endoreg-db 0.3.6__py3-none-any.whl → 0.8.6.1__py3-none-any.whl

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  1. endoreg_db/admin.py +92 -3
  2. endoreg_db/api_urls.py +4 -0
  3. endoreg_db/apps.py +18 -6
  4. endoreg_db/assets/dummy_model.ckpt +1 -0
  5. endoreg_db/codemods/readme.md +88 -0
  6. endoreg_db/codemods/rename_datetime_fields.py +92 -0
  7. endoreg_db/config/env.py +101 -0
  8. endoreg_db/data/__init__.py +144 -65
  9. endoreg_db/data/ai_model/data.yaml +7 -0
  10. endoreg_db/data/{label → ai_model_label}/label/data.yaml +88 -62
  11. endoreg_db/data/ai_model_label/label/polyp_classification.yaml +52 -0
  12. endoreg_db/data/ai_model_label/label-set/data.yaml +40 -0
  13. endoreg_db/data/ai_model_label/label-set/polyp_classifications.yaml +25 -0
  14. endoreg_db/data/{label → ai_model_label}/label-type/data.yaml +6 -6
  15. endoreg_db/data/ai_model_meta/default_multilabel_classification.yaml +27 -0
  16. endoreg_db/data/{model_type → ai_model_type}/data.yaml +6 -6
  17. endoreg_db/data/ai_model_video_segmentation_label/base_segmentation.yaml +176 -0
  18. endoreg_db/data/ai_model_video_segmentation_labelset/data.yaml +20 -0
  19. endoreg_db/data/case_template/rule/00_patient_lab_sample_add_default_value.yaml +167 -167
  20. endoreg_db/data/case_template/rule/01_patient-set-age.yaml +7 -7
  21. endoreg_db/data/case_template/rule/01_patient-set-gender.yaml +8 -8
  22. endoreg_db/data/case_template/rule/11_create_patient_lab_sample.yaml +22 -22
  23. endoreg_db/data/case_template/rule/12_create-patient_medication-anticoagulation.yaml +18 -18
  24. endoreg_db/data/case_template/rule/13_create-patient_medication_schedule-anticoagulation.yaml +18 -18
  25. endoreg_db/data/case_template/rule/19_create_patient.yaml +16 -16
  26. endoreg_db/data/case_template/rule_type/base_types.yaml +35 -35
  27. endoreg_db/data/case_template/rule_value_type/base_types.yaml +58 -58
  28. endoreg_db/data/case_template/template/base.yaml +7 -7
  29. endoreg_db/data/case_template/template_type/pre_endoscopy.yaml +2 -2
  30. endoreg_db/data/case_template/tmp/_rule_value +13 -13
  31. endoreg_db/data/case_template/tmp/rule/01_atrial_fibrillation.yaml +21 -21
  32. endoreg_db/data/case_template/tmp/rule/02_create_object.yaml +9 -9
  33. endoreg_db/data/case_template/tmp/template/atrial_fibrillation_low_risk.yaml +6 -6
  34. endoreg_db/data/center/data.yaml +90 -59
  35. endoreg_db/data/center_resource/green_endoscopy_dashboard_CenterResource.yaml +144 -144
  36. endoreg_db/data/center_shift/ukw.yaml +9 -0
  37. endoreg_db/data/center_waste/green_endoscopy_dashboard_CenterWaste.yaml +48 -48
  38. endoreg_db/data/contraindication/bleeding.yaml +11 -0
  39. endoreg_db/data/db_summary.csv +58 -0
  40. endoreg_db/data/db_summary.xlsx +0 -0
  41. endoreg_db/data/disease/cardiovascular.yaml +37 -37
  42. endoreg_db/data/disease/hepatology.yaml +4 -4
  43. endoreg_db/data/disease/misc.yaml +5 -6
  44. endoreg_db/data/disease/renal.yaml +4 -4
  45. endoreg_db/data/disease_classification/chronic_kidney_disease.yaml +6 -6
  46. endoreg_db/data/disease_classification/coronary_vessel_disease.yaml +5 -5
  47. endoreg_db/data/disease_classification_choice/chronic_kidney_disease.yaml +41 -41
  48. endoreg_db/data/disease_classification_choice/coronary_vessel_disease.yaml +19 -19
  49. endoreg_db/data/distribution/date/patient.yaml +6 -6
  50. endoreg_db/data/distribution/numeric/data.yaml +14 -0
  51. endoreg_db/data/distribution/single_categorical/patient.yaml +6 -6
  52. endoreg_db/data/emission_factor/green_endoscopy_dashboard_EmissionFactor.yaml +132 -132
  53. endoreg_db/data/endoscope/data.yaml +93 -0
  54. endoreg_db/data/endoscope_type/data.yaml +10 -10
  55. endoreg_db/data/endoscopy_processor/data.yaml +50 -45
  56. endoreg_db/data/event/cardiology.yaml +15 -28
  57. endoreg_db/data/event/neurology.yaml +13 -13
  58. endoreg_db/data/event/surgery.yaml +12 -12
  59. endoreg_db/data/event/thrombembolism.yaml +19 -19
  60. endoreg_db/data/examination/examinations/data.yaml +72 -66
  61. endoreg_db/data/examination/time/data.yaml +47 -47
  62. endoreg_db/data/examination/time-type/data.yaml +7 -7
  63. endoreg_db/data/examination/type/data.yaml +17 -5
  64. endoreg_db/data/examination_indication/endoscopy.yaml +424 -0
  65. endoreg_db/data/examination_indication_classification/endoscopy.yaml +160 -0
  66. endoreg_db/data/examination_indication_classification_choice/endoscopy.yaml +101 -0
  67. endoreg_db/data/examination_requirement_set/colonoscopy.yaml +15 -0
  68. endoreg_db/data/finding/anatomy_colon.yaml +128 -0
  69. endoreg_db/data/finding/colonoscopy.yaml +40 -0
  70. endoreg_db/data/finding/colonoscopy_bowel_prep.yaml +56 -0
  71. endoreg_db/data/finding/complication.yaml +16 -0
  72. endoreg_db/data/finding/data.yaml +105 -0
  73. endoreg_db/data/finding/examination_setting.yaml +16 -0
  74. endoreg_db/data/finding/medication_related.yaml +18 -0
  75. endoreg_db/data/finding/outcome.yaml +12 -0
  76. endoreg_db/data/finding_classification/colonoscopy_bowel_preparation.yaml +95 -0
  77. endoreg_db/data/finding_classification/colonoscopy_jnet.yaml +22 -0
  78. endoreg_db/data/finding_classification/colonoscopy_kudo.yaml +25 -0
  79. endoreg_db/data/finding_classification/colonoscopy_lesion_circularity.yaml +20 -0
  80. endoreg_db/data/finding_classification/colonoscopy_lesion_planarity.yaml +24 -0
  81. endoreg_db/data/finding_classification/colonoscopy_lesion_size.yaml +68 -0
  82. endoreg_db/data/finding_classification/colonoscopy_lesion_surface.yaml +20 -0
  83. endoreg_db/data/finding_classification/colonoscopy_location.yaml +80 -0
  84. endoreg_db/data/finding_classification/colonoscopy_lst.yaml +21 -0
  85. endoreg_db/data/finding_classification/colonoscopy_nice.yaml +20 -0
  86. endoreg_db/data/finding_classification/colonoscopy_paris.yaml +26 -0
  87. endoreg_db/data/finding_classification/colonoscopy_sano.yaml +22 -0
  88. endoreg_db/data/finding_classification/colonoscopy_summary.yaml +53 -0
  89. endoreg_db/data/finding_classification/complication_generic.yaml +25 -0
  90. endoreg_db/data/finding_classification/examination_setting_generic.yaml +40 -0
  91. endoreg_db/data/finding_classification/histology_colo.yaml +51 -0
  92. endoreg_db/data/finding_classification/intervention_required.yaml +26 -0
  93. endoreg_db/data/finding_classification/medication_related.yaml +23 -0
  94. endoreg_db/data/finding_classification/visualized.yaml +33 -0
  95. endoreg_db/data/finding_classification_choice/bowel_preparation.yaml +78 -0
  96. endoreg_db/data/finding_classification_choice/colon_lesion_circularity_default.yaml +32 -0
  97. endoreg_db/data/finding_classification_choice/colon_lesion_jnet.yaml +15 -0
  98. endoreg_db/data/finding_classification_choice/colon_lesion_kudo.yaml +23 -0
  99. endoreg_db/data/finding_classification_choice/colon_lesion_lst.yaml +15 -0
  100. endoreg_db/data/finding_classification_choice/colon_lesion_nice.yaml +17 -0
  101. endoreg_db/data/finding_classification_choice/colon_lesion_paris.yaml +57 -0
  102. endoreg_db/data/finding_classification_choice/colon_lesion_planarity_default.yaml +49 -0
  103. endoreg_db/data/finding_classification_choice/colon_lesion_sano.yaml +14 -0
  104. endoreg_db/data/finding_classification_choice/colon_lesion_surface_intact_default.yaml +36 -0
  105. endoreg_db/data/finding_classification_choice/colonoscopy_location.yaml +229 -0
  106. endoreg_db/data/finding_classification_choice/colonoscopy_not_complete_reason.yaml +19 -0
  107. endoreg_db/data/finding_classification_choice/colonoscopy_size.yaml +82 -0
  108. endoreg_db/data/finding_classification_choice/colonoscopy_summary_worst_finding.yaml +15 -0
  109. endoreg_db/data/finding_classification_choice/complication_generic_types.yaml +15 -0
  110. endoreg_db/data/finding_classification_choice/examination_setting_generic_types.yaml +15 -0
  111. endoreg_db/data/finding_classification_choice/histology.yaml +24 -0
  112. endoreg_db/data/finding_classification_choice/histology_polyp.yaml +20 -0
  113. endoreg_db/data/finding_classification_choice/outcome.yaml +19 -0
  114. endoreg_db/data/finding_classification_choice/yes_no_na.yaml +11 -0
