operator/age.yaml +13 -0
- endoreg_db/data/requirement_operator/lab_operators.yaml +129 -0
- endoreg_db/data/requirement_operator/model_operators.yaml +96 -0
- endoreg_db/data/requirement_set/01_endoscopy_generic.yaml +48 -0
- endoreg_db/data/requirement_set/colonoscopy_austria_screening.yaml +57 -0
- endoreg_db/data/requirement_set/endoscopy_bleeding_risk.yaml +52 -0
- endoreg_db/data/requirement_set_type/data.yaml +20 -0
- endoreg_db/data/requirement_type/requirement_types.yaml +165 -0
- endoreg_db/data/resource/green_endoscopy_dashboard_Resource.yaml +15 -15
- endoreg_db/data/risk/bleeding.yaml +26 -0
- endoreg_db/data/risk/thrombosis.yaml +37 -0
- endoreg_db/data/risk_type/data.yaml +27 -0
- endoreg_db/data/setup_config.yaml +38 -0
- endoreg_db/data/shift/endoscopy.yaml +21 -0
- endoreg_db/data/shift/m2.yaml +0 -0
- endoreg_db/data/shift_type/base.yaml +35 -0
- endoreg_db/data/tag/requirement_set_tags.yaml +11 -0
- endoreg_db/data/transport_route/green_endoscopy_dashboard_TransportRoute.yaml +12 -12
- endoreg_db/data/unit/concentration.yaml +115 -92
- endoreg_db/data/unit/data.yaml +17 -17
- endoreg_db/data/unit/length.yaml +30 -30
- endoreg_db/data/unit/misc.yaml +19 -19
- endoreg_db/data/unit/rate.yaml +5 -5
- endoreg_db/data/unit/time.yaml +48 -13
- endoreg_db/data/unit/volume.yaml +35 -35
- endoreg_db/data/unit/weight.yaml +37 -37
- endoreg_db/data/waste/data.yaml +11 -11
- endoreg_db/exceptions.py +19 -0
- endoreg_db/factories/__init__.py +0 -0
- endoreg_db/forms/__init__.py +5 -3
- endoreg_db/forms/examination_form.py +11 -0
- endoreg_db/forms/patient_finding_intervention_form.py +18 -0
- endoreg_db/forms/patient_form.py +27 -0
- endoreg_db/forms/questionnaires/__init__.py +1 -1
- endoreg_db/forms/questionnaires/tto_questionnaire.py +23 -23
- endoreg_db/forms/settings/__init__.py +8 -8
- endoreg_db/forms/unit.py +5 -5
- endoreg_db/helpers/__init__.py +0 -0
- endoreg_db/helpers/count_db.py +45 -0
- endoreg_db/helpers/data_loader.py +208 -0
- endoreg_db/helpers/default_objects.py +378 -0
- endoreg_db/helpers/download_segmentation_model.py +31 -0
- endoreg_db/helpers/interact.py +6 -0
- endoreg_db/helpers/test_video_helper.py +119 -0
- endoreg_db/logger_conf.py +140 -0
- endoreg_db/management/__init__.py +1 -0
- endoreg_db/management/commands/__init__.py +1 -0
- endoreg_db/management/commands/anonymize_video.py +0 -0
- endoreg_db/management/commands/check_auth.py +125 -0
- endoreg_db/management/commands/create_model_meta_from_huggingface.py +115 -0
- endoreg_db/management/commands/create_multilabel_model_meta.py +214 -0
- endoreg_db/management/commands/fix_missing_patient_data.py +172 -0
- endoreg_db/management/commands/fix_video_paths.py +165 -0
- endoreg_db/management/commands/import_fallback_video.py +203 -0
- endoreg_db/management/commands/import_report.py +298 -0
- endoreg_db/management/commands/import_video.py +423 -0
- endoreg_db/management/commands/import_video_with_classification.py +367 -0
- endoreg_db/management/commands/init_default_ai_model.py +112 -0
- endoreg_db/management/commands/load_ai_model_data.py +77 -45
- endoreg_db/management/commands/load_ai_model_label_data.py +59 -0
- endoreg_db/management/commands/load_base_db_data.py +192 -128
- endoreg_db/management/commands/load_center_data.py +68 -43
- endoreg_db/management/commands/{load_medication_intake_time_data.py → load_contraindication_data.py} +40 -40
- endoreg_db/management/commands/load_disease_classification_choices_data.py +40 -40
- endoreg_db/management/commands/load_disease_classification_data.py +40 -40
- endoreg_db/management/commands/load_disease_data.py +61 -39
- endoreg_db/management/commands/load_distribution_data.py +65 -65
- endoreg_db/management/commands/{load_endoscope_type_data.py → load_endoscope_data.py} +67 -44
- endoreg_db/management/commands/load_event_data.py +40 -40
- endoreg_db/management/commands/load_examination_data.py +74 -74
- endoreg_db/management/commands/load_examination_indication_data.py +86 -0
- endoreg_db/management/commands/load_finding_data.py +128 -0
- endoreg_db/management/commands/load_gender_data.py +43 -43
- endoreg_db/management/commands/load_green_endoscopy_wuerzburg_data.py +131 -132
- endoreg_db/management/commands/load_information_source.py +50 -44
- endoreg_db/management/commands/load_lab_value_data.py +49 -49
- endoreg_db/management/commands/load_medication_data.py +103 -41
- endoreg_db/management/commands/load_name_data.py +37 -0
- endoreg_db/management/commands/{load_medication_indication_type_data.py → load_organ_data.py} +42 -40
- endoreg_db/management/commands/load_pdf_type_data.py +60 -60
- endoreg_db/management/commands/load_profession_data.py +43 -43
- endoreg_db/management/commands/load_qualification_data.py +59 -0
- endoreg_db/management/commands/{load_report_reader_flag.py → load_report_reader_flag_data.py} +45 -45
- endoreg_db/management/commands/load_requirement_data.py +180 -0
- endoreg_db/management/commands/load_risk_data.py +56 -0
- endoreg_db/management/commands/load_shift_data.py +60 -0
- endoreg_db/management/commands/load_tag_data.py +57 -0
- endoreg_db/management/commands/load_unit_data.py +45 -45
- endoreg_db/management/commands/load_user_groups.py +28 -28
- endoreg_db/management/commands/register_ai_model.py +64 -65
- endoreg_db/management/commands/reset_celery_schedule.py +9 -9
- endoreg_db/management/commands/setup_endoreg_db.py +381 -0
- endoreg_db/management/commands/start_filewatcher.py +106 -0
- endoreg_db/management/commands/storage_management.py +548 -0
- endoreg_db/management/commands/summarize_db_content.py +189 -0
- endoreg_db/management/commands/validate_video.py +204 -0
- endoreg_db/management/commands/validate_video_files.py +161 -0
- endoreg_db/management/commands/video_validation.py +22 -0
- endoreg_db/mermaid/Overall_flow_patient_finding_intervention.md +10 -0
- endoreg_db/mermaid/anonymized_image_annotation.md +20 -0
- endoreg_db/mermaid/binary_classification_annotation.md +50 -0
- endoreg_db/mermaid/classification.md +8 -0
- endoreg_db/mermaid/examination.md +8 -0
- endoreg_db/mermaid/findings.md +7 -0
- endoreg_db/mermaid/image_classification.md +28 -0
- endoreg_db/mermaid/interventions.md +8 -0
- endoreg_db/mermaid/morphology.md +8 -0
- endoreg_db/mermaid/patient_creation.md +14 -0
- endoreg_db/mermaid/video_segmentation_annotation.md +17 -0
- endoreg_db/migrations/0001_initial.py +1857 -582
- endoreg_db/migrations/0002_add_video_correction_models.py +52 -0
- endoreg_db/migrations/0003_add_center_display_name.py +30 -0
- endoreg_db/models/__init__.py +359 -74
- endoreg_db/models/administration/__init__.py +116 -0
- endoreg_db/models/administration/ai/__init__.py +9 -0
- endoreg_db/models/administration/ai/active_model.py +35 -0
- endoreg_db/models/administration/ai/ai_model.py +156 -0
- endoreg_db/models/{ai_model → administration/ai}/model_type.py +41 -26
- endoreg_db/models/administration/case/__init__.py +19 -0
- endoreg_db/models/administration/case/case.py +114 -0
- endoreg_db/models/{case_template → administration/case/case_template}/__init__.py +15 -6
- endoreg_db/models/{case_template → administration/case/case_template}/case_template.py +125 -81
