endoreg-db 0.6.0__py3-none-any.whl → 0.6.2__py3-none-any.whl
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- endoreg_db/case_generator/__init__.py +0 -0
- endoreg_db/case_generator/case_generator.py +159 -0
- endoreg_db/case_generator/lab_sample_factory.py +33 -0
- endoreg_db/case_generator/utils.py +30 -0
- endoreg_db/data/__init__.py +118 -0
- endoreg_db/data/agl_service/data.yaml +19 -0
- endoreg_db/data/ai_model/data.yaml +7 -0
- endoreg_db/data/ai_model_label/label/data.yaml +88 -0
- endoreg_db/data/ai_model_label/label-set/data.yaml +21 -0
- endoreg_db/data/ai_model_label/label-type/data.yaml +7 -0
- endoreg_db/data/ai_model_meta/default_multilabel_classification.yaml +5 -0
- endoreg_db/data/ai_model_type/data.yaml +7 -0
- 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 -0
- endoreg_db/data/case_template/rule/01_patient-set-age.yaml +8 -0
- endoreg_db/data/case_template/rule/01_patient-set-gender.yaml +9 -0
- endoreg_db/data/case_template/rule/11_create_patient_lab_sample.yaml +23 -0
- endoreg_db/data/case_template/rule/12_create-patient_medication-anticoagulation.yaml +19 -0
- endoreg_db/data/case_template/rule/13_create-patient_medication_schedule-anticoagulation.yaml +19 -0
- endoreg_db/data/case_template/rule/19_create_patient.yaml +17 -0
- endoreg_db/data/case_template/rule_type/base_types.yaml +35 -0
- endoreg_db/data/case_template/rule_value/.init +0 -0
- endoreg_db/data/case_template/rule_value_type/base_types.yaml +59 -0
- endoreg_db/data/case_template/template/base.yaml +8 -0
- endoreg_db/data/case_template/template_type/pre_endoscopy.yaml +3 -0
- endoreg_db/data/case_template/tmp/_rule_value +13 -0
- endoreg_db/data/case_template/tmp/rule/01_atrial_fibrillation.yaml +21 -0
- endoreg_db/data/case_template/tmp/rule/02_create_object.yaml +10 -0
- endoreg_db/data/case_template/tmp/template/atrial_fibrillation_low_risk.yaml +7 -0
- endoreg_db/data/center/data.yaml +90 -0
- endoreg_db/data/center_resource/green_endoscopy_dashboard_CenterResource.yaml +144 -0
- endoreg_db/data/center_waste/green_endoscopy_dashboard_CenterWaste.yaml +48 -0
- endoreg_db/data/contraindication/bleeding.yaml +11 -0
- endoreg_db/data/disease/cardiovascular.yaml +37 -0
- endoreg_db/data/disease/hepatology.yaml +5 -0
- endoreg_db/data/disease/misc.yaml +6 -0
- endoreg_db/data/disease/renal.yaml +5 -0
- endoreg_db/data/disease_classification/chronic_kidney_disease.yaml +6 -0
- endoreg_db/data/disease_classification/coronary_vessel_disease.yaml +6 -0
- endoreg_db/data/disease_classification_choice/chronic_kidney_disease.yaml +41 -0
- endoreg_db/data/disease_classification_choice/coronary_vessel_disease.yaml +20 -0
- endoreg_db/data/distribution/date/patient.yaml +7 -0
- endoreg_db/data/distribution/multiple_categorical/.init +0 -0
- endoreg_db/data/distribution/numeric/data.yaml +14 -0
- endoreg_db/data/distribution/single_categorical/patient.yaml +7 -0
- endoreg_db/data/emission_factor/green_endoscopy_dashboard_EmissionFactor.yaml +132 -0
- endoreg_db/data/endoscope/data.yaml +93 -0
- endoreg_db/data/endoscope_type/data.yaml +11 -0
- endoreg_db/data/endoscopy_processor/data.yaml +47 -0
- endoreg_db/data/event/cardiology.yaml +28 -0
- endoreg_db/data/event/neurology.yaml +14 -0
- endoreg_db/data/event/surgery.yaml +13 -0
- endoreg_db/data/event/thrombembolism.yaml +20 -0
- endoreg_db/data/examination/examinations/data.yaml +66 -0
- endoreg_db/data/examination/time/data.yaml +48 -0
- endoreg_db/data/examination/time-type/data.yaml +8 -0
- endoreg_db/data/examination/type/data.yaml +5 -0
- endoreg_db/data/examination_indication/endoscopy.yaml +8 -0
- endoreg_db/data/examination_indication_classification/endoscopy.yaml +8 -0
- endoreg_db/data/examination_indication_classification_choice/endoscopy.yaml +101 -0
- endoreg_db/data/finding/data.yaml +141 -0
- endoreg_db/data/finding_intervention/endoscopy.yaml +138 -0
- endoreg_db/data/finding_intervention_type/endoscopy.yaml +15 -0
- endoreg_db/data/finding_location_classification/colonoscopy.yaml +46 -0
- endoreg_db/data/finding_location_classification_choice/colonoscopy.yaml +240 -0
- endoreg_db/data/finding_morphology_classification/colonoscopy.yaml +48 -0
- endoreg_db/data/finding_morphology_classification_choice/colon_lesion_circularity_default.yaml +34 -0
- endoreg_db/data/finding_morphology_classification_choice/colon_lesion_nice.yaml +20 -0