  115. endoreg_db/data/finding_classification_type/colonoscopy_basic.yaml +48 -0
  116. endoreg_db/data/finding_intervention/endoscopy.yaml +43 -0
  117. endoreg_db/data/finding_intervention/endoscopy_colonoscopy.yaml +168 -0
  118. endoreg_db/data/finding_intervention/endoscopy_egd.yaml +128 -0
  119. endoreg_db/data/finding_intervention/endoscopy_ercp.yaml +32 -0
  120. endoreg_db/data/finding_intervention/endoscopy_eus_lower.yaml +9 -0
  121. endoreg_db/data/finding_intervention/endoscopy_eus_upper.yaml +36 -0
  122. endoreg_db/data/finding_intervention_type/endoscopy.yaml +15 -0
  123. endoreg_db/data/finding_morphology_classification_type/colonoscopy.yaml +79 -0
  124. endoreg_db/data/finding_type/data.yaml +43 -0
  125. endoreg_db/data/gender/data.yaml +42 -18
  126. endoreg_db/data/information_source/annotation.yaml +6 -0
  127. endoreg_db/data/information_source/data.yaml +30 -30
  128. endoreg_db/data/information_source/endoscopy_guidelines.yaml +7 -0
  129. endoreg_db/data/information_source/medication.yaml +5 -5
  130. endoreg_db/data/information_source/prediction.yaml +7 -0
  131. endoreg_db/data/information_source_type/data.yaml +8 -0
  132. endoreg_db/data/lab_value/cardiac_enzymes.yaml +37 -31
  133. endoreg_db/data/lab_value/coagulation.yaml +54 -49
  134. endoreg_db/data/lab_value/electrolytes.yaml +228 -190
  135. endoreg_db/data/lab_value/gastrointestinal_function.yaml +133 -121
  136. endoreg_db/data/lab_value/hematology.yaml +184 -169
  137. endoreg_db/data/lab_value/hormones.yaml +59 -53
  138. endoreg_db/data/lab_value/lipids.yaml +53 -44
  139. endoreg_db/data/lab_value/misc.yaml +76 -30
  140. endoreg_db/data/lab_value/renal_function.yaml +12 -11
  141. endoreg_db/data/log_type/data.yaml +57 -0
  142. endoreg_db/data/lx_client_tag/base.yaml +54 -0
  143. endoreg_db/data/lx_client_type/base.yaml +30 -0
  144. endoreg_db/data/lx_permission/base.yaml +24 -0
  145. endoreg_db/data/lx_permission/endoreg.yaml +52 -0
  146. endoreg_db/data/medication/anticoagulation.yaml +64 -64
  147. endoreg_db/data/medication/tah.yaml +69 -69
  148. endoreg_db/data/medication_indication/anticoagulation.yaml +115 -120
  149. endoreg_db/data/medication_indication_type/data.yaml +10 -10
  150. endoreg_db/data/medication_indication_type/thrombembolism.yaml +40 -40
  151. endoreg_db/data/medication_intake_time/base.yaml +30 -30
  152. endoreg_db/data/medication_schedule/apixaban.yaml +94 -94
  153. endoreg_db/data/medication_schedule/ass.yaml +12 -12
  154. endoreg_db/data/medication_schedule/enoxaparin.yaml +26 -26
  155. endoreg_db/data/names_first/first_names.yaml +54 -0
  156. endoreg_db/data/names_last/last_names.yaml +51 -0
  157. endoreg_db/data/network_device/data.yaml +59 -0
  158. endoreg_db/data/network_device_type/data.yaml +12 -0
  159. endoreg_db/data/organ/data.yaml +29 -0
  160. endoreg_db/data/patient_lab_sample_type/generic.yaml +5 -5
  161. endoreg_db/data/pdf_type/data.yaml +46 -28
  162. endoreg_db/data/product/green_endoscopy_dashboard_Product.yaml +66 -66
  163. endoreg_db/data/product_group/green_endoscopy_dashboard_ProductGroup.yaml +33 -33
  164. endoreg_db/data/product_material/green_endoscopy_dashboard_ProductMaterial.yaml +308 -308
  165. endoreg_db/data/product_weight/green_endoscopy_dashboard_ProductWeight.yaml +88 -88
  166. endoreg_db/data/profession/data.yaml +70 -70
  167. endoreg_db/data/qualification/endoscopy.yaml +36 -0
  168. endoreg_db/data/qualification/m2.yaml +39 -0
  169. endoreg_db/data/qualification/outpatient_clinic.yaml +35 -0
  170. endoreg_db/data/qualification/sonography.yaml +36 -0
  171. endoreg_db/data/qualification_type/base.yaml +29 -0
  172. endoreg_db/data/reference_product/green_endoscopy_dashboard_ReferenceProduct.yaml +55 -55
  173. endoreg_db/data/report_reader_flag/rkh-histology-generic.yaml +10 -0
  174. endoreg_db/data/report_reader_flag/ukw-examination-generic.yaml +30 -26
  175. endoreg_db/data/report_reader_flag/ukw-histology-generic.yaml +24 -19
  176. endoreg_db/data/requirement/age.yaml +26 -0
  177. endoreg_db/data/requirement/colonoscopy_baseline_austria.yaml +45 -0
  178. endoreg_db/data/requirement/disease_cardiovascular.yaml +79 -0
  179. endoreg_db/data/requirement/disease_classification_choice_cardiovascular.yaml +41 -0
  180. endoreg_db/data/requirement/disease_hepatology.yaml +12 -0
  181. endoreg_db/data/requirement/disease_misc.yaml +12 -0
  182. endoreg_db/data/requirement/disease_renal.yaml +96 -0
  183. endoreg_db/data/requirement/endoscopy_bleeding_risk.yaml +59 -0
  184. endoreg_db/data/requirement/event_cardiology.yaml +251 -0
  185. endoreg_db/data/requirement/event_requirements.yaml +145 -0
  186. endoreg_db/data/requirement/finding_colon_polyp.yaml +50 -0
  187. endoreg_db/data/requirement/gender.yaml +25 -0
  188. endoreg_db/data/requirement/lab_value.yaml +441 -0
  189. endoreg_db/data/requirement/medication.yaml +93 -0
  190. endoreg_db/data/requirement_operator/age.yaml +13 -0
  191. endoreg_db/data/requirement_operator/lab_operators.yaml +129 -0
  192. endoreg_db/data/requirement_operator/model_operators.yaml +96 -0
  193. endoreg_db/data/requirement_set/01_endoscopy_generic.yaml +48 -0
  194. endoreg_db/data/requirement_set/colonoscopy_austria_screening.yaml +57 -0
  195. endoreg_db/data/requirement_set/endoscopy_bleeding_risk.yaml +52 -0
  196. endoreg_db/data/requirement_set_type/data.yaml +20 -0
  197. endoreg_db/data/requirement_type/requirement_types.yaml +165 -0
  198. endoreg_db/data/resource/green_endoscopy_dashboard_Resource.yaml +15 -15
  199. endoreg_db/data/risk/bleeding.yaml +26 -0
  200. endoreg_db/data/risk/thrombosis.yaml +37 -0
  201. endoreg_db/data/risk_type/data.yaml +27 -0
  202. endoreg_db/data/setup_config.yaml +38 -0
  203. endoreg_db/data/shift/endoscopy.yaml +21 -0
  204. endoreg_db/data/shift/m2.yaml +0 -0
  205. endoreg_db/data/shift_type/base.yaml +35 -0
  206. endoreg_db/data/tag/requirement_set_tags.yaml +11 -0
  207. endoreg_db/data/transport_route/green_endoscopy_dashboard_TransportRoute.yaml +12 -12
  208. endoreg_db/data/unit/concentration.yaml +115 -92
  209. endoreg_db/data/unit/data.yaml +17 -17
  210. endoreg_db/data/unit/length.yaml +30 -30
  211. endoreg_db/data/unit/misc.yaml +19 -19
  212. endoreg_db/data/unit/rate.yaml +5 -5
  213. endoreg_db/data/unit/time.yaml +48 -13
  214. endoreg_db/data/unit/volume.yaml +35 -35
  215. endoreg_db/data/unit/weight.yaml +37 -37
  216. endoreg_db/data/waste/data.yaml +11 -11
  217. endoreg_db/exceptions.py +19 -0
  218. endoreg_db/factories/__init__.py +0 -0
  219. endoreg_db/forms/__init__.py +5 -3
  220. endoreg_db/forms/examination_form.py +11 -0
  221. endoreg_db/forms/patient_finding_intervention_form.py +18 -0
  222. endoreg_db/forms/patient_form.py +27 -0
  223. endoreg_db/forms/questionnaires/__init__.py +1 -1
  224. endoreg_db/forms/questionnaires/tto_questionnaire.py +23 -23
  225. endoreg_db/forms/settings/__init__.py +8 -8
  226. endoreg_db/forms/unit.py +5 -5
  227. endoreg_db/helpers/__init__.py +0 -0
  228. endoreg_db/helpers/count_db.py +45 -0
  229. endoreg_db/helpers/data_loader.py +208 -0
  230. endoreg_db/helpers/default_objects.py +378 -0
  231. endoreg_db/helpers/download_segmentation_model.py +31 -0
  232. endoreg_db/helpers/interact.py +6 -0
  233. endoreg_db/helpers/test_video_helper.py +119 -0
  234. endoreg_db/logger_conf.py +140 -0
  235. endoreg_db/management/__init__.py +1 -0
  236. endoreg_db/management/commands/__init__.py +1 -0
  237. endoreg_db/management/commands/anonymize_video.py +0 -0
  238. endoreg_db/management/commands/check_auth.py +125 -0
  239. endoreg_db/management/commands/create_model_meta_from_huggingface.py +115 -0
  240. endoreg_db/management/commands/create_multilabel_model_meta.py +214 -0
  241. endoreg_db/management/commands/fix_missing_patient_data.py +172 -0
  242. endoreg_db/management/commands/fix_video_paths.py +165 -0
  243. endoreg_db/management/commands/import_fallback_video.py +203 -0
  244. endoreg_db/management/commands/import_report.py +298 -0
  245. endoreg_db/management/commands/import_video.py +423 -0
  246. endoreg_db/management/commands/import_video_with_classification.py +367 -0
  247. endoreg_db/management/commands/init_default_ai_model.py +112 -0