- endoreg_db/models/{case_template → administration/case/case_template}/case_template_rule.py +269 -276
- endoreg_db/models/{case_template → administration/case/case_template}/case_template_rule_value.py +86 -73
- endoreg_db/models/{case_template → administration/case/case_template}/case_template_type.py +26 -28
- endoreg_db/models/{center → administration/center}/__init__.py +13 -4
- endoreg_db/models/administration/center/center.py +67 -0
- endoreg_db/models/administration/center/center_product.py +64 -0
- endoreg_db/models/administration/center/center_resource.py +49 -0
- endoreg_db/models/administration/center/center_shift.py +88 -0
- endoreg_db/models/administration/center/center_waste.py +30 -0
- endoreg_db/models/administration/permissions/__init__.py +44 -0
- endoreg_db/models/administration/person/__init__.py +24 -0
- endoreg_db/models/administration/person/employee/__init__.py +3 -0
- endoreg_db/models/administration/person/employee/employee.py +35 -0
- endoreg_db/models/administration/person/employee/employee_qualification.py +39 -0
- endoreg_db/models/administration/person/employee/employee_type.py +42 -0
- endoreg_db/models/administration/person/examiner/__init__.py +4 -0
- endoreg_db/models/administration/person/examiner/examiner.py +54 -0
- endoreg_db/models/administration/person/names/__init__.py +0 -0
- endoreg_db/models/{persons → administration/person/names}/first_name.py +18 -18
- endoreg_db/models/{persons → administration/person/names}/last_name.py +18 -19
- endoreg_db/models/administration/person/patient/__init__.py +5 -0
- endoreg_db/models/administration/person/patient/patient.py +460 -0
- endoreg_db/models/{persons → administration/person}/person.py +31 -31
- endoreg_db/models/administration/person/profession/__init__.py +24 -0
- endoreg_db/models/administration/person/user/__init__.py +5 -0
- endoreg_db/models/administration/person/user/portal_user_information.py +37 -0
- endoreg_db/models/administration/product/__init__.py +14 -0
- endoreg_db/models/administration/product/product.py +97 -0
- endoreg_db/models/administration/product/product_group.py +39 -0
- endoreg_db/models/administration/product/product_material.py +54 -0
- endoreg_db/models/{product → administration/product}/product_weight.py +47 -26
- endoreg_db/models/{product → administration/product}/reference_product.py +130 -99
- endoreg_db/models/administration/qualification/__init__.py +7 -0
- endoreg_db/models/administration/qualification/qualification.py +37 -0
- endoreg_db/models/administration/qualification/qualification_type.py +35 -0
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- endoreg_db/models/label/annotation/video_segmentation_annotation.py +66 -0
- endoreg_db/models/label/label.py +83 -84
- endoreg_db/models/label/label_set.py +53 -0
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- endoreg_db/models/label/video_segmentation_label.py +31 -0
- endoreg_db/models/label/video_segmentation_labelset.py +27 -0
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- endoreg_db/models/media/frame/__init__.py +3 -0
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- endoreg_db/models/media/pdf/report_reader/report_reader_config.py +77 -0
- endoreg_db/models/{report_reader → media/pdf/report_reader}/report_reader_flag.py +19 -19
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- endoreg_db/models/media/video/pipe_2.py +105 -0
- endoreg_db/models/media/video/refactor_plan.md +0 -0
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- endoreg_db/models/media/video/video_file_meta/get_endo_roi.py +39 -0
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- endoreg_db/models/medical/finding/finding_type.py +35 -0
- endoreg_db/models/medical/hardware/__init__.py +8 -0
- endoreg_db/models/medical/hardware/endoscope.py +65 -0
- endoreg_db/models/{hardware → medical/hardware}/endoscopy_processor.py +182 -143
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- endoreg_db/models/medical/laboratory/lab_value.py +419 -0
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- endoreg_db/models/medical/medication/medication_schedule.py +45 -0
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- endoreg_db/models/other/transport_route.py +33 -21
- endoreg_db/models/{unit.py → other/unit.py} +32 -22
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- endoreg_db/models/{rules → rule}/rule_applicator.py +224 -224
- endoreg_db/models/{rules → rule}/rule_attribute_dtype.py +16 -18
- endoreg_db/models/{rules → rule}/rule_type.py +19 -21
- endoreg_db/models/{rules → rule}/ruleset.py +17 -19
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- endoreg_db/models/state/abstract.py +11 -0
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- {endoreg_db-0.3.6.dist-info → endoreg_db-0.8.6.1.dist-info/licenses}/LICENSE +674 -674
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- endoreg_db/models/prediction/video_prediction_meta.py +0 -244
- endoreg_db/models/product/__init__.py +0 -5
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- endoreg_db/queries/get/__init__.py +0 -6
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- endoreg_db/queries/get/model.py +0 -13
- endoreg_db/queries/get/patient.py +0 -14
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- endoreg_db/serializers/label.py +0 -22
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- endoreg_db/utils/legacy_ocr.py +0 -201
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- endoreg_db-0.3.6.dist-info/METADATA +0 -33
- endoreg_db-0.3.6.dist-info/RECORD +0 -357
- /endoreg_db/{models/persons/patient/case/__init__.py → api/serializers/finding_descriptions.py} +0 -0
- /endoreg_db/{queries/get/annotation.py → api/views/finding_descriptions.py} +0 -0
- /endoreg_db/{queries/get/prediction.py → config/__init__.py} +0 -0
- /endoreg_db/{queries/get/video_import_meta.py → data/case_template/rule_value/.init} +0 -0
- /endoreg_db/{queries/get/video_prediction_meta.py → data/distribution/multiple_categorical/.init} +0 -0
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{% extends "admin/base_site.html" %}
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{% block content %}
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<h2>Patient Finding Intervention</h2>
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<form method="POST" id="intervention-form">
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{% csrf_token %}
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<!-- Patient Selection -->
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<div>
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<label>Select Patient:</label><br>
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<select name="patient" id="patient-dropdown">
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<option value="">-- Select Patient --</option>
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{% for patient in patients %}
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<option value="{{ patient.id }}">{{ patient.first_name }} {{ patient.last_name }}</option>
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{% endfor %}