- endoreg_db/data/finding_morphology_classification_choice/colon_lesion_paris.yaml +65 -0
- endoreg_db/data/finding_morphology_classification_choice/colon_lesion_planarity_default.yaml +56 -0
- endoreg_db/data/finding_morphology_classification_choice/colon_lesion_surface_intact_default.yaml +39 -0
- endoreg_db/data/finding_morphology_classification_choice/colonoscopy_size.yaml +57 -0
- endoreg_db/data/finding_morphology_classification_type/colonoscopy.yaml +79 -0
- endoreg_db/data/finding_type/data.yaml +30 -0
- endoreg_db/data/gender/data.yaml +35 -0
- endoreg_db/data/information_source/data.yaml +30 -0
- endoreg_db/data/information_source/medication.yaml +6 -0
- endoreg_db/data/lab_value/cardiac_enzymes.yaml +37 -0
- endoreg_db/data/lab_value/coagulation.yaml +54 -0
- endoreg_db/data/lab_value/electrolytes.yaml +228 -0
- endoreg_db/data/lab_value/gastrointestinal_function.yaml +133 -0
- endoreg_db/data/lab_value/hematology.yaml +184 -0
- endoreg_db/data/lab_value/hormones.yaml +59 -0
- endoreg_db/data/lab_value/lipids.yaml +53 -0
- endoreg_db/data/lab_value/misc.yaml +33 -0
- endoreg_db/data/lab_value/renal_function.yaml +12 -0
- 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/material/material.yaml +91 -0
- endoreg_db/data/medication/anticoagulation.yaml +65 -0
- endoreg_db/data/medication/tah.yaml +70 -0
- endoreg_db/data/medication_indication/anticoagulation.yaml +115 -0
- endoreg_db/data/medication_indication_type/data.yaml +11 -0
- endoreg_db/data/medication_indication_type/thrombembolism.yaml +41 -0
- endoreg_db/data/medication_intake_time/base.yaml +31 -0
- endoreg_db/data/medication_schedule/apixaban.yaml +95 -0
- endoreg_db/data/medication_schedule/ass.yaml +12 -0
- endoreg_db/data/medication_schedule/enoxaparin.yaml +26 -0
- endoreg_db/data/names_first/first_names.yaml +51 -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 +6 -0
- endoreg_db/data/pdf_type/data.yaml +29 -0
- endoreg_db/data/product/green_endoscopy_dashboard_Product.yaml +66 -0
- endoreg_db/data/product_group/green_endoscopy_dashboard_ProductGroup.yaml +33 -0
- endoreg_db/data/product_material/green_endoscopy_dashboard_ProductMaterial.yaml +308 -0
- endoreg_db/data/product_weight/green_endoscopy_dashboard_ProductWeight.yaml +88 -0
- endoreg_db/data/profession/data.yaml +70 -0
- endoreg_db/data/reference_product/green_endoscopy_dashboard_ReferenceProduct.yaml +55 -0
- endoreg_db/data/report_reader_flag/ukw-examination-generic.yaml +30 -0
- endoreg_db/data/report_reader_flag/ukw-histology-generic.yaml +19 -0
- endoreg_db/data/resource/green_endoscopy_dashboard_Resource.yaml +15 -0
- endoreg_db/data/tmp/chronic_kidney_disease.yaml +0 -0
- endoreg_db/data/tmp/congestive_heart_failure.yaml +0 -0
- endoreg_db/data/transport_route/green_endoscopy_dashboard_TransportRoute.yaml +12 -0
- endoreg_db/data/unit/concentration.yaml +92 -0
- endoreg_db/data/unit/data.yaml +17 -0
- endoreg_db/data/unit/length.yaml +31 -0
- endoreg_db/data/unit/misc.yaml +20 -0
- endoreg_db/data/unit/rate.yaml +6 -0
- endoreg_db/data/unit/time.yaml +13 -0
- endoreg_db/data/unit/volume.yaml +35 -0
- endoreg_db/data/unit/weight.yaml +38 -0
- endoreg_db/data/waste/data.yaml +12 -0
- endoreg_db/forms/__init__.py +5 -0
- endoreg_db/forms/examination_form.py +11 -0
- endoreg_db/forms/patient_finding_intervention_form.py +19 -0
- endoreg_db/forms/patient_form.py +26 -0
- endoreg_db/forms/questionnaires/__init__.py +1 -0
- endoreg_db/forms/questionnaires/tto_questionnaire.py +23 -0
- endoreg_db/forms/settings/__init__.py +8 -0
- endoreg_db/forms/unit.py +6 -0
- endoreg_db/management/__init__.py +0 -0
- endoreg_db/management/commands/__init__.py +0 -0
- endoreg_db/management/commands/_load_model_template.py +41 -0
- endoreg_db/management/commands/delete_all.py +18 -0
- endoreg_db/management/commands/fetch_legacy_image_dataset.py +32 -0
- endoreg_db/management/commands/fix_auth_permission.py +20 -0
- endoreg_db/management/commands/load_active_model_data.py +45 -0
- endoreg_db/management/commands/load_ai_model_data.py +79 -0
- endoreg_db/management/commands/load_ai_model_label_data.py +59 -0
- endoreg_db/management/commands/load_base_db_data.py +178 -0
- endoreg_db/management/commands/load_center_data.py +43 -0
- endoreg_db/management/commands/load_contraindication_data.py +41 -0