  248. endoreg_db/management/commands/load_ai_model_data.py +77 -45
  249. endoreg_db/management/commands/load_ai_model_label_data.py +59 -0
  250. endoreg_db/management/commands/load_base_db_data.py +192 -128
  251. endoreg_db/management/commands/load_center_data.py +68 -43
  252. endoreg_db/management/commands/{load_medication_intake_time_data.py → load_contraindication_data.py} +40 -40
  253. endoreg_db/management/commands/load_disease_classification_choices_data.py +40 -40
  254. endoreg_db/management/commands/load_disease_classification_data.py +40 -40
  255. endoreg_db/management/commands/load_disease_data.py +61 -39
  256. endoreg_db/management/commands/load_distribution_data.py +65 -65
  257. endoreg_db/management/commands/{load_endoscope_type_data.py → load_endoscope_data.py} +67 -44
  258. endoreg_db/management/commands/load_event_data.py +40 -40
  259. endoreg_db/management/commands/load_examination_data.py +74 -74
  260. endoreg_db/management/commands/load_examination_indication_data.py +86 -0
  261. endoreg_db/management/commands/load_finding_data.py +128 -0
  262. endoreg_db/management/commands/load_gender_data.py +43 -43
  263. endoreg_db/management/commands/load_green_endoscopy_wuerzburg_data.py +131 -132
  264. endoreg_db/management/commands/load_information_source.py +50 -44
  265. endoreg_db/management/commands/load_lab_value_data.py +49 -49
  266. endoreg_db/management/commands/load_medication_data.py +103 -41
  267. endoreg_db/management/commands/load_name_data.py +37 -0
  268. endoreg_db/management/commands/{load_medication_indication_type_data.py → load_organ_data.py} +42 -40
  269. endoreg_db/management/commands/load_pdf_type_data.py +60 -60
  270. endoreg_db/management/commands/load_profession_data.py +43 -43
  271. endoreg_db/management/commands/load_qualification_data.py +59 -0
  272. endoreg_db/management/commands/{load_report_reader_flag.py → load_report_reader_flag_data.py} +45 -45
  273. endoreg_db/management/commands/load_requirement_data.py +180 -0
  274. endoreg_db/management/commands/load_risk_data.py +56 -0
  275. endoreg_db/management/commands/load_shift_data.py +60 -0
  276. endoreg_db/management/commands/load_tag_data.py +57 -0
  277. endoreg_db/management/commands/load_unit_data.py +45 -45
  278. endoreg_db/management/commands/load_user_groups.py +28 -28
  279. endoreg_db/management/commands/register_ai_model.py +64 -65
  280. endoreg_db/management/commands/reset_celery_schedule.py +9 -9
  281. endoreg_db/management/commands/setup_endoreg_db.py +381 -0
  282. endoreg_db/management/commands/start_filewatcher.py +106 -0
  283. endoreg_db/management/commands/storage_management.py +548 -0
  284. endoreg_db/management/commands/summarize_db_content.py +189 -0
  285. endoreg_db/management/commands/validate_video.py +204 -0
  286. endoreg_db/management/commands/validate_video_files.py +161 -0
  287. endoreg_db/management/commands/video_validation.py +22 -0
  288. endoreg_db/mermaid/Overall_flow_patient_finding_intervention.md +10 -0
  289. endoreg_db/mermaid/anonymized_image_annotation.md +20 -0
  290. endoreg_db/mermaid/binary_classification_annotation.md +50 -0
  291. endoreg_db/mermaid/classification.md +8 -0
  292. endoreg_db/mermaid/examination.md +8 -0
  293. endoreg_db/mermaid/findings.md +7 -0
  294. endoreg_db/mermaid/image_classification.md +28 -0
  295. endoreg_db/mermaid/interventions.md +8 -0
  296. endoreg_db/mermaid/morphology.md +8 -0
  297. endoreg_db/mermaid/patient_creation.md +14 -0
  298. endoreg_db/mermaid/video_segmentation_annotation.md +17 -0
  299. endoreg_db/migrations/0001_initial.py +1857 -582
  300. endoreg_db/migrations/0002_add_video_correction_models.py +52 -0
  301. endoreg_db/migrations/0003_add_center_display_name.py +30 -0
  302. endoreg_db/models/__init__.py +359 -74
  303. endoreg_db/models/administration/__init__.py +116 -0
  304. endoreg_db/models/administration/ai/__init__.py +9 -0
  305. endoreg_db/models/administration/ai/active_model.py +35 -0
  306. endoreg_db/models/administration/ai/ai_model.py +156 -0
  307. endoreg_db/models/{ai_model → administration/ai}/model_type.py +41 -26
  308. endoreg_db/models/administration/case/__init__.py +19 -0
  309. endoreg_db/models/administration/case/case.py +114 -0
  310. endoreg_db/models/{case_template → administration/case/case_template}/__init__.py +15 -6
  311. endoreg_db/models/{case_template → administration/case/case_template}/case_template.py +125 -81
  312. endoreg_db/models/{case_template → administration/case/case_template}/case_template_rule.py +269 -276
  313. endoreg_db/models/{case_template → administration/case/case_template}/case_template_rule_value.py +86 -73
  314. endoreg_db/models/{case_template → administration/case/case_template}/case_template_type.py +26 -28
  315. endoreg_db/models/{center → administration/center}/__init__.py +13 -4
  316. endoreg_db/models/administration/center/center.py +67 -0
  317. endoreg_db/models/administration/center/center_product.py +64 -0
  318. endoreg_db/models/administration/center/center_resource.py +49 -0
  319. endoreg_db/models/administration/center/center_shift.py +88 -0
  320. endoreg_db/models/administration/center/center_waste.py +30 -0
  321. endoreg_db/models/administration/permissions/__init__.py +44 -0
  322. endoreg_db/models/administration/person/__init__.py +24 -0
  323. endoreg_db/models/administration/person/employee/__init__.py +3 -0
  324. endoreg_db/models/administration/person/employee/employee.py +35 -0
  325. endoreg_db/models/administration/person/employee/employee_qualification.py +39 -0
  326. endoreg_db/models/administration/person/employee/employee_type.py +42 -0
  327. endoreg_db/models/administration/person/examiner/__init__.py +4 -0
  328. endoreg_db/models/administration/person/examiner/examiner.py +54 -0
  329. endoreg_db/models/administration/person/names/__init__.py +0 -0
  330. endoreg_db/models/{persons → administration/person/names}/first_name.py +18 -18
  331. endoreg_db/models/{persons → administration/person/names}/last_name.py +18 -19
  332. endoreg_db/models/administration/person/patient/__init__.py +5 -0
  333. endoreg_db/models/administration/person/patient/patient.py +460 -0
  334. endoreg_db/models/{persons → administration/person}/person.py +31 -31
  335. endoreg_db/models/administration/person/profession/__init__.py +24 -0
  336. endoreg_db/models/administration/person/user/__init__.py +5 -0
  337. endoreg_db/models/administration/person/user/portal_user_information.py +37 -0
  338. endoreg_db/models/administration/product/__init__.py +14 -0
  339. endoreg_db/models/administration/product/product.py +97 -0
  340. endoreg_db/models/administration/product/product_group.py +39 -0
  341. endoreg_db/models/administration/product/product_material.py +54 -0
  342. endoreg_db/models/{product → administration/product}/product_weight.py +47 -26
  343. endoreg_db/models/{product → administration/product}/reference_product.py +130 -99
  344. endoreg_db/models/administration/qualification/__init__.py +7 -0
  345. endoreg_db/models/administration/qualification/qualification.py +37 -0
  346. endoreg_db/models/administration/qualification/qualification_type.py +35 -0
  347. endoreg_db/models/administration/shift/__init__.py +9 -0
  348. endoreg_db/models/administration/shift/scheduled_days.py +69 -0
  349. endoreg_db/models/administration/shift/shift.py +51 -0
  350. endoreg_db/models/administration/shift/shift_type.py +108 -0
  351. endoreg_db/models/label/__init__.py +24 -1
  352. endoreg_db/models/label/annotation/__init__.py +12 -0
  353. endoreg_db/models/label/annotation/image_classification.py +84 -0
  354. endoreg_db/models/label/annotation/video_segmentation_annotation.py +66 -0
  355. endoreg_db/models/label/label.py +83 -84
  356. endoreg_db/models/label/label_set.py +53 -0
  357. endoreg_db/models/label/label_type.py +29 -0
  358. endoreg_db/models/label/label_video_segment/__init__.py +3 -0
  359. endoreg_db/models/label/label_video_segment/_create_from_video.py +41 -0
  360. endoreg_db/models/label/label_video_segment/label_video_segment.py +511 -0
  361. endoreg_db/models/label/video_segmentation_label.py +31 -0