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</select>
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</div>
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<br>
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<!-- Examination Selection -->
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<div>
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<label>Select Examination:</label><br>
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<select name="examination" id="examination-dropdown">
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<option value="">-- Select Examination --</option>
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{% for examination in examinations %}
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<option value="{{ examination.id }}">{{ examination.name }}</option>
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{% endfor %}
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</select>
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</div>
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<br>
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<!-- Finding Selection -->
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<div>
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<label>Select Finding:</label><br>
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<select name="finding" id="finding-dropdown">
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<option value="">-- Select Finding --</option>
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{% for finding in findings %}
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<option value="{{ finding.id }}">{{ finding.name }}</option>
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{% endfor %}
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</select>
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</div>
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<br>
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<!-- Select Location -->
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<div>
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<label>Select Location:</label><br>
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<select name="location" id="location-dropdown" onchange="updateFormAction(this)">
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<option value="">-- Select Location --</option>
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{% for location in locations %}
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<option value="{{ location.id }}" {% if location.id == selected_location %}selected{% endif %}>
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{{ location.name }}
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</option>
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{% endfor %}
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</select>
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</div>
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<br>
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<!-- Select Location Choice -->
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<div>
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<label>Select Location Choice:</label><br>
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<select name="location_choice" id="location-choice-dropdown">
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<option value="">-- Select Location Choice --</option>
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{% for choice in location_choices %}
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<option value="{{ choice.id }}">{{ choice.name }}</option>
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{% endfor %}
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</select>
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</div>
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<br>
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<!-- Select Morphology -->
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<!-- Select Morphology (FindingMorphologyClassification) -->
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<div>
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<label>Select Morphology:</label><br>
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<select name="morphology" id="morphology-dropdown">
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<option value="">-- Select Morphology --</option>
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{% for morphology in morphologies %}
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<option value="{{ morphology.id }}">{{ morphology.name }}</option>
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{% endfor %}
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</select>
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</div>
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<br>
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<!-- Select Morphology Choice (FindingMorphologyClassificationChoice) -->
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<div>
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<label>Select Morphology Choice:</label><br>
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<select name="morphology_choice" id="morphology-choice-dropdown">
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<option value="">-- Select Morphology Choice --</option>
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{% for choice in morphology_choices %}
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<option value="{{ choice.id }}">{{ choice.name }}</option>
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{% endfor %}
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</select>
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</div>
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<br>
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<!-- Select Finding Interventions -->
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<div>
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<label>Select Finding Interventions:</label><br>
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<select name="finding_intervention" id="finding-intervention-dropdown">
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<option value="">-- Select Finding Intervention --</option>
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{% for intervention in finding_interventions %}
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<option value="{{ intervention.id }}">{{ intervention.name }}</option>
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{% endfor %}
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</select>
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</div>
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<br>
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<div>
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<button type="button" id="generate-report-btn">Generate Report</button>
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</div>
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120