- endoreg_db/management/commands/load_disease_classification_choices_data.py +41 -0
- endoreg_db/management/commands/load_disease_classification_data.py +41 -0
- endoreg_db/management/commands/load_disease_data.py +62 -0
- endoreg_db/management/commands/load_distribution_data.py +66 -0
- endoreg_db/management/commands/load_endoscope_data.py +68 -0
- endoreg_db/management/commands/load_event_data.py +41 -0
- endoreg_db/management/commands/load_examination_data.py +75 -0
- endoreg_db/management/commands/load_examination_indication_data.py +65 -0
- endoreg_db/management/commands/load_finding_data.py +171 -0
- endoreg_db/management/commands/load_g_play_data.py +113 -0
- endoreg_db/management/commands/load_gender_data.py +44 -0
- endoreg_db/management/commands/load_green_endoscopy_wuerzburg_data.py +133 -0
- endoreg_db/management/commands/load_information_source.py +45 -0
- endoreg_db/management/commands/load_lab_value_data.py +50 -0
- endoreg_db/management/commands/load_logging_data.py +39 -0
- endoreg_db/management/commands/load_lx_data.py +64 -0
- endoreg_db/management/commands/load_medication_data.py +103 -0
- endoreg_db/management/commands/load_medication_indication_data.py +63 -0
- endoreg_db/management/commands/load_medication_indication_type_data.py +41 -0
- endoreg_db/management/commands/load_medication_intake_time_data.py +41 -0
- endoreg_db/management/commands/load_medication_schedule_data.py +55 -0
- endoreg_db/management/commands/load_name_data.py +37 -0
- endoreg_db/management/commands/load_network_data.py +57 -0
- endoreg_db/management/commands/load_organ_data.py +43 -0
- endoreg_db/management/commands/load_pdf_type_data.py +61 -0
- endoreg_db/management/commands/load_profession_data.py +44 -0
- endoreg_db/management/commands/load_report_reader_flag_data.py +46 -0
- endoreg_db/management/commands/load_unit_data.py +46 -0
- endoreg_db/management/commands/load_user_groups.py +28 -0
- endoreg_db/management/commands/register_ai_model.py +64 -0
- endoreg_db/management/commands/reset_celery_schedule.py +9 -0
- endoreg_db/migrations/0001_initial.py +2045 -0
- endoreg_db/migrations/0002_alter_frame_image_alter_rawframe_image.py +23 -0
- endoreg_db/migrations/0003_alter_frame_image_alter_rawframe_image.py +23 -0
- endoreg_db/migrations/0004_alter_rawvideofile_file_alter_video_file.py +25 -0
- endoreg_db/migrations/0005_rawvideofile_frame_count_and_more.py +33 -0
- endoreg_db/migrations/0006_frame_extracted_rawframe_extracted.py +23 -0
- endoreg_db/migrations/0007_rename_pseudo_patient_video_patient_and_more.py +24 -0
- endoreg_db/migrations/0008_remove_reportfile_patient_examination_and_more.py +48 -0
- endoreg_db/migrations/__init__.py +0 -0
- endoreg_db/models/__init__.py +376 -0
- endoreg_db/models/ai_model/__init__.py +4 -0
- endoreg_db/models/ai_model/active_model.py +9 -0
- endoreg_db/models/ai_model/ai_model.py +103 -0
- endoreg_db/models/ai_model/lightning/__init__.py +3 -0
- endoreg_db/models/ai_model/lightning/inference_dataset.py +53 -0
- endoreg_db/models/ai_model/lightning/multilabel_classification_net.py +155 -0
- endoreg_db/models/ai_model/lightning/postprocess.py +53 -0
- endoreg_db/models/ai_model/lightning/predict.py +172 -0
- endoreg_db/models/ai_model/lightning/prediction_visualizer.py +55 -0
- endoreg_db/models/ai_model/lightning/preprocess.py +68 -0
- endoreg_db/models/ai_model/lightning/run_visualizer.py +21 -0
- endoreg_db/models/ai_model/model_meta.py +250 -0
- endoreg_db/models/ai_model/model_type.py +36 -0
- endoreg_db/models/ai_model/utils.py +8 -0
- endoreg_db/models/annotation/__init__.py +32 -0
- endoreg_db/models/annotation/anonymized_image_annotation.py +115 -0
- endoreg_db/models/annotation/binary_classification_annotation_task.py +117 -0
- endoreg_db/models/annotation/image_classification.py +86 -0
- endoreg_db/models/annotation/video_segmentation_annotation.py +52 -0
- endoreg_db/models/annotation/video_segmentation_labelset.py +20 -0
- endoreg_db/models/case/__init__.py +1 -0
- endoreg_db/models/case/case.py +34 -0
- endoreg_db/models/case_template/__init__.py +15 -0
- endoreg_db/models/case_template/case_template.py +125 -0
- endoreg_db/models/case_template/case_template_rule.py +276 -0
- endoreg_db/models/case_template/case_template_rule_value.py +88 -0
- endoreg_db/models/case_template/case_template_type.py +28 -0