  362. endoreg_db/models/label/video_segmentation_labelset.py +27 -0
  363. endoreg_db/models/media/__init__.py +16 -0
  364. endoreg_db/models/media/frame/__init__.py +3 -0
  365. endoreg_db/models/media/frame/frame.py +111 -0
  366. endoreg_db/models/media/pdf/__init__.py +11 -0
  367. endoreg_db/models/media/pdf/raw_pdf.py +757 -0
  368. endoreg_db/models/media/pdf/report_file.py +162 -0
  369. endoreg_db/models/media/pdf/report_reader/__init__.py +7 -0
  370. endoreg_db/models/media/pdf/report_reader/report_reader_config.py +77 -0
  371. endoreg_db/models/{report_reader → media/pdf/report_reader}/report_reader_flag.py +19 -19
  372. endoreg_db/models/media/video/__init__.py +8 -0
  373. endoreg_db/models/media/video/create_from_file.py +358 -0
  374. endoreg_db/models/media/video/pipe_1.py +213 -0
  375. endoreg_db/models/media/video/pipe_2.py +105 -0
  376. endoreg_db/models/media/video/refactor_plan.md +0 -0
  377. endoreg_db/models/media/video/video_file.py +825 -0
  378. endoreg_db/models/media/video/video_file_ai.py +443 -0
  379. endoreg_db/models/media/video/video_file_anonymize.py +349 -0
  380. endoreg_db/models/media/video/video_file_frames/__init__.py +47 -0
  381. endoreg_db/models/media/video/video_file_frames/_bulk_create_frames.py +22 -0
  382. endoreg_db/models/media/video/video_file_frames/_create_frame_object.py +23 -0
  383. endoreg_db/models/media/video/video_file_frames/_delete_frames.py +104 -0
  384. endoreg_db/models/media/video/video_file_frames/_extract_frames.py +174 -0
  385. endoreg_db/models/media/video/video_file_frames/_get_frame.py +28 -0
  386. endoreg_db/models/media/video/video_file_frames/_get_frame_number.py +27 -0
  387. endoreg_db/models/media/video/video_file_frames/_get_frame_path.py +20 -0
  388. endoreg_db/models/media/video/video_file_frames/_get_frame_paths.py +27 -0
  389. endoreg_db/models/media/video/video_file_frames/_get_frame_range.py +34 -0
  390. endoreg_db/models/media/video/video_file_frames/_get_frames.py +27 -0
  391. endoreg_db/models/media/video/video_file_frames/_initialize_frames.py +129 -0
  392. endoreg_db/models/media/video/video_file_frames/_manage_frame_range.py +141 -0
  393. endoreg_db/models/media/video/video_file_frames/_mark_frames_extracted_status.py +65 -0
  394. endoreg_db/models/media/video/video_file_frames.py +0 -0
  395. endoreg_db/models/media/video/video_file_io.py +168 -0
  396. endoreg_db/models/media/video/video_file_meta/__init__.py +22 -0
  397. endoreg_db/models/media/video/video_file_meta/get_crop_template.py +45 -0
  398. endoreg_db/models/media/video/video_file_meta/get_endo_roi.py +39 -0
  399. endoreg_db/models/media/video/video_file_meta/get_fps.py +147 -0
  400. endoreg_db/models/media/video/video_file_meta/initialize_video_specs.py +143 -0
  401. endoreg_db/models/media/video/video_file_meta/text_meta.py +134 -0
  402. endoreg_db/models/media/video/video_file_meta/video_meta.py +70 -0
  403. endoreg_db/models/media/video/video_file_segments.py +209 -0
  404. endoreg_db/models/media/video/video_metadata.py +65 -0
  405. endoreg_db/models/media/video/video_processing.py +152 -0
  406. endoreg_db/models/medical/__init__.py +146 -0
  407. endoreg_db/models/medical/contraindication/__init__.py +17 -0
  408. endoreg_db/models/medical/disease.py +156 -0
  409. endoreg_db/models/medical/event.py +137 -0
  410. endoreg_db/models/medical/examination/__init__.py +9 -0
  411. endoreg_db/models/medical/examination/examination.py +148 -0
  412. endoreg_db/models/medical/examination/examination_indication.py +278 -0
  413. endoreg_db/models/medical/examination/examination_time.py +49 -0
  414. endoreg_db/models/medical/examination/examination_time_type.py +41 -0
  415. endoreg_db/models/medical/examination/examination_type.py +48 -0
  416. endoreg_db/models/medical/finding/__init__.py +18 -0
  417. endoreg_db/models/medical/finding/finding.py +96 -0
  418. endoreg_db/models/medical/finding/finding_classification.py +142 -0
  419. endoreg_db/models/medical/finding/finding_intervention.py +52 -0
  420. endoreg_db/models/medical/finding/finding_type.py +35 -0
  421. endoreg_db/models/medical/hardware/__init__.py +8 -0
  422. endoreg_db/models/medical/hardware/endoscope.py +65 -0
  423. endoreg_db/models/{hardware → medical/hardware}/endoscopy_processor.py +182 -143
  424. endoreg_db/models/medical/laboratory/__init__.py +5 -0
  425. endoreg_db/models/medical/laboratory/lab_value.py +419 -0
  426. endoreg_db/models/medical/medication/__init__.py +19 -0
  427. endoreg_db/models/medical/medication/medication.py +31 -0
  428. endoreg_db/models/medical/medication/medication_indication.py +50 -0
  429. endoreg_db/models/medical/medication/medication_indication_type.py +39 -0
  430. endoreg_db/models/medical/medication/medication_intake_time.py +44 -0
  431. endoreg_db/models/medical/medication/medication_schedule.py +45 -0
  432. endoreg_db/models/medical/organ/__init__.py +35 -0
  433. endoreg_db/models/medical/patient/__init__.py +56 -0
  434. endoreg_db/models/medical/patient/medication_examples.py +38 -0
  435. endoreg_db/models/medical/patient/patient_disease.py +63 -0
  436. endoreg_db/models/medical/patient/patient_event.py +75 -0
  437. endoreg_db/models/medical/patient/patient_examination.py +249 -0
  438. endoreg_db/models/medical/patient/patient_examination_indication.py +44 -0
  439. endoreg_db/models/medical/patient/patient_finding.py +357 -0
  440. endoreg_db/models/medical/patient/patient_finding_classification.py +207 -0
  441. endoreg_db/models/medical/patient/patient_finding_intervention.py +40 -0
  442. endoreg_db/models/medical/patient/patient_lab_sample.py +148 -0
  443. endoreg_db/models/{persons → medical}/patient/patient_lab_value.py +222 -176
  444. endoreg_db/models/medical/patient/patient_medication.py +104 -0
  445. endoreg_db/models/medical/patient/patient_medication_schedule.py +136 -0
  446. endoreg_db/models/medical/risk/__init__.py +7 -0
  447. endoreg_db/models/medical/risk/risk.py +72 -0
  448. endoreg_db/models/medical/risk/risk_type.py +51 -0
  449. endoreg_db/models/metadata/__init__.py +19 -0
  450. endoreg_db/models/metadata/frame_ocr_result.py +0 -0
  451. endoreg_db/models/metadata/model_meta.py +206 -0
  452. endoreg_db/models/metadata/model_meta_logic.py +343 -0
  453. endoreg_db/models/{data_file/metadata → metadata}/pdf_meta.py +89 -70
  454. endoreg_db/models/metadata/sensitive_meta.py +288 -0
  455. endoreg_db/models/metadata/sensitive_meta_logic.py +1048 -0
  456. endoreg_db/models/metadata/video_meta.py +332 -0
  457. endoreg_db/models/metadata/video_prediction_logic.py +190 -0
  458. endoreg_db/models/metadata/video_prediction_meta.py +270 -0
  459. endoreg_db/models/other/__init__.py +40 -5
  460. endoreg_db/models/other/distribution/__init__.py +44 -0
  461. endoreg_db/models/other/distribution/base_value_distribution.py +20 -0
  462. endoreg_db/models/other/distribution/date_value_distribution.py +89 -0
  463. endoreg_db/models/other/distribution/multiple_categorical_value_distribution.py +32 -0
  464. endoreg_db/models/other/distribution/numeric_value_distribution.py +125 -0
  465. endoreg_db/models/other/distribution/single_categorical_value_distribution.py +22 -0
  466. endoreg_db/models/other/emission/__init__.py +5 -0
  467. endoreg_db/models/other/emission/emission_factor.py +94 -0
  468. endoreg_db/models/{persons → other}/gender.py +27 -22
  469. endoreg_db/models/other/information_source.py +159 -0
  470. endoreg_db/models/other/material.py +28 -16
  471. endoreg_db/models/other/resource.py +21 -17
  472. endoreg_db/models/other/tag.py +27 -0
  473. endoreg_db/models/other/transport_route.py +33 -21
  474. endoreg_db/models/{unit.py → other/unit.py} +32 -22
  475. endoreg_db/models/other/waste.py +27 -20
  476. endoreg_db/models/requirement/__init__.py +11 -0
  477. endoreg_db/models/requirement/requirement.py +767 -0
  478. endoreg_db/models/requirement/requirement_evaluation/__init__.py +6 -0
  479. endoreg_db/models/requirement/requirement_evaluation/get_values.py +40 -0
  480. endoreg_db/models/requirement/requirement_evaluation/operator_evaluation_models.py +9 -0