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121
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<!-- Display Report Section -->
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<div id="report-section" style="display:none; margin-top: 20px;">
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<h3>Generated Report</h3>
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<p><strong>Patient:</strong> <span id="report-patient"></span></p>
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<p><strong>Examination:</strong> <span id="report-examination"></span></p>
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<p><strong>Finding:</strong> <span id="report-finding"></span></p>
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<p><strong>Location:</strong> <span id="report-location"></span></p>
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<p><strong>Location Choice:</strong> <span id="report-location-choice"></span></p>
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<p><strong>Morphology:</strong> <span id="report-morphology"></span></p>
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<p><strong>Morphology Choice:</strong> <span id="report-morphology-choice"></span></p>
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<p><strong>Finding Intervention:</strong> <span id="report-finding-intervention"></span></p>
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<button id="download-report-btn">Download Report</button>
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</div>
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136
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</form>
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138
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<script>
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document.getElementById("location-dropdown").addEventListener("change", function() {
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let locationId = this.value;
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let locationChoiceDropdown = document.getElementById("location-choice-dropdown");
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142
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143
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// Reset dropdown
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locationChoiceDropdown.innerHTML = '<option value="">-- Select Location Choice --</option>';
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145
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+
|
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146
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// Fetch Choices Only If a Location is Selected
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147
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if (locationId) {
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148
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fetch(`/endoreg_db/get-location-choices/${locationId}/`)
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.then(response => response.json())
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.then(data => {
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151
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if (data.location_choices.length === 0) {
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locationChoiceDropdown.innerHTML = `<option value="default">Rectum</option>`; // Default Value
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153
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} else {
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154
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data.location_choices.forEach(choice => {
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locationChoiceDropdown.innerHTML += `<option value="${choice.id}">${choice.name}</option>`;
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156
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});
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157
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}
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158
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})
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159
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.catch(error => {
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160
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console.error("Error loading location choices:", error);
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161
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alert("Error: Could not fetch location choices.");
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162
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+
});
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163
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+
} else {
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164
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locationChoiceDropdown.innerHTML = `<option value="default">Rectum</option>`; // Default Value
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165
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+
}
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166
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+
});
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167
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+
</script>
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|
168
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+
|
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169
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+
|
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170
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+
<script>
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171
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document.getElementById("generate-report-btn").addEventListener("click", function() {
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172
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+
let getText = (id, defaultValue = "Not Selected") => {
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let element = document.getElementById(id);
|
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174
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+
return element.selectedOptions.length > 0 ? element.selectedOptions[0].text.trim() : defaultValue;
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+
};
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176
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+
|
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177
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+
document.getElementById("report-patient").textContent = getText("patient-dropdown");
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178
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+
document.getElementById("report-examination").textContent = getText("examination-dropdown");
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+