- endoreg_db/models/center/__init__.py +11 -0
- endoreg_db/models/center/center.py +51 -0
- endoreg_db/models/center/center_product.py +33 -0
- endoreg_db/models/center/center_resource.py +33 -0
- endoreg_db/models/center/center_waste.py +16 -0
- endoreg_db/models/contraindication/__init__.py +21 -0
- endoreg_db/models/data_file/__init__.py +39 -0
- endoreg_db/models/data_file/base_classes/__init__.py +7 -0
- endoreg_db/models/data_file/base_classes/abstract_frame.py +100 -0
- endoreg_db/models/data_file/base_classes/abstract_pdf.py +136 -0
- endoreg_db/models/data_file/base_classes/abstract_video.py +807 -0
- endoreg_db/models/data_file/base_classes/frame_helpers.py +17 -0
- endoreg_db/models/data_file/base_classes/prepare_bulk_frames.py +19 -0
- endoreg_db/models/data_file/base_classes/utils.py +80 -0
- endoreg_db/models/data_file/frame.py +29 -0
- endoreg_db/models/data_file/import_classes/__init__.py +18 -0
- endoreg_db/models/data_file/import_classes/processing_functions/__init__.py +35 -0
- endoreg_db/models/data_file/import_classes/processing_functions/pdf.py +28 -0
- endoreg_db/models/data_file/import_classes/processing_functions/video.py +260 -0
- endoreg_db/models/data_file/import_classes/raw_pdf.py +260 -0
- endoreg_db/models/data_file/import_classes/raw_video.py +288 -0
- endoreg_db/models/data_file/metadata/__init__.py +13 -0
- endoreg_db/models/data_file/metadata/pdf_meta.py +74 -0
- endoreg_db/models/data_file/metadata/sensitive_meta.py +290 -0
- endoreg_db/models/data_file/metadata/video_meta.py +199 -0
- endoreg_db/models/data_file/report_file.py +56 -0
- endoreg_db/models/data_file/video/__init__.py +11 -0
- endoreg_db/models/data_file/video/import_meta.py +25 -0
- endoreg_db/models/data_file/video/video.py +196 -0
- endoreg_db/models/data_file/video_segment.py +214 -0
- endoreg_db/models/disease.py +79 -0
- endoreg_db/models/emission/__init__.py +5 -0
- endoreg_db/models/emission/emission_factor.py +85 -0
- endoreg_db/models/event.py +73 -0
- endoreg_db/models/examination/__init__.py +9 -0
- endoreg_db/models/examination/examination.py +67 -0
- endoreg_db/models/examination/examination_indication.py +170 -0
- endoreg_db/models/examination/examination_time.py +53 -0
- endoreg_db/models/examination/examination_time_type.py +48 -0
- endoreg_db/models/examination/examination_type.py +40 -0
- endoreg_db/models/finding/__init__.py +11 -0
- endoreg_db/models/finding/finding.py +75 -0
- endoreg_db/models/finding/finding_intervention.py +60 -0
- endoreg_db/models/finding/finding_location_classification.py +94 -0
- endoreg_db/models/finding/finding_morphology_classification.py +89 -0
- endoreg_db/models/finding/finding_type.py +22 -0
- endoreg_db/models/hardware/__init__.py +2 -0
- endoreg_db/models/hardware/endoscope.py +60 -0
- endoreg_db/models/hardware/endoscopy_processor.py +155 -0
- endoreg_db/models/information_source.py +29 -0
- endoreg_db/models/label/__init__.py +1 -0
- endoreg_db/models/label/label.py +112 -0
- endoreg_db/models/laboratory/__init__.py +1 -0
- endoreg_db/models/laboratory/lab_value.py +111 -0
- endoreg_db/models/logging/__init__.py +11 -0
- endoreg_db/models/logging/agl_service.py +19 -0
- endoreg_db/models/logging/base.py +22 -0
- endoreg_db/models/logging/log_type.py +23 -0
- endoreg_db/models/logging/network_device.py +27 -0
- endoreg_db/models/lx/__init__.py +4 -0
- endoreg_db/models/lx/client.py +57 -0
- endoreg_db/models/lx/identity.py +34 -0
- endoreg_db/models/lx/permission.py +18 -0
- endoreg_db/models/lx/user.py +16 -0
- endoreg_db/models/medication/__init__.py +19 -0
- endoreg_db/models/medication/medication.py +33 -0
- endoreg_db/models/medication/medication_indication.py +50 -0
- endoreg_db/models/medication/medication_indication_type.py +34 -0
- endoreg_db/models/medication/medication_intake_time.py +26 -0
- endoreg_db/models/medication/medication_schedule.py +37 -0
- endoreg_db/models/network/__init__.py +9 -0
- endoreg_db/models/network/agl_service.py +38 -0
- endoreg_db/models/network/network_device.py +58 -0
- endoreg_db/models/network/network_device_type.py +23 -0
- endoreg_db/models/organ/__init__.py +38 -0
- endoreg_db/models/other/__init__.py +23 -0
- endoreg_db/models/other/distribution/__init__.py +44 -0
- endoreg_db/models/other/distribution/base_value_distribution.py +20 -0