  481. endoreg_db/models/requirement/requirement_evaluation/requirement_type_parser.py +95 -0
  482. endoreg_db/models/requirement/requirement_operator.py +176 -0
  483. endoreg_db/models/requirement/requirement_set.py +287 -0
  484. endoreg_db/models/rule/__init__.py +13 -0
  485. endoreg_db/models/{rules → rule}/rule.py +27 -24
  486. endoreg_db/models/{rules → rule}/rule_applicator.py +224 -224
  487. endoreg_db/models/{rules → rule}/rule_attribute_dtype.py +16 -18
  488. endoreg_db/models/{rules → rule}/rule_type.py +19 -21
  489. endoreg_db/models/{rules → rule}/ruleset.py +17 -19
  490. endoreg_db/models/state/__init__.py +12 -0
  491. endoreg_db/models/state/abstract.py +11 -0
  492. endoreg_db/models/state/audit_ledger.py +150 -0
  493. endoreg_db/models/state/label_video_segment.py +22 -0
  494. endoreg_db/models/state/raw_pdf.py +187 -0
  495. endoreg_db/models/state/sensitive_meta.py +46 -0
  496. endoreg_db/models/state/video.py +232 -0
  497. endoreg_db/models/upload_job.py +99 -0
  498. endoreg_db/models/utils.py +135 -0
  499. endoreg_db/queries/__init__.py +4 -4
  500. endoreg_db/queries/annotations/__init__.py +2 -2
  501. endoreg_db/queries/annotations/legacy.py +158 -159
  502. endoreg_db/renames.yml +8 -0
  503. endoreg_db/root_urls.py +9 -0
  504. endoreg_db/schemas/__init__.py +0 -0
  505. endoreg_db/schemas/examination_evaluation.py +27 -0
  506. endoreg_db/serializers/Frames_NICE_and_PARIS_classifications.py +775 -0
  507. endoreg_db/serializers/__init__.py +118 -10
  508. endoreg_db/serializers/_old/raw_pdf_meta_validation.py +223 -0
  509. endoreg_db/serializers/_old/raw_video_meta_validation.py +179 -0
  510. endoreg_db/serializers/_old/video.py +71 -0
  511. endoreg_db/serializers/administration/__init__.py +14 -0
  512. endoreg_db/serializers/administration/ai/__init__.py +10 -0
  513. endoreg_db/serializers/administration/ai/active_model.py +10 -0
  514. endoreg_db/serializers/administration/ai/ai_model.py +18 -0
  515. endoreg_db/serializers/administration/ai/model_type.py +10 -0
  516. endoreg_db/serializers/administration/center.py +9 -0
  517. endoreg_db/serializers/administration/gender.py +9 -0
  518. endoreg_db/serializers/anonymization.py +69 -0
  519. endoreg_db/serializers/evaluation/examination_evaluation.py +1 -0
  520. endoreg_db/serializers/examination/__init__.py +10 -0
  521. endoreg_db/serializers/examination/base.py +46 -0
  522. endoreg_db/serializers/examination/dropdown.py +21 -0
  523. endoreg_db/serializers/examination_serializer.py +12 -0
  524. endoreg_db/serializers/finding/__init__.py +5 -0
  525. endoreg_db/serializers/finding/finding.py +54 -0
  526. endoreg_db/serializers/finding_classification/__init__.py +7 -0
  527. endoreg_db/serializers/finding_classification/choice.py +19 -0
  528. endoreg_db/serializers/finding_classification/classification.py +13 -0
  529. endoreg_db/serializers/label/__init__.py +7 -0
  530. endoreg_db/serializers/label/image_classification_annotation.py +62 -0
  531. endoreg_db/serializers/label/label.py +15 -0
  532. endoreg_db/serializers/label_video_segment/__init__.py +7 -0
  533. endoreg_db/serializers/label_video_segment/_lvs_create.py +149 -0
  534. endoreg_db/serializers/label_video_segment/_lvs_update.py +138 -0
  535. endoreg_db/serializers/label_video_segment/_lvs_validate.py +149 -0
  536. endoreg_db/serializers/label_video_segment/label_video_segment.py +344 -0
  537. endoreg_db/serializers/label_video_segment/label_video_segment_annotation.py +99 -0
  538. endoreg_db/serializers/label_video_segment/label_video_segment_update.py +163 -0
  539. endoreg_db/serializers/meta/__init__.py +19 -0
  540. endoreg_db/serializers/meta/pdf_file_meta_extraction.py +115 -0
  541. endoreg_db/serializers/meta/report_meta.py +53 -0
  542. endoreg_db/serializers/meta/sensitive_meta_detail.py +162 -0
  543. endoreg_db/serializers/meta/sensitive_meta_update.py +148 -0
  544. endoreg_db/serializers/meta/sensitive_meta_verification.py +59 -0
  545. endoreg_db/serializers/meta/video_meta.py +39 -0
  546. endoreg_db/serializers/misc/__init__.py +14 -0
  547. endoreg_db/serializers/misc/file_overview.py +182 -0
  548. endoreg_db/serializers/misc/sensitive_patient_data.py +120 -0
  549. endoreg_db/serializers/misc/stats.py +33 -0
  550. endoreg_db/serializers/misc/translatable_field_mix_in.py +44 -0
  551. endoreg_db/serializers/misc/upload_job.py +71 -0
  552. endoreg_db/serializers/patient/__init__.py +11 -0
  553. endoreg_db/serializers/patient/patient.py +86 -0
  554. endoreg_db/serializers/patient/patient_dropdown.py +27 -0
  555. endoreg_db/serializers/patient_examination/__init__.py +7 -0
  556. endoreg_db/serializers/patient_examination/patient_examination.py +141 -0
  557. endoreg_db/serializers/patient_finding/__init__.py +15 -0
  558. endoreg_db/serializers/patient_finding/patient_finding.py +31 -0
  559. endoreg_db/serializers/patient_finding/patient_finding_classification.py +39 -0
  560. endoreg_db/serializers/patient_finding/patient_finding_detail.py +53 -0
  561. endoreg_db/serializers/patient_finding/patient_finding_intervention.py +26 -0
  562. endoreg_db/serializers/patient_finding/patient_finding_list.py +41 -0
  563. endoreg_db/serializers/patient_finding/patient_finding_write.py +126 -0
  564. endoreg_db/serializers/pdf/__init__.py +5 -0
  565. endoreg_db/serializers/pdf/anony_text_validation.py +85 -0
  566. endoreg_db/serializers/report/__init__.py +9 -0
  567. endoreg_db/serializers/report/mixins.py +45 -0
  568. endoreg_db/serializers/report/report.py +105 -0
  569. endoreg_db/serializers/report/report_list.py +22 -0
  570. endoreg_db/serializers/report/secure_file_url.py +26 -0
  571. endoreg_db/serializers/requirements/requirement_schema.py +25 -0
  572. endoreg_db/serializers/requirements/requirement_sets.py +29 -0
  573. endoreg_db/serializers/sensitive_meta_serializer.py +282 -0
  574. endoreg_db/serializers/video/__init__.py +7 -0
  575. endoreg_db/serializers/video/segmentation.py +263 -0
  576. endoreg_db/serializers/video/video_file_brief.py +10 -0
  577. endoreg_db/serializers/video/video_file_detail.py +83 -0
  578. endoreg_db/serializers/video/video_file_list.py +67 -0
  579. endoreg_db/serializers/video/video_metadata.py +105 -0
  580. endoreg_db/serializers/video/video_processing_history.py +153 -0
  581. endoreg_db/serializers/video_examination.py +198 -0
  582. endoreg_db/services/__init__.py +5 -0
  583. endoreg_db/services/anonymization.py +223 -0
  584. endoreg_db/services/examination_evaluation.py +149 -0
  585. endoreg_db/services/finding_description_service.py +0 -0
  586. endoreg_db/services/lookup_service.py +411 -0
  587. endoreg_db/services/lookup_store.py +266 -0
  588. endoreg_db/services/pdf_import.py +1382 -0
  589. endoreg_db/services/polling_coordinator.py +288 -0
  590. endoreg_db/services/pseudonym_service.py +89 -0
  591. endoreg_db/services/requirements_object.py +147 -0
  592. endoreg_db/services/segment_sync.py +155 -0
  593. endoreg_db/services/storage_aware_video_processor.py +344 -0
  594. endoreg_db/services/video_import.py +1259 -0
  595. endoreg_db/tasks/upload_tasks.py +207 -0
  596. endoreg_db/tasks/video_ingest.py +157 -0
  597. endoreg_db/tasks/video_processing_tasks.py +327 -0
  598. endoreg_db/templates/admin/patient_finding_intervention.html +253 -0
  599. endoreg_db/templates/admin/start_examination.html +12 -0
  600. endoreg_db/templates/timeline.html +176 -0
  601. endoreg_db/urls/__init__.py +83 -0
  602. endoreg_db/urls/anonymization.py +32 -0
  603. endoreg_db/urls/auth.py +16 -0
  604. endoreg_db/urls/classification.py +39 -0
  605. endoreg_db/urls/examination.py +54 -0
  606. endoreg_db/urls/files.py +6 -0
  607. endoreg_db/urls/label_video_segment_validate.py +33 -0
  608. endoreg_db/urls/label_video_segments.py +46 -0
  609. endoreg_db/urls/media.py +227 -0
  610. endoreg_db/urls/patient.py +19 -0
  611. endoreg_db/urls/report.py +48 -0
  612. endoreg_db/urls/requirements.py +13 -0
  613. endoreg_db/urls/sensitive_meta.py +0 -0
  614. endoreg_db/urls/stats.py +46 -0
  615. endoreg_db/urls/upload.py +20 -0
  616. endoreg_db/urls/video.py +61 -0
  617. endoreg_db/urls.py +9 -0
  618. endoreg_db/utils/__init__.py +88 -1