document.getElementById("report-finding").textContent = getText("finding-dropdown");
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180
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+
document.getElementById("report-location").textContent = getText("location-dropdown");
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181
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+
document.getElementById("report-location-choice").textContent = getText("location-choice-dropdown", "Rectum");
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182
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document.getElementById("report-morphology").textContent = getText("morphology-dropdown");
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183
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+
document.getElementById("report-morphology-choice").textContent = getText("morphology-choice-dropdown");
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184
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+
document.getElementById("report-finding-intervention").textContent = getText("finding-intervention-dropdown");
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|
185
|
+
|
|
186
|
+
document.getElementById("report-section").style.display = "block";
|
|
187
|
+
});
|
|
188
|
+
|
|
189
|
+
document.getElementById("download-report-btn").addEventListener("click", function() {
|
|
190
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+
let reportContent = `
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|
191
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+
Patient: ${document.getElementById("report-patient").textContent}
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|
192
|
+
Examination: ${document.getElementById("report-examination").textContent}
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|
193
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+
Finding: ${document.getElementById("report-finding").textContent}
|
|
194
|
+
Location: ${document.getElementById("report-location").textContent}
|
|
195
|
+
Location Choice: ${document.getElementById("report-location-choice").textContent}
|
|
196
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+
Morphology: ${document.getElementById("report-morphology").textContent}
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197
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+
Morphology Choice: ${document.getElementById("report-morphology-choice").textContent}
|
|
198
|
+
Finding Intervention: ${document.getElementById("report-finding-intervention").textContent}
|
|
199
|
+
`;
|
|
200
|
+
|
|
201
|
+
let blob = new Blob([reportContent], { type: "text/plain" });
|
|
202
|
+
let link = document.createElement("a");
|
|
203
|
+
link.href = URL.createObjectURL(blob);
|
|
204
|
+
link.download = "Patient_Finding_Report.txt";
|
|
205
|
+
document.body.appendChild(link);
|
|
206
|
+
link.click();
|
|
207
|
+
document.body.removeChild(link);
|
|
208
|
+
});
|
|
209
|
+
</script>
|
|
210
|
+
|
|
211
|
+
<script>
|
|
212
|
+
document.getElementById("morphology-dropdown").addEventListener("change", function() {
|
|
213
|
+
let morphologyId = this.value;
|
|
214
|
+
let morphologyChoiceDropdown = document.getElementById("morphology-choice-dropdown");
|
|
215
|
+
|
|
216
|
+
// Reset Morphology Choice Dropdown
|
|
217
|
+
morphologyChoiceDropdown.innerHTML = '<option value="">-- Select Morphology Choice --</option>';
|
|
218
|
+
|
|
219
|
+
// Fetch Choices Only If a Morphology is Selected
|
|
220
|
+
if (morphologyId) {
|
|
221
|
+
fetch(`/endoreg_db/get-morphology-choices/${morphologyId}/`)
|
|
222
|
+
.then(response => {
|
|
223
|
+
if (!response.ok) {
|
|
224
|
+
throw new Error(`HTTP error! Status: ${response.status}`);
|
|
225
|
+
}
|
|
226
|
+
return response.json();
|
|
227
|
+
})
|
|
228
|
+
.then(data => {
|
|
229
|
+
if (data.error) {
|
|
230
|
+
console.error("Server Error:", data.error);
|
|
231
|
+
alert("Error: " + data.error);
|
|
232
|
+
} else {
|
|
233
|
+
if (data.morphology_choices.length === 0) {
|
|
234
|
+
morphologyChoiceDropdown.innerHTML = `<option value="default">No Choices Available</option>`; // Default Value
|
|
235
|
+
} else {
|
|
236
|
+
data.morphology_choices.forEach(choice => {
|
|
237
|
+
morphologyChoiceDropdown.innerHTML += `<option value="${choice.id}">${choice.name}</option>`;
|
|
238
|
+
});
|
|
239
|
+
}
|
|
240
|
+
}
|
|
241
|
+
})
|
|
242
|
+
.catch(error => {
|
|
243
|
+
console.error("Error loading morphology choices:", error);
|
|
244
|
+
alert("Error: Could not fetch morphology choices.");
|
|
245
|
+
});
|
|
246
|
+
}
|
|
247
|
+
});
|
|
248
|
+
</script>
|
|
249
|
+
|
|
250
|
+
|
|
251
|
+
|
|
252
|
+
|
|
253
|
+
{% endblock %}
|
|
@@ -0,0 +1,12 @@
|
|
|
1
|
+
<!-- start_examination.html -->
|
|
2
|
+
<!DOCTYPE html>
|
|
3
|
+
<html lang="en">
|
|
4
|
+
<head>
|
|
5
|
+
<meta charset="UTF-8">
|
|
6
|
+
<meta name="viewport" content="width=device-width, initial-scale=1.0">
|
|
7
|
+
<title>Start Examination</title>
|
|
8
|
+
</head>
|
|
9
|
+
<body>
|
|
10
|
+
<h1>Hello World</h1>
|
|
11
|
+
</body>
|
|
12
|
+
</html>
|
|
@@ -0,0 +1,176 @@
|
|
|
1
|
+
<!DOCTYPE html>
|
|
2
|
+
<html lang="en">
|
|
3
|
+
<head>
|
|
4
|
+
<title>Frames Timeline (Outside Label)</title>
|
|
5
|
+
<style>
|
|
6
|
+
body { font-family: Arial, sans-serif; text-align: center; margin: 20px; }
|
|
7
|
+
video { width: 80%; margin-bottom: 20px; }
|
|
8
|
+
|
|
9
|
+
/* Timeline Container */
|
|
10
|
+
.timeline-container {
|
|
11
|
+
position: relative;
|
|
12
|
+
width: 80%;
|
|
13
|
+
height: 50px;
|
|
14
|
+
margin: auto;
|
|
15
|
+
background: #f0f0f0;
|
|
16
|
+
border-radius: 5px;
|
|
17
|
+
}
|
|
18
|
+
|
|
19
|
+
/* Timeline Bar */
|
|
20
|
+
.timeline-bar {
|
|
21
|
+
width: 100%;
|
|
22
|
+
height: 8px;
|
|
23
|
+
background-color: #ccc;
|
|
24
|
+
position: absolute;
|
|
25
|
+
top: 50%;
|
|
26
|
+
transform: translateY(-50%);
|
|
27
|
+
border-radius: 4px;
|
|
28
|
+
}
|
|
29
|
+
|
|
30
|
+
/* Red Highlight for Outside Label Segments */
|
|
31
|
+
.segment-box {
|
|
32
|
+
position: absolute;
|
|
33
|
+
height: 8px;
|
|
34
|
+
background-color: rgba(255, 0, 0, 0.7);
|
|
35
|
+
border-radius: 4px;
|
|
36
|
+
top: 50%;
|
|
37
|
+
transform: translateY(-50%);
|
|
38
|
+
cursor: pointer;
|
|
39
|
+
}
|
|
40
|
+
|
|
41
|
+
/* Draggable Vertical Markers */
|
|
42
|
+
.frame-marker {
|
|
43
|
+
position: absolute;
|
|
44
|
+
width: 6px;
|
|
45
|
+
height: 20px;
|
|
46
|
+
background-color: blue;
|
|
47
|
+
cursor: grab;
|
|
48
|
+
top: 50%;
|
|
49
|
+
transform: translate(-50%, -50%);
|
|
50
|
+
border-radius: 3px;
|
|
51
|
+
transition: background-color 0.2s;
|
|
52
|
+
}
|
|
53
|
+
|
|
54
|
+
.frame-marker:hover {
|
|
55
|
+
background-color: red;
|
|
56
|
+
}
|
|
57
|
+
|
|
58
|
+
.frame-marker:active {
|
|
59
|
+
cursor: grabbing;
|
|
60
|
+
}
|
|
61
|
+
|
|
62
|
+
</style>
|
|
63
|
+
</head>
|
|
64
|
+
<body>
|
|
65
|
+
<h2>Frames Timeline (Outside Label)</h2>
|
|
66
|
+
|
|
67
|
+
<video id="videoPlayer" controls>
|
|
68
|
+
<source src="{{ video_url }}" type="video/mp4">
|
|
69
|
+
Your browser does not support the video tag.