- endoreg_db/models/other/distribution/date_value_distribution.py +91 -0
- endoreg_db/models/other/distribution/multiple_categorical_value_distribution.py +32 -0
- endoreg_db/models/other/distribution/numeric_value_distribution.py +97 -0
- endoreg_db/models/other/distribution/single_categorical_value_distribution.py +22 -0
- endoreg_db/models/other/distribution.py +5 -0
- endoreg_db/models/other/material.py +20 -0
- endoreg_db/models/other/resource.py +18 -0
- endoreg_db/models/other/transport_route.py +22 -0
- endoreg_db/models/other/waste.py +20 -0
- endoreg_db/models/patient/__init__.py +24 -0
- endoreg_db/models/patient/patient_examination.py +182 -0
- endoreg_db/models/patient/patient_finding.py +143 -0
- endoreg_db/models/patient/patient_finding_intervention.py +26 -0
- endoreg_db/models/patient/patient_finding_location.py +120 -0
- endoreg_db/models/patient/patient_finding_morphology.py +166 -0
- endoreg_db/models/permissions/__init__.py +44 -0
- endoreg_db/models/persons/__init__.py +34 -0
- endoreg_db/models/persons/examiner/__init__.py +2 -0
- endoreg_db/models/persons/examiner/examiner.py +60 -0
- endoreg_db/models/persons/examiner/examiner_type.py +2 -0
- endoreg_db/models/persons/first_name.py +18 -0
- endoreg_db/models/persons/gender.py +22 -0
- endoreg_db/models/persons/last_name.py +20 -0
- endoreg_db/models/persons/patient/__init__.py +8 -0
- endoreg_db/models/persons/patient/patient.py +389 -0
- endoreg_db/models/persons/patient/patient_disease.py +22 -0
- endoreg_db/models/persons/patient/patient_event.py +52 -0
- endoreg_db/models/persons/patient/patient_examination_indication.py +32 -0
- endoreg_db/models/persons/patient/patient_lab_sample.py +108 -0
- endoreg_db/models/persons/patient/patient_lab_value.py +197 -0
- endoreg_db/models/persons/patient/patient_medication.py +59 -0
- endoreg_db/models/persons/patient/patient_medication_schedule.py +88 -0
- endoreg_db/models/persons/person.py +31 -0
- endoreg_db/models/persons/portal_user_information.py +27 -0
- endoreg_db/models/prediction/__init__.py +8 -0
- endoreg_db/models/prediction/image_classification.py +51 -0
- endoreg_db/models/prediction/video_prediction_meta.py +306 -0
- endoreg_db/models/product/__init__.py +14 -0
- endoreg_db/models/product/product.py +110 -0
- endoreg_db/models/product/product_group.py +27 -0
- endoreg_db/models/product/product_material.py +28 -0
- endoreg_db/models/product/product_weight.py +38 -0
- endoreg_db/models/product/reference_product.py +115 -0
- endoreg_db/models/questionnaires/__init__.py +114 -0
- endoreg_db/models/quiz/__init__.py +9 -0
- endoreg_db/models/quiz/quiz_answer.py +41 -0
- endoreg_db/models/quiz/quiz_question.py +54 -0
- endoreg_db/models/report_reader/__init__.py +7 -0
- endoreg_db/models/report_reader/report_reader_config.py +53 -0
- endoreg_db/models/report_reader/report_reader_flag.py +20 -0
- endoreg_db/models/rules/__init__.py +5 -0
- endoreg_db/models/rules/rule.py +24 -0
- endoreg_db/models/rules/rule_applicator.py +224 -0
- endoreg_db/models/rules/rule_attribute_dtype.py +19 -0
- endoreg_db/models/rules/rule_type.py +22 -0
- endoreg_db/models/rules/ruleset.py +19 -0
- endoreg_db/models/unit.py +22 -0
- endoreg_db/queries/__init__.py +5 -0
- endoreg_db/queries/annotations/__init__.py +3 -0
- endoreg_db/queries/annotations/legacy.py +158 -0
- endoreg_db/queries/get/__init__.py +6 -0
- endoreg_db/queries/get/annotation.py +0 -0
- endoreg_db/queries/get/center.py +42 -0
- endoreg_db/queries/get/model.py +13 -0
- endoreg_db/queries/get/patient.py +14 -0
- endoreg_db/queries/get/patient_examination.py +20 -0
- endoreg_db/queries/get/prediction.py +0 -0
- endoreg_db/queries/get/report_file.py +33 -0
- endoreg_db/queries/get/video.py +31 -0
- endoreg_db/queries/get/video_import_meta.py +0 -0
- endoreg_db/queries/get/video_prediction_meta.py +0 -0
- endoreg_db/queries/sanity/__init_.py +0 -0
- endoreg_db/serializers/__init__.py +10 -0
- endoreg_db/serializers/ai_model.py +19 -0
- endoreg_db/serializers/annotation.py +14 -0
- endoreg_db/serializers/center.py +11 -0
- endoreg_db/serializers/examination.py +33 -0
- endoreg_db/serializers/frame.py +9 -0
- endoreg_db/serializers/hardware.py +21 -0
- endoreg_db/serializers/label.py +22 -0
- endoreg_db/serializers/patient.py +33 -0
- endoreg_db/serializers/prediction.py +10 -0