  619. endoreg_db/utils/ai/__init__.py +9 -0
  620. endoreg_db/{models/ai_model/utils.py → utils/ai/get.py} +5 -8
  621. endoreg_db/utils/ai/inference_dataset.py +52 -0
  622. endoreg_db/utils/ai/multilabel_classification_net.py +159 -0
  623. endoreg_db/utils/ai/postprocess.py +63 -0
  624. endoreg_db/utils/ai/predict.py +291 -0
  625. endoreg_db/utils/ai/preprocess.py +68 -0
  626. endoreg_db/utils/calc_duration_seconds.py +24 -0
  627. endoreg_db/utils/case_generator/__init__.py +0 -0
  628. endoreg_db/utils/case_generator/case_generator.py +159 -0
  629. endoreg_db/utils/case_generator/lab_sample_factory.py +33 -0
  630. endoreg_db/utils/case_generator/utils.py +30 -0
  631. endoreg_db/utils/check_video_files.py +148 -0
  632. endoreg_db/utils/cropping.py +28 -28
  633. endoreg_db/utils/dataloader.py +175 -92
  634. endoreg_db/utils/dates.py +60 -0
  635. endoreg_db/utils/env.py +33 -0
  636. endoreg_db/utils/extract_specific_frames.py +72 -0
  637. endoreg_db/utils/file_operations.py +58 -30
  638. endoreg_db/utils/fix_video_path_direct.py +141 -0
  639. endoreg_db/utils/frame_anonymization_utils.py +463 -0
  640. endoreg_db/utils/hashs.py +153 -34
  641. endoreg_db/utils/links/__init__.py +0 -0
  642. endoreg_db/utils/links/requirement_link.py +193 -0
  643. endoreg_db/utils/mime_types.py +0 -0
  644. endoreg_db/utils/names.py +76 -0
  645. endoreg_db/utils/ocr.py +190 -197
  646. endoreg_db/utils/parse_and_generate_yaml.py +46 -0
  647. endoreg_db/utils/paths.py +95 -0
  648. endoreg_db/utils/permissions.py +143 -0
  649. endoreg_db/utils/pipelines/Readme.md +235 -0
  650. endoreg_db/utils/pipelines/__init__.py +0 -0
  651. endoreg_db/utils/pipelines/process_video_dir.py +120 -0
  652. endoreg_db/utils/product/__init__.py +0 -0
  653. endoreg_db/utils/product/sum_emissions.py +20 -0
  654. endoreg_db/utils/product/sum_weights.py +18 -0
  655. endoreg_db/utils/pydantic_models/__init__.py +6 -0
  656. endoreg_db/utils/pydantic_models/db_config.py +57 -0
  657. endoreg_db/utils/requirement_helpers.py +0 -0
  658. endoreg_db/utils/requirement_operator_logic/__init__.py +0 -0
  659. endoreg_db/utils/requirement_operator_logic/lab_value_operators.py +578 -0
  660. endoreg_db/utils/requirement_operator_logic/model_evaluators.py +368 -0
  661. endoreg_db/utils/setup_config.py +177 -0
  662. endoreg_db/utils/translation.py +27 -0
  663. endoreg_db/utils/uuid.py +4 -4
  664. endoreg_db/utils/validate_endo_roi.py +19 -0
  665. endoreg_db/utils/validate_subcategory_dict.py +91 -0
  666. endoreg_db/utils/validate_video_detailed.py +357 -0
  667. endoreg_db/utils/video/__init__.py +26 -0
  668. endoreg_db/utils/video/extract_frames.py +88 -0
  669. endoreg_db/utils/video/ffmpeg_wrapper.py +835 -0
  670. endoreg_db/utils/video/names.py +42 -0
  671. endoreg_db/utils/video/streaming_processor.py +312 -0
  672. endoreg_db/utils/video/video_splitter.py +94 -0
  673. endoreg_db/views/Frames_NICE_and_PARIS_classifications_views.py +238 -0
  674. endoreg_db/views/__init__.py +275 -0
  675. endoreg_db/views/anonymization/__init__.py +27 -0
  676. endoreg_db/views/anonymization/media_management.py +454 -0
  677. endoreg_db/views/anonymization/overview.py +216 -0
  678. endoreg_db/views/anonymization/validate.py +107 -0
  679. endoreg_db/views/auth/__init__.py +13 -0
  680. endoreg_db/views/auth/keycloak.py +113 -0
  681. endoreg_db/views/examination/__init__.py +33 -0
  682. endoreg_db/views/examination/examination.py +37 -0
  683. endoreg_db/views/examination/examination_manifest_cache.py +26 -0
  684. endoreg_db/views/examination/get_finding_classification_choices.py +59 -0
  685. endoreg_db/views/examination/get_finding_classifications.py +36 -0
  686. endoreg_db/views/examination/get_findings.py +41 -0
  687. endoreg_db/views/examination/get_instruments.py +18 -0
  688. endoreg_db/views/examination/get_interventions.py +14 -0
  689. endoreg_db/views/finding/__init__.py +9 -0
  690. endoreg_db/views/finding/finding.py +112 -0
  691. endoreg_db/views/finding/get_classifications.py +14 -0
  692. endoreg_db/views/finding/get_interventions.py +17 -0
  693. endoreg_db/views/finding_classification/__init__.py +13 -0
  694. endoreg_db/views/finding_classification/base.py +0 -0
  695. endoreg_db/views/finding_classification/finding_classification.py +42 -0
  696. endoreg_db/views/finding_classification/get_classification_choices.py +55 -0
  697. endoreg_db/views/label/__init__.py +5 -0
  698. endoreg_db/views/label/label.py +15 -0
  699. endoreg_db/views/label_video_segment/__init__.py +16 -0
  700. endoreg_db/views/label_video_segment/create_lvs_from_annotation.py +44 -0
  701. endoreg_db/views/label_video_segment/get_lvs_by_name_and_video.py +50 -0
  702. endoreg_db/views/label_video_segment/label_video_segment.py +77 -0
  703. endoreg_db/views/label_video_segment/label_video_segment_by_label.py +174 -0
  704. endoreg_db/views/label_video_segment/label_video_segment_detail.py +73 -0
  705. endoreg_db/views/label_video_segment/update_lvs_from_annotation.py +46 -0
  706. endoreg_db/views/label_video_segment/validate.py +226 -0
  707. endoreg_db/views/media/__init__.py +45 -0
  708. endoreg_db/views/media/pdf_media.py +388 -0
  709. endoreg_db/views/media/segments.py +71 -0
  710. endoreg_db/views/media/sensitive_metadata.py +314 -0
  711. endoreg_db/views/media/video_media.py +272 -0
  712. endoreg_db/views/media/video_segments.py +524 -0
  713. endoreg_db/views/meta/__init__.py +15 -0
  714. endoreg_db/views/meta/available_files_list.py +146 -0
  715. endoreg_db/views/meta/report_meta.py +53 -0
  716. endoreg_db/views/meta/sensitive_meta_detail.py +148 -0
  717. endoreg_db/views/meta/sensitive_meta_list.py +104 -0
  718. endoreg_db/views/meta/sensitive_meta_verification.py +71 -0
  719. endoreg_db/views/misc/__init__.py +63 -0
  720. endoreg_db/views/misc/center.py +13 -0
  721. endoreg_db/views/misc/csrf.py +7 -0
  722. endoreg_db/views/misc/gender.py +14 -0
  723. endoreg_db/views/misc/secure_file_serving_view.py +80 -0
  724. endoreg_db/views/misc/secure_file_url_view.py +84 -0
  725. endoreg_db/views/misc/secure_url_validate.py +79 -0
  726. endoreg_db/views/misc/stats.py +220 -0
  727. endoreg_db/views/misc/translation.py +182 -0
  728. endoreg_db/views/misc/upload_views.py +240 -0
  729. endoreg_db/views/patient/__init__.py +5 -0
  730. endoreg_db/views/patient/patient.py +210 -0
  731. endoreg_db/views/patient_examination/DEPRECATED_video_backup.py +164 -0
  732. endoreg_db/views/patient_examination/__init__.py +11 -0
  733. endoreg_db/views/patient_examination/patient_examination.py +140 -0
  734. endoreg_db/views/patient_examination/patient_examination_create.py +63 -0
  735. endoreg_db/views/patient_examination/patient_examination_detail.py +66 -0
  736. endoreg_db/views/patient_examination/patient_examination_list.py +68 -0
  737. endoreg_db/views/patient_examination/video.py +194 -0
  738. endoreg_db/views/patient_finding/__init__.py +7 -0
  739. endoreg_db/views/patient_finding/base.py +0 -0
  740. endoreg_db/views/patient_finding/patient_finding.py +64 -0
  741. endoreg_db/views/patient_finding/patient_finding_optimized.py +259 -0
  742. endoreg_db/views/patient_finding_classification/__init__.py +5 -0
  743. endoreg_db/views/patient_finding_classification/pfc_create.py +67 -0
  744. endoreg_db/views/patient_finding_location/__init__.py +5 -0
  745. endoreg_db/views/patient_finding_location/pfl_create.py +70 -0
  746. endoreg_db/views/patient_finding_morphology/__init__.py +5 -0
  747. endoreg_db/views/patient_finding_morphology/pfm_create.py +70 -0
  748. endoreg_db/views/pdf/__init__.py +8 -0
  749. endoreg_db/views/pdf/pdf_stream.py +187 -0
  750. endoreg_db/views/pdf/reimport.py +177 -0
  751. endoreg_db/views/report/__init__.py +9 -0
  752. endoreg_db/views/report/report_list.py +112 -0
  753. endoreg_db/views/report/report_with_secure_url.py +28 -0
  754. endoreg_db/views/report/start_examination.py +7 -0
  755. endoreg_db/views/requirement/__init__.py +10 -0
  756. endoreg_db/views/requirement/evaluate.py +279 -0
  757. endoreg_db/views/requirement/lookup.py +367 -0
  758. endoreg_db/views/requirement/lookup_store.py +252 -0
  759. endoreg_db/views/requirement_lookup/lookup.py +0 -0