|
|
70
|
+
</video>
|
|
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|
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<div class="timeline-container">
|
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+
<div class="timeline-bar"></div>
|
|
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|
+
<div id="segments"></div> <!-- Highlighted segments -->
|
|
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|
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<div id="frameMarkers"></div> <!-- Start & End markers -->
|
|
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|
+
</div>
|
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<script>
|
|
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|
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document.addEventListener("DOMContentLoaded", function () {
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const segments = JSON.parse('{{ segments|safe }}'); // Get "outside" label segments
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const video = document.getElementById("videoPlayer");
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const timelineContainer = document.querySelector(".timeline-container");
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const segmentsContainer = document.getElementById("segments");
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const frameMarkersContainer = document.getElementById("frameMarkers");
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let videoDuration = {{ video_duration|default:1 }}; // Ensure valid duration
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console.log("Loaded Segments:", segments);
|
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console.log("Video Duration:", videoDuration);
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|
+
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|
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|
+
if (segments.length === 0) {
|
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+
console.warn("No segments available!");
|
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return;
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|
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}
|
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+
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// Create segment boxes
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segments.forEach(segment => {
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segmentDiv.classList.add("segment-box");
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// Convert times to percentage positions
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let startPercent = (segment.start_time / videoDuration) * 100;
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let endPercent = (segment.end_time / videoDuration) * 100;
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let widthPercent = endPercent - startPercent;
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// Ensure last segment does not go beyond 100%
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startPercent = Math.min(100, startPercent);
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endPercent = Math.min(100, endPercent);
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widthPercent = Math.max(0, endPercent - startPercent);
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segmentDiv.style.left = startPercent + "%";
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segmentDiv.style.width = widthPercent + "%";
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+
// Clicking on segment seeks video
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+
segmentDiv.addEventListener("click", function () {
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video.currentTime = segment.start_time;
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video.play();
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});
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+
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|
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+
segmentsContainer.appendChild(segmentDiv);
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});
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|
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|
+
|
|
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|
+
// Create draggable markers
|
|
124
|
+
segments.forEach(segment => {
|
|
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|
+
["start_time", "end_time"].forEach(timeType => {
|
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const marker = document.createElement("div");
|
|
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+
marker.classList.add("frame-marker");
|
|
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+
|
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+
// Position marker
|
|
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+
let percent = (segment[timeType] / videoDuration) * 100;
|
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+
percent = Math.min(100, Math.max(0, percent)); // Keep within bounds
|
|
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|
+
marker.style.left = percent + "%";
|
|
133
|
+
|
|
134
|
+
// Store initial marker time
|
|
135
|
+
marker.dataset.time = segment[timeType];
|
|
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|
+
|
|
137
|
+
// Enable dragging
|
|
138
|
+
let isDragging = false;
|
|
139
|
+
|
|
140
|
+
marker.addEventListener("pointerdown", (event) => {
|
|
141
|
+
isDragging = true;
|
|
142
|
+
marker.style.cursor = "grabbing";
|
|
143
|
+
event.preventDefault();
|
|
144
|
+
});
|
|
145
|
+
|
|
146
|
+
document.addEventListener("pointermove", (event) => {
|
|
147
|
+
if (!isDragging) return;
|
|
148
|
+
|
|
149
|
+
const rect = timelineContainer.getBoundingClientRect();
|
|
150
|
+
const offsetX = event.clientX - rect.left;
|
|
151
|
+
let percentX = (offsetX / rect.width) * 100;
|
|
152
|
+
|
|
153
|
+
// Keep marker within bounds (0-100%)
|
|
154
|
+
percentX = Math.min(100, Math.max(0, percentX));
|
|
155
|
+
|
|
156
|
+
const newTime = (percentX / 100) * videoDuration;
|
|
157
|
+
|
|
158
|
+
marker.style.left = percentX + "%";
|
|
159
|
+
video.currentTime = newTime;
|
|
160
|
+
});
|
|
161
|
+
|
|
162
|
+
document.addEventListener("pointerup", () => {
|
|
163
|
+
if (isDragging) {
|
|
164
|
+
isDragging = false;
|
|
165
|
+
marker.style.cursor = "grab";
|
|
166
|
+
}
|
|
167
|
+
});
|
|
168
|
+
|
|
169
|
+
frameMarkersContainer.appendChild(marker);
|
|
170
|
+
});
|
|
171
|
+
});
|
|
172
|
+
|
|
173
|
+
});
|
|
174
|
+
</script>
|
|
175
|
+
</body>
|
|
176
|
+
</html>
|
|
@@ -0,0 +1,83 @@
|
|
|
1
|
+
from django.conf import settings
|
|
2
|
+
from django.conf.urls.static import static
|
|
3
|
+
from django.urls import include, path
|
|
4
|
+
from rest_framework.routers import DefaultRouter
|
|
5
|
+
|
|
6
|
+
from endoreg_db.views import (
|
|
7
|
+
ExaminationViewSet,
|
|
8
|
+
FindingClassificationViewSet,
|
|
9
|
+
FindingViewSet,
|
|
10
|
+
PatientExaminationViewSet,
|
|
11
|
+
PatientFindingViewSet,
|
|
12
|
+
VideoExaminationViewSet,
|
|
13
|
+
VideoViewSet,
|
|
14
|
+
)
|
|
15
|
+
|
|
16
|
+
from .anonymization import url_patterns as anonymization_url_patterns
|
|
17
|
+
from .auth import urlpatterns as auth_url_patterns
|
|
18
|
+
from .classification import url_patterns as classification_url_patterns
|
|
19
|
+
from .examination import urlpatterns as examination_url_patterns
|
|
20
|
+
from .files import urlpatterns as files_url_patterns
|
|
21
|
+
from .label_video_segment_validate import (
|
|
22
|
+
url_patterns as label_video_segment_validate_url_patterns,
|
|
23
|
+
)
|
|
24
|
+
from .label_video_segments import url_patterns as label_video_segments_url_patterns
|
|
25
|
+
|
|
26
|
+
# Phase 1.2: Media Management URLs ✅ IMPLEMENTED
|
|
27
|
+
from .media import urlpatterns as media_url_patterns
|
|
28
|
+
from .patient import urlpatterns as patient_url_patterns
|
|
29
|
+
|
|
30
|
+
# TODO Phase 1.2: Implement VideoMediaView and PDFMediaView before enabling
|
|
31
|
+
# from .media import urlpatterns as media_url_patterns
|
|
32
|
+
from .report import url_patterns as report_url_patterns
|
|
33
|
+
from .requirements import urlpatterns as requirements_url_patterns
|
|
34
|
+
from .stats import url_patterns as stats_url_patterns
|
|
35
|
+
from .upload import urlpatterns as upload_url_patterns
|
|
36
|
+
from .video import url_patterns as video_url_patterns
|
|
37
|
+
|
|
38
|
+
api_urls = []
|
|
39
|
+
api_urls += classification_url_patterns
|
|
40
|
+
api_urls += anonymization_url_patterns
|
|
41
|
+
api_urls += auth_url_patterns
|
|
42
|
+
api_urls += examination_url_patterns
|
|
43
|
+
api_urls += files_url_patterns
|
|
44
|
+
api_urls += label_video_segments_url_patterns
|
|
45
|
+
api_urls += label_video_segment_validate_url_patterns # Neue Validierungs-Endpunkte
|
|
46
|
+
# Phase 1.2: Enable media_url_patterns ✅ IMPLEMENTED
|
|
47
|
+
api_urls += media_url_patterns
|
|
48
|
+
api_urls += report_url_patterns
|
|
49
|
+
api_urls += upload_url_patterns
|
|
50
|
+
api_urls += video_url_patterns
|
|
51
|
+
api_urls += requirements_url_patterns
|
|
52
|
+
api_urls += patient_url_patterns
|
|
53
|
+
api_urls += stats_url_patterns
|
|
54
|
+
|
|
55
|
+
router = DefaultRouter()
|
|
56
|
+
router.register(r"videos", VideoViewSet, basename="videos")
|
|
57
|
+
router.register(r"examinations", ExaminationViewSet)
|
|
58
|
+
router.register(
|
|
59
|
+
r"video-examinations", VideoExaminationViewSet, basename="video-examinations"
|
|
60
|
+
)
|
|
61
|
+
router.register(r"findings", FindingViewSet)
|
|
62
|
+
router.register(r"classifications", FindingClassificationViewSet)
|
|
63
|
+
router.register(r"patient-findings", PatientFindingViewSet)
|
|
64
|
+
router.register(r"patient-examinations", PatientExaminationViewSet)
|
|
65
|
+
|
|
66
|
+
# Additional custom video examination routes
|
|
67
|
+
# Frontend expects: GET /api/video/{id}/examinations/
|
|
68
|
+
video_examinations_list = VideoExaminationViewSet.as_view({"get": "by_video"})