- endoreg_db/serializers/raw_video_meta_validation.py +13 -0
- endoreg_db/serializers/report_file.py +7 -0
- endoreg_db/serializers/video.py +20 -0
- endoreg_db/serializers/video_segmentation.py +492 -0
- endoreg_db/templates/admin/patient_finding_intervention.html +253 -0
- endoreg_db/templates/admin/start_examination.html +12 -0
- endoreg_db/templates/timeline.html +176 -0
- endoreg_db/utils/__init__.py +36 -0
- endoreg_db/utils/cropping.py +29 -0
- endoreg_db/utils/dataloader.py +118 -0
- endoreg_db/utils/dates.py +39 -0
- endoreg_db/utils/file_operations.py +30 -0
- endoreg_db/utils/hashs.py +152 -0
- endoreg_db/utils/legacy_ocr.py +201 -0
- endoreg_db/utils/names.py +74 -0
- endoreg_db/utils/ocr.py +190 -0
- endoreg_db/utils/parse_and_generate_yaml.py +46 -0
- endoreg_db/utils/pydantic_models/__init__.py +6 -0
- endoreg_db/utils/pydantic_models/db_config.py +57 -0
- endoreg_db/utils/uuid.py +4 -0
- endoreg_db/utils/validate_endo_roi.py +19 -0
- endoreg_db/utils/validate_subcategory_dict.py +91 -0
- endoreg_db/utils/video/__init__.py +13 -0
- endoreg_db/utils/video/extract_frames.py +121 -0
- endoreg_db/utils/video/transcode_videofile.py +111 -0
- endoreg_db/views/__init__.py +2 -0
- endoreg_db/views/csrf.py +7 -0
- endoreg_db/views/patient_views.py +90 -0
- endoreg_db/views/raw_video_meta_validation_views.py +38 -0
- endoreg_db/views/report_views.py +96 -0
- endoreg_db/views/video_segmentation_views.py +149 -0
- endoreg_db/views/views_for_timeline.py +46 -0
- {endoreg_db-0.6.0.dist-info → endoreg_db-0.6.2.dist-info}/METADATA +14 -4
- endoreg_db-0.6.2.dist-info/RECORD +420 -0
- {endoreg_db-0.6.0.dist-info → endoreg_db-0.6.2.dist-info}/WHEEL +1 -2
- endoreg_db-0.6.0.dist-info/RECORD +0 -11
- endoreg_db-0.6.0.dist-info/top_level.txt +0 -1
- {endoreg_db-0.6.0.dist-info → endoreg_db-0.6.2.dist-info/licenses}/LICENSE +0 -0
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from rest_framework.views import APIView
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from rest_framework.response import Response
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from rest_framework import status
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from django.http import FileResponse, Http404
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from ..models import RawVideoFile, Label
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from ..serializers.video_segmentation import VideoFileSerializer,VideoListSerializer,LabelSerializer
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import mimetypes
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import os
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class VideoView(APIView):
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"""
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API endpoint to:
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- Fetch video metadata (JSON)
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- Serve the actual video file dynamically
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"""
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def get(self, request, video_id=None):
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"""
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Handles GET requests:
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- If no `video_id` is provided, return a list of all videos for frontend dropdown.
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- If `Accept: application/json` is in the request headers, return metadata for a specific video.
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- Otherwise, return the video file.
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"""
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if video_id is None:
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return self.get_all_videos()
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return self.get_video_details(request, video_id)
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def get_all_videos(self):
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"""
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Returns a list of all available videos along with available labels.
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Used to populate the video selection dropdown in Vue.js.