  760. endoreg_db/views/requirement_lookup/lookup_store.py +0 -0
  761. endoreg_db/views/stats/__init__.py +13 -0
  762. endoreg_db/views/stats/stats_views.py +229 -0
  763. endoreg_db/views/video/__init__.py +59 -0
  764. endoreg_db/views/video/correction.py +530 -0
  765. endoreg_db/views/video/reimport.py +195 -0
  766. endoreg_db/views/video/segmentation.py +274 -0
  767. endoreg_db/views/video/task_status.py +49 -0
  768. endoreg_db/views/video/timeline.py +46 -0
  769. endoreg_db/views/video/video_analyze.py +52 -0
  770. endoreg_db/views/video/video_apply_mask.py +48 -0
  771. endoreg_db/views/video/video_correction.py +21 -0
  772. endoreg_db/views/video/video_download_processed.py +58 -0
  773. endoreg_db/views/video/video_examination_viewset.py +242 -0
  774. endoreg_db/views/video/video_meta.py +29 -0
  775. endoreg_db/views/video/video_processing_history.py +24 -0
  776. endoreg_db/views/video/video_remove_frames.py +48 -0
  777. endoreg_db/views/video/video_stream.py +306 -0
  778. endoreg_db/views.py +0 -3
  779. endoreg_db-0.8.6.1.dist-info/METADATA +383 -0
  780. endoreg_db-0.8.6.1.dist-info/RECORD +793 -0
  781. {endoreg_db-0.3.6.dist-info → endoreg_db-0.8.6.1.dist-info}/WHEEL +1 -1
  782. {endoreg_db-0.3.6.dist-info → endoreg_db-0.8.6.1.dist-info/licenses}/LICENSE +674 -674
  783. endoreg_db/data/active_model/data.yaml +0 -3
  784. endoreg_db/data/label/label-set/data.yaml +0 -18
  785. endoreg_db/management/commands/_load_model_template.py +0 -41
  786. endoreg_db/management/commands/delete_all.py +0 -18
  787. endoreg_db/management/commands/delete_legacy_images.py +0 -19
  788. endoreg_db/management/commands/delete_legacy_videos.py +0 -17
  789. endoreg_db/management/commands/extract_legacy_video_frames.py +0 -18
  790. endoreg_db/management/commands/fetch_legacy_image_dataset.py +0 -32
  791. endoreg_db/management/commands/fix_auth_permission.py +0 -20
  792. endoreg_db/management/commands/import_legacy_images.py +0 -94
  793. endoreg_db/management/commands/import_legacy_videos.py +0 -76
  794. endoreg_db/management/commands/load_active_model_data.py +0 -45
  795. endoreg_db/management/commands/load_endoscopy_processor_data.py +0 -45
  796. endoreg_db/management/commands/load_g_play_data.py +0 -113
  797. endoreg_db/management/commands/load_label_data.py +0 -67
  798. endoreg_db/management/commands/load_medication_indication_data.py +0 -63
  799. endoreg_db/management/commands/load_medication_schedule_data.py +0 -55
  800. endoreg_db/migrations/0002_rawvideofile.py +0 -26
  801. endoreg_db/migrations/0003_rawvideofile_frames_required.py +0 -18
  802. endoreg_db/migrations/0004_rename_hash_rawvideofile_video_hash.py +0 -18
  803. endoreg_db/migrations/0005_ffmpegmeta_remove_videoimportmeta_center_and_more.py +0 -56
  804. endoreg_db/migrations/0006_rawvideofile_center_alter_videometa_processor.py +0 -25
  805. endoreg_db/migrations/0007_rawvideofile_processor.py +0 -19
  806. endoreg_db/migrations/0008_rename_frames_required_rawvideofile_state_frames_required.py +0 -18
  807. endoreg_db/migrations/0009_sensitivemeta_rawvideofile_sensitive_meta.py +0 -31
  808. endoreg_db/migrations/0010_rename_endoscope_serial_number_sensitivemeta_endoscope_sn.py +0 -18
  809. endoreg_db/migrations/0011_rawvideofile_state_sensitive_data_retrieved.py +0 -18
  810. endoreg_db/migrations/0012_rawvideofile_prediction_dir_and_more.py +0 -109
  811. endoreg_db/migrations/0013_rawpdffile.py +0 -31
  812. endoreg_db/migrations/0014_pdftype_alter_rawpdffile_file_pdfmeta.py +0 -38
  813. endoreg_db/migrations/0015_rename_report_processed_rawpdffile_state_report_processed_and_more.py +0 -31
  814. endoreg_db/migrations/0016_rawpdffile_state_report_processing_required.py +0 -18
  815. endoreg_db/migrations/0017_firstname_lastname_center_first_names_and_more.py +0 -37
  816. endoreg_db/migrations/0018_reportreaderflag_reportreaderconfig.py +0 -37
  817. endoreg_db/migrations/0019_pdftype_cut_off_above_lines_and_more.py +0 -42
  818. endoreg_db/migrations/0020_rename_endoscopy_info_line_pdftype_endoscope_info_line.py +0 -18
  819. endoreg_db/migrations/0021_alter_pdftype_endoscope_info_line.py +0 -19
  820. endoreg_db/migrations/0022_alter_pdftype_endoscope_info_line.py +0 -19
  821. endoreg_db/migrations/0023_ttoquestionnaire_alter_pdftype_endoscope_info_line.py +0 -59
  822. endoreg_db/migrations/0024_remove_ttoquestionnaire_infections_and_more.py +0 -27
  823. endoreg_db/migrations/0025_event_alter_rawpdffile_file_patientevent.py +0 -42
  824. endoreg_db/migrations/0026_disease_diseaseclassification_and_more.py +0 -166
  825. endoreg_db/migrations/0027_labvalue_abbreviation_labvalue_default_normal_range_and_more.py +0 -38
  826. endoreg_db/migrations/0028_alter_unit_abbreviation.py +0 -18
  827. endoreg_db/migrations/0029_medicationintaketime_and_more.py +0 -75
  828. endoreg_db/migrations/0030_medicationindicationtype_and_more.py +0 -101
  829. endoreg_db/migrations/0031_rename_adapt_to_liver_function_medication_adapt_to_age_and_more.py +0 -38
  830. endoreg_db/migrations/0032_alter_medicationschedule_therapy_duration_d.py +0 -18
  831. endoreg_db/migrations/0033_medicationindication_sources.py +0 -18
  832. endoreg_db/migrations/0034_alter_rawpdffile_file.py +0 -20
  833. endoreg_db/migrations/0035_alter_medicationindication_sources.py +0 -18
  834. endoreg_db/migrations/0036_alter_rawpdffile_file.py +0 -20
  835. endoreg_db/migrations/0037_alter_medicationindication_sources.py +0 -18
  836. endoreg_db/migrations/0038_emissionfactor_material_product_productgroup_and_more.py +0 -164
  837. endoreg_db/migrations/0039_referenceproduct_name.py +0 -19
  838. endoreg_db/migrations/0040_quizanswertype_quizquestiontype_quizquestion_and_more.py +0 -50
  839. endoreg_db/migrations/0041_gender_patientmedication_medication_indication_and_more.py +0 -40
  840. endoreg_db/migrations/0042_casetemplateruletype_casetemplaterulevalue_and_more.py +0 -74
  841. endoreg_db/migrations/0043_casetemplatetype_name_de_casetemplatetype_name_en.py +0 -23
  842. endoreg_db/migrations/0044_casetemplateruletype_name_de_and_more.py +0 -23
  843. endoreg_db/migrations/0045_casetemplaterulevalue_value_type.py +0 -19
  844. endoreg_db/migrations/0046_casetemplaterulevalue_target_field.py +0 -18
  845. endoreg_db/migrations/0047_casetemplaterule_target_model.py +0 -18
  846. endoreg_db/migrations/0048_remove_casetemplaterule_chained_rules_and_more.py +0 -22
  847. endoreg_db/migrations/0049_remove_casetemplaterule_rule_values.py +0 -17
  848. endoreg_db/migrations/0050_casetemplaterule_rule_values.py +0 -18
  849. endoreg_db/migrations/0051_remove_casetemplaterule_calling_rules_and_more.py +0 -27
  850. endoreg_db/migrations/0052_rename_case_template_type_casetemplate_template_type.py +0 -18
  851. endoreg_db/migrations/0053_patientlabsampletype_patientlabsample_and_more.py +0 -38
  852. endoreg_db/migrations/0054_multiplecategoricalvaluedistribution_and_more.py +0 -69
  853. endoreg_db/migrations/0055_remove_casetemplaterule_rule_values_and_more.py +0 -59
  854. endoreg_db/migrations/0056_datevaluedistribution_and_more.py +0 -32
  855. endoreg_db/migrations/0057_remove_datevaluedistribution_max_date_and_more.py +0 -72
  856. endoreg_db/migrations/0058_datevaluedistribution_description_and_more.py +0 -28
  857. endoreg_db/migrations/0059_casetemplaterule_rule_values.py +0 -18
  858. endoreg_db/migrations/0060_labvalue__default_date_value_distribution_and_more.py +0 -44
  859. endoreg_db/migrations/0061_remove_patientlabvalue_date_patientlabvalue_datetime.py +0 -24
  860. endoreg_db/migrations/0062_labvalue_numeric_precision.py +0 -18
  861. endoreg_db/migrations/0063_alter_labvalue_numeric_precision.py +0 -18
  862. endoreg_db/migrations/0064_casetemplaterule_extra_parameters_and_more.py +0 -23
  863. endoreg_db/migrations/0065_rename__date_value_distribution_casetemplaterule_date_value_distribution_and_more.py +0 -58
  864. endoreg_db/migrations/0066_alter_patientlabvalue_patient_and_more.py +0 -29
  865. endoreg_db/migrations/0067_alter_medicationindication_indication_type.py +0 -19
  866. endoreg_db/models/ai_model/__init__.py +0 -3
  867. endoreg_db/models/ai_model/active_model.py +0 -9