|
|
69
|
+
|
|
70
|
+
# Export raw API urlpatterns (no prefix). The project-level endoreg_db/urls.py mounts these under /api/.
|
|
71
|
+
urlpatterns = [
|
|
72
|
+
path(
|
|
73
|
+
"video/<int:video_id>/examinations/",
|
|
74
|
+
video_examinations_list,
|
|
75
|
+
name="video-examinations-by-video",
|
|
76
|
+
),
|
|
77
|
+
path("", include(api_urls)), # Specific routes first
|
|
78
|
+
path("", include(router.urls)), # Generic router routes second
|
|
79
|
+
]
|
|
80
|
+
|
|
81
|
+
if settings.DEBUG:
|
|
82
|
+
urlpatterns += static(settings.MEDIA_URL, document_root=settings.MEDIA_ROOT)
|
|
83
|
+
urlpatterns += static(settings.STATIC_URL, document_root=settings.STATIC_ROOT)
|
|
@@ -0,0 +1,32 @@
|
|
|
1
|
+
from django.urls import path
|
|
2
|
+
from endoreg_db.views.anonymization import (
|
|
3
|
+
AnonymizationOverviewView,
|
|
4
|
+
AnonymizationValidateView,
|
|
5
|
+
start_anonymization,
|
|
6
|
+
anonymization_current,
|
|
7
|
+
anonymization_status,
|
|
8
|
+
polling_coordinator_info,
|
|
9
|
+
clear_processing_locks,
|
|
10
|
+
has_raw_video_file,
|
|
11
|
+
)
|
|
12
|
+
from endoreg_db.views.anonymization import media_management
|
|
13
|
+
|
|
14
|
+
url_patterns = [
|
|
15
|
+
# URL patterns for anonymization overview
|
|
16
|
+
path('anonymization/items/overview/', AnonymizationOverviewView.as_view(), name='anonymization_items_overview'),
|
|
17
|
+
path('anonymization/<int:file_id>/current/', anonymization_current, name='set_current_for_validation'),
|
|
18
|
+
path('anonymization/<int:file_id>/start/', start_anonymization, name='start_anonymization'),
|
|
19
|
+
path('anonymization/<int:file_id>/status/', anonymization_status, name='get_anonymization_status'),
|
|
20
|
+
path('anonymization/<int:file_id>/validate/', AnonymizationValidateView.as_view(), name='validate_anonymization'),
|
|
21
|
+
# Polling Coordination API (new endpoints)
|
|
22
|
+
path('anonymization/polling-info/', polling_coordinator_info, name='polling_coordinator_info'),
|
|
23
|
+
path('anonymization/clear-locks/', clear_processing_locks, name='clear_processing_locks'),
|
|
24
|
+
path('anonymization/<int:file_id>/has-raw/', has_raw_video_file, name='has_raw_video_file'),
|
|
25
|
+
|
|
26
|
+
|
|
27
|
+
# Media Management API (new endpoints)
|
|
28
|
+
path('media-management/status/', media_management.MediaManagementView.as_view(), name='media_management_status'),
|
|
29
|
+
path('media-management/cleanup/', media_management.MediaManagementView.as_view(), name='media_management_cleanup'),
|
|
30
|
+
path('media-management/force-remove/<int:file_id>/', media_management.force_remove_media, name='force_remove_media'),
|
|
31
|
+
path('media-management/reset-status/<int:file_id>/', media_management.reset_processing_status, name='reset_processing_status'),
|
|
32
|
+
]
|
endoreg_db/urls/auth.py
ADDED
|
@@ -0,0 +1,16 @@
|
|
|
1
|
+
from django.urls import path
|
|
2
|
+
|
|
3
|
+
from endoreg_db.views import (
|
|
4
|
+
public_home,
|
|
5
|
+
keycloak_login,
|
|
6
|
+
keycloak_callback,
|
|
7
|
+
csrf_token_view,
|
|
8
|
+
)
|
|
9
|
+
|
|
10
|
+
urlpatterns = [
|
|
11
|
+
# Authentication endpoints
|
|
12
|
+
path('endoreg_db/', public_home, name='public_home'),
|
|
13
|
+
path('login/', keycloak_login, name='keycloak_login'),
|
|
14
|
+
path('login/callback/', keycloak_callback, name='keycloak_callback'),
|
|
15
|
+
path('conf/', csrf_token_view, name='csrf_token'),
|
|
16
|
+
]
|
|
@@ -0,0 +1,39 @@
|
|
|
1
|
+
'''
|
|
2
|
+
---------------------------------------------------------------------------------------
|
|
3
|
+
CLASSIFICATION API ENDPOINTS
|
|
4
|
+
|
|
5
|
+
Diese Endpunkte führen automatische Polyp-Klassifikationen durch:
|
|
6
|
+
- NICE: Für digitale Chromoendoskopie/NBI-basierte Klassifikation
|
|
7
|
+
- PARIS: Für Standard-Weißlicht-Klassifikation
|
|
8
|
+
|
|
9
|
+
Diese APIs sind für Backend-Verarbeitung gedacht und werden typischerweise
|
|
10
|
+
nach dem Import eines Videos automatisch aufgerufen.