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"""
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videos = RawVideoFile.objects.all()
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labels = Label.objects.all() # Fetch all labels
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video_serializer = VideoListSerializer(videos, many=True)
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label_serializer = LabelSerializer(labels, many=True) # Serialize labels
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return Response({
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"videos": video_serializer.data, # List of videos
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"labels": label_serializer.data # List of labels
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}, status=status.HTTP_200_OK)
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def get_video_details(self, request, video_id):
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"""
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Otherwise, streams the video file.
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"""
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try:
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video_entry = RawVideoFile.objects.get(id=video_id)
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serializer = VideoFileSerializer(video_entry, context={'request': request})
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accept_header = request.headers.get('Accept', '')
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return Response({"error": "Video not found in the database."}, status=status.HTTP_404_NOT_FOUND)
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except Exception as e:
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return Response({"error": f"Internal error: {str(e)}"}, status=status.HTTP_500_INTERNAL_SERVER_ERROR)
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def serve_video_file(self, video_entry):
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"""
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try:
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full_video_path = video_entry.file.path # Get the correct file path
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if not os.path.exists(full_video_path):
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raise Http404("Video file not found.")
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mime_type, _ = mimetypes.guess_type(full_video_path) # Determine the content type (e.g., video/mp4, video/avi)
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response = FileResponse(open(full_video_path, "rb"), content_type=mime_type or "video/mp4")
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# Enable video streaming and CORS
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response["Access-Control-Allow-Origin"] = "*" # Allow frontend access
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response["Access-Control-Allow-Credentials"] = "true"
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response["Accept-Ranges"] = "bytes" # Enable seeking in video player
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response["Content-Disposition"] = f'inline; filename="{os.path.basename(full_video_path)}"' # Instructs the browser to play the video instead of downloading it.
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return response
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except Exception as e:
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from ..serializers.video_segmentation import VideoFileSerializer
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class VideoLabelView(APIView):
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"""
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API to fetch time segments (start & end times in seconds) for a specific label.
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"""
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def get(self, request, video_id, label_name):
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"""
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- Time segments for the selected label.
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- Frame-wise predictions within those segments.
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"""
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try:
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video_entry = RawVideoFile.objects.get(id=video_id)
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serializer = VideoFileSerializer(video_entry, context={'request': request})
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label_data = serializer.get_label_time_segments(video_entry)
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# Ensure the requested label exists
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return Response({"error": f"Label '{label_name}' not found"}, status=status.HTTP_404_NOT_FOUND)
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return Response({
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"label": label_name,
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"time_segments": label_data[label_name]["time_ranges"],
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"frame_predictions": label_data[label_name]["frame_predictions"]
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}, status=status.HTTP_200_OK)
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except RawVideoFile.DoesNotExist:
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return Response({"error": "Video not found"}, status=status.HTTP_404_NOT_FOUND)
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except Exception as e:
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return Response({"error": f"Internal error: {str(e)}"}, status=status.HTTP_500_INTERNAL_SERVER_ERROR)
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from ..serializers.video_segmentation import LabelSegmentUpdateSerializer, LabelSegmentSerializer
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class UpdateLabelSegmentsView(APIView):
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"""
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API to update or create label segments for a video.
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"""
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def put(self, request, video_id, label_id):
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"""
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Handles PUT request to update or create label segments.
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"""
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serializer = LabelSegmentUpdateSerializer(data=request.data)
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if serializer.is_valid():
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result = serializer.save()
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return Response({
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"message": "Segments updated successfully",
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"updated_segments": result["updated_segments"],
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"new_segments": result["new_segments"]
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}, status=status.HTTP_200_OK)
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return Response(serializer.errors, status=status.HTTP_400_BAD_REQUEST)
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from django.shortcuts import render, get_object_or_404
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from ..models import RawVideoFile
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import json
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from ..serializers.video_segmentation import VideoFileSerializer
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def video_timeline_view(request, video_id):
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"""
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Fetches 'outside' label segments and passes their timestamps to the template.
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"""
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video_entry = get_object_or_404(RawVideoFile, id=video_id)
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# Get metadata (Assumes serializer method exists)
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video_serializer = VideoFileSerializer(video_entry, context={'request': request})
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label_segments = video_serializer.get_label_time_segments(video_entry)
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segments = []
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frame_markers = [] # Store frame timestamps
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fps = 50 # Fixed FPS
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# Ensure "outside" label exists
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if "outside" in label_segments:
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for segment in label_segments["outside"]["time_ranges"]:
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segments.append({
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"start_time": segment["start_time"],
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"end_time": segment["end_time"]
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})
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# Extract frame timestamps for markers
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for frame_num, _ in segment["frames"].items():
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time_in_seconds = frame_num / fps
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frame_markers.append(time_in_seconds)
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# Set video duration correctly
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video_duration = video_entry.duration if hasattr(video_entry, "duration") and video_entry.duration else 226 # Default to 226 seconds
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print("Video ID:", video_id)
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print("Segments:", segments)
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print("Video Duration:", video_duration)
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return render(request, "timeline.html", {
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"video_id": video_id,
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"video_url": video_serializer.get_video_url(video_entry),
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"segments": json.dumps(segments), # Send segment start/end times
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"frame_markers": json.dumps(frame_markers), # Send frame timestamps
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"video_duration": video_duration,
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})
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Metadata-Version: 2.
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Metadata-Version: 2.4
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Name: endoreg-db
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Version: 0.6.
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Version: 0.6.2
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Summary: EndoReg Db Django App
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Project-URL: Homepage, https://info.coloreg.de
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Project-URL: Repository, https://github.com/wg-lux/endoreg-db
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Author: Max Hild, Hamza Zahid, Peter Kowalczyk
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Author-email: "Thomas J. Lux" <lux_t1@ukw.de>
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Maintainer: Max Hild, Hamza Zahid, Peter Kowalczyk
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Maintainer-email: "Thomas J. Lux" <lux_t1@ukw.de>
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License-File: LICENSE
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Classifier: Development Status :: 3 - Alpha
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Classifier: Programming Language :: Python :: 3.11
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Classifier: Programming Language :: Python :: 3.12
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Classifier: Topic :: Scientific/Engineering :: Medical Science Apps.
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Requires-Python: >=3.11
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Requires-Dist: agl-report-reader>=0.4.0
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Requires-Dist: django-bootstrap5>=24.3
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Requires-Dist: django-cors-headers>=4.7.0
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@@ -27,6 +36,7 @@ Requires-Dist: scipy>=1.14.1
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Requires-Dist: tesseract>=0.1.3
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Requires-Dist: tqdm>=4.67.0
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Requires-Dist: urllib3>=2.2.3
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Description-Content-Type: text/markdown
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# EndoregDB - Professional Data Infrastructure for Clinical Research
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