|
|
11
|
+
---------------------------------------------------------------------------------------
|
|
12
|
+
'''
|
|
13
|
+
|
|
14
|
+
from django.urls import path
|
|
15
|
+
|
|
16
|
+
url_patterns = [
|
|
17
|
+
# NICE Classification API
|
|
18
|
+
# POST /api/classifications/nice/
|
|
19
|
+
# Body: {"video_ids": [1, 2, 3]} oder leerer Body für alle Videos
|
|
20
|
+
# Führt NICE-Klassifikation für spezifizierte Videos durch
|
|
21
|
+
# path('classifications/nice/', ForNiceClassificationView.as_view(), name='nice_classification'),
|
|
22
|
+
|
|
23
|
+
# PARIS Classification API
|
|
24
|
+
# POST /api/classifications/paris/
|
|
25
|
+
# Body: {"video_ids": [1, 2, 3]} oder leerer Body für alle Videos
|
|
26
|
+
# Führt PARIS-Klassifikation für spezifizierte Videos durch
|
|
27
|
+
# path('classifications/paris/', ForParisClassificationView.as_view(), name='paris_classification'),
|
|
28
|
+
|
|
29
|
+
# Batch Classification API (beide Typen)
|
|
30
|
+
# POST /api/classifications/batch/
|
|
31
|
+
# Body: {"video_ids": [1, 2, 3], "types": ["nice", "paris"]}
|
|
32
|
+
# Führt beide Klassifikationstypen für spezifizierte Videos durch
|
|
33
|
+
# path('classifications/batch/', BatchClassificationView.as_view(), name='batch_classification'),
|
|
34
|
+
|
|
35
|
+
# Classification Status API
|
|
36
|
+
# GET /api/classifications/status/<video_id>/
|
|
37
|
+
# Gibt den Status der Klassifikationen für ein Video zurück
|
|
38
|
+
# path('classifications/status/<int:video_id>/', ClassificationStatusView.as_view(), name='classification_status'),
|
|
39
|
+
]
|
|
@@ -0,0 +1,54 @@
|
|
|
1
|
+
from django.urls import path
|
|
2
|
+
from endoreg_db.views import (
|
|
3
|
+
get_findings_for_examination,
|
|
4
|
+
get_classifications_for_finding,
|
|
5
|
+
get_classification_choices,
|
|
6
|
+
get_classifications_for_examination,
|
|
7
|
+
ExaminationCreateView,
|
|
8
|
+
PatientExaminationDetailView,
|
|
9
|
+
PatientExaminationListView,
|
|
10
|
+
)
|
|
11
|
+
|
|
12
|
+
urlpatterns = [# URL patterns for ExaminationForm.vue API calls
|
|
13
|
+
path(
|
|
14
|
+
'examinations/<int:examination_id>/findings/',
|
|
15
|
+
get_findings_for_examination,
|
|
16
|
+
name='get_findings_for_examination'
|
|
17
|
+
),
|
|
18
|
+
path(
|
|
19
|
+
'findings/<int:finding_id>/classifications/',
|
|
20
|
+
get_classifications_for_finding,
|
|
21
|
+
name='get_classifications_for_finding'
|
|
22
|
+
),
|
|
23
|
+
path(
|
|
24
|
+
'classifications/<int:classification_id>/choices/',
|
|
25
|
+
get_classification_choices,
|
|
26
|
+
name='get_choices_for_classification'
|
|
27
|
+
),
|
|
28
|
+
# NEW: Examination CRUD endpoints for SimpleExaminationForm
|
|
29
|
+
# POST /api/examinations/create/ - Create new examination
|
|
30
|
+
# GET /api/examinations/{id}/ - Get examination details
|
|
31
|
+
# PATCH /api/examinations/{id}/ - Update examination
|
|
32
|
+
# GET /api/examinations/list/ - List examinations with filtering
|
|
33
|
+
# TODO: Clearly Distinguish between Examination (the template) and PatientExamination (the instance).
|
|
34
|
+
# The views below handle PatientExamination instances, which represent a specific examination performed on a patient.
|
|
35
|
+
# The URL names are updated to reflect this, using the 'patient_examination_*' prefix for clarity.
|
|
36
|
+
# TODO: Clearly Distinguish between Examination and PatientExamination by using 'patient-examination' prefix for clarity
|
|
37
|
+
path('patient-examinations/create/', ExaminationCreateView.as_view(), name='patient_examination_create'),
|
|
38
|
+
path('patient-examinations/<int:pk>/', PatientExaminationDetailView.as_view(), name='patient_examination_detail'),
|
|
39
|
+
path('patient-examinations/list/', PatientExaminationListView.as_view(), name='patient_examination_list'),
|
|
40
|
+
|
|
41
|
+
# NEW ENDPOINTS FOR RESTRUCTURED FRONTEND
|
|
42
|
+
path(
|
|
43
|
+
'patient-examinations/<int:exam_id>/classifications/',
|
|
44
|
+
get_classifications_for_examination,
|
|
45
|
+
name='get_classifications_for_examination'
|
|
46
|
+
),
|
|
47
|
+
|
|
48
|
+
path(
|
|
49
|
+
'patient-examinations/<int:examination_id>/findings/',
|
|
50
|
+
get_findings_for_examination,
|
|
51
|
+
name='get_patient_examination_findings'
|
|
52
|
+
),
|
|
53
|
+
|
|
54
|
+
]
|