  868. endoreg_db/models/ai_model/model_meta.py +0 -24
  869. endoreg_db/models/annotation/__init__.py +0 -2
  870. endoreg_db/models/annotation/binary_classification_annotation_task.py +0 -80
  871. endoreg_db/models/annotation/image_classification.py +0 -27
  872. endoreg_db/models/center/center.py +0 -25
  873. endoreg_db/models/center/center_product.py +0 -34
  874. endoreg_db/models/center/center_resource.py +0 -19
  875. endoreg_db/models/center/center_waste.py +0 -11
  876. endoreg_db/models/data_file/__init__.py +0 -6
  877. endoreg_db/models/data_file/base_classes/__init__.py +0 -2
  878. endoreg_db/models/data_file/base_classes/abstract_frame.py +0 -51
  879. endoreg_db/models/data_file/base_classes/abstract_video.py +0 -201
  880. endoreg_db/models/data_file/frame.py +0 -45
  881. endoreg_db/models/data_file/import_classes/__init__.py +0 -32
  882. endoreg_db/models/data_file/import_classes/processing_functions/__init__.py +0 -35
  883. endoreg_db/models/data_file/import_classes/processing_functions/pdf.py +0 -28
  884. endoreg_db/models/data_file/import_classes/processing_functions/video.py +0 -260
  885. endoreg_db/models/data_file/import_classes/raw_pdf.py +0 -188
  886. endoreg_db/models/data_file/import_classes/raw_video.py +0 -343
  887. endoreg_db/models/data_file/metadata/__init__.py +0 -3
  888. endoreg_db/models/data_file/metadata/sensitive_meta.py +0 -31
  889. endoreg_db/models/data_file/metadata/video_meta.py +0 -133
  890. endoreg_db/models/data_file/report_file.py +0 -89
  891. endoreg_db/models/data_file/video/__init__.py +0 -7
  892. endoreg_db/models/data_file/video/import_meta.py +0 -25
  893. endoreg_db/models/data_file/video/video.py +0 -25
  894. endoreg_db/models/data_file/video_segment.py +0 -107
  895. endoreg_db/models/disease.py +0 -56
  896. endoreg_db/models/emission/__init__.py +0 -1
  897. endoreg_db/models/emission/emission_factor.py +0 -20
  898. endoreg_db/models/event.py +0 -22
  899. endoreg_db/models/examination/__init__.py +0 -4
  900. endoreg_db/models/examination/examination.py +0 -26
  901. endoreg_db/models/examination/examination_time.py +0 -27
  902. endoreg_db/models/examination/examination_time_type.py +0 -24
  903. endoreg_db/models/examination/examination_type.py +0 -18
  904. endoreg_db/models/hardware/__init__.py +0 -2
  905. endoreg_db/models/hardware/endoscope.py +0 -44
  906. endoreg_db/models/information_source.py +0 -29
  907. endoreg_db/models/laboratory/__init__.py +0 -1
  908. endoreg_db/models/laboratory/lab_value.py +0 -102
  909. endoreg_db/models/legacy_data/__init__.py +0 -3
  910. endoreg_db/models/legacy_data/image.py +0 -34
  911. endoreg_db/models/medication/__init__.py +0 -1
  912. endoreg_db/models/medication/medication.py +0 -148
  913. endoreg_db/models/other/distribution.py +0 -215
  914. endoreg_db/models/patient_examination/__init__.py +0 -35
  915. endoreg_db/models/permissions/__init__.py +0 -44
  916. endoreg_db/models/persons/__init__.py +0 -7
  917. endoreg_db/models/persons/examiner/__init__.py +0 -2
  918. endoreg_db/models/persons/examiner/examiner.py +0 -16
  919. endoreg_db/models/persons/examiner/examiner_type.py +0 -2
  920. endoreg_db/models/persons/patient/__init__.py +0 -8
  921. endoreg_db/models/persons/patient/case/case.py +0 -30
  922. endoreg_db/models/persons/patient/patient.py +0 -216
  923. endoreg_db/models/persons/patient/patient_disease.py +0 -16
  924. endoreg_db/models/persons/patient/patient_event.py +0 -22
  925. endoreg_db/models/persons/patient/patient_lab_sample.py +0 -106
  926. endoreg_db/models/persons/patient/patient_medication.py +0 -44
  927. endoreg_db/models/persons/patient/patient_medication_schedule.py +0 -28
  928. endoreg_db/models/persons/portal_user_information.py +0 -27
  929. endoreg_db/models/prediction/__init__.py +0 -2
  930. endoreg_db/models/prediction/image_classification.py +0 -37
  931. endoreg_db/models/prediction/video_prediction_meta.py +0 -244
  932. endoreg_db/models/product/__init__.py +0 -5
  933. endoreg_db/models/product/product.py +0 -97
  934. endoreg_db/models/product/product_group.py +0 -19
  935. endoreg_db/models/product/product_material.py +0 -24
  936. endoreg_db/models/questionnaires/__init__.py +0 -114
  937. endoreg_db/models/quiz/__init__.py +0 -2
  938. endoreg_db/models/quiz/quiz_answer.py +0 -41
  939. endoreg_db/models/quiz/quiz_question.py +0 -54
  940. endoreg_db/models/report_reader/__init__.py +0 -2
  941. endoreg_db/models/report_reader/report_reader_config.py +0 -53
  942. endoreg_db/models/rules/__init__.py +0 -5
  943. endoreg_db/queries/get/__init__.py +0 -6
  944. endoreg_db/queries/get/center.py +0 -42
  945. endoreg_db/queries/get/model.py +0 -13
  946. endoreg_db/queries/get/patient.py +0 -14
  947. endoreg_db/queries/get/patient_examination.py +0 -20
  948. endoreg_db/queries/get/report_file.py +0 -33
  949. endoreg_db/queries/get/video.py +0 -31
  950. endoreg_db/serializers/ai_model.py +0 -19
  951. endoreg_db/serializers/annotation.py +0 -17
  952. endoreg_db/serializers/center.py +0 -11
  953. endoreg_db/serializers/examination.py +0 -33
  954. endoreg_db/serializers/frame.py +0 -13
  955. endoreg_db/serializers/hardware.py +0 -21
  956. endoreg_db/serializers/label.py +0 -22
  957. endoreg_db/serializers/patient.py +0 -10
  958. endoreg_db/serializers/prediction.py +0 -15
  959. endoreg_db/serializers/report_file.py +0 -7
  960. endoreg_db/serializers/video.py +0 -27
  961. endoreg_db/tests.py +0 -3
  962. endoreg_db/utils/legacy_ocr.py +0 -201
  963. endoreg_db/utils/video_metadata.py +0 -87
  964. endoreg_db-0.3.6.dist-info/METADATA +0 -33
  965. endoreg_db-0.3.6.dist-info/RECORD +0 -357
  966. /endoreg_db/{models/persons/patient/case/__init__.py → api/serializers/finding_descriptions.py} +0 -0
  967. /endoreg_db/{queries/get/annotation.py → api/views/finding_descriptions.py} +0 -0
  968. /endoreg_db/{queries/get/prediction.py → config/__init__.py} +0 -0
  969. /endoreg_db/{queries/get/video_import_meta.py → data/case_template/rule_value/.init} +0 -0
  970. /endoreg_db/{queries/get/video_prediction_meta.py → data/distribution/multiple_categorical/.init} +0 -0
endoreg_db/data/examination_indication/endoscopy.yaml ADDED
@@ -0,0 +1,424 @@
1
+ # Colonoscopy
2
+ ## Generic
3
+ - model: endoreg_db.examination_indication
4
+ fields:
5
+ name: "colonoscopy"
6
+ name_de: "Koloskopie"
7
+ name_en: "Colonoscopy"
8
+ examinations: ["colonoscopy"]
9
+ description: "Colonoscopy without further specification"
10
+
11
+ ## Colonoscopy elective
12
+ - model: endoreg_db.examination_indication
13
+ fields:
14
+ name: "colonoscopy_screening"
15
+ name_de: "Koloskopie (Screening)"
16
+ name_en: "Colonoscopy (Screening)"
17
+ examinations: ["colonoscopy"]
18
+ description: "Colonoscopy for screening purposes"
19
+ expected_interventions: # Many2Many to finding intervention
20
+ [
21
+ "colon_lesion_polypectomy_cold_snare",
22
+ "colon_lesion_injection_liftup",
23
+ "colon_lesion_biopsy",
24
+ "colon_lesion_clip",
25
+ ]
26
+
27
+ - model: endoreg_db.examination_indication
28
+ fields:
29
+ name: "colonoscopy_lesion_removal_small"
30
+ name_de: "Koloskopie (Läsionsentfernung, klein (< 10 mm), elektiv)"
31
+ name_en: "Colonoscopy (Lesion removal, small (< 10 mm), elective)"
32
+ examinations: ["colonoscopy"]
33
+ description: "Elective colonoscopy for removal of small lesions (< 10 mm)"
34
+ expected_interventions:
35
+ [
36
+ "colon_lesion_polypectomy_cold_snare",
37
+ "colon_lesion_polypectomy_hot_snare",
38
+ "colon_lesion_injection_liftup",
39
+ "colon_lesion_injection_vasoactive",
40
+ "colon_lesion_biopsy",
41
+ "colon_lesion_clip",
42
+ ]
43
+
44
+ # colonoscopy_lesion_removal_emr
45
+ - model: endoreg_db.examination_indication
46
+ fields:
47
+ name: "colonoscopy_lesion_removal_emr"
48
+ name_de: "Koloskopie (Läsionsentfernung, EMR, elektiv)"
49
+ name_en: "Colonoscopy (Lesion removal, EMR, elective)"
50
+ examinations: ["colonoscopy"]
51
+ description: "Elective colonoscopy for removal of lesions using EMR"
52
+ expected_interventions:
53
+ [
54
+ "colon_lesion_emr",
55
+ "colon_lesion_injection_vasoactive",
56
+ "colon_lesion_injection_liftup",
57
+ "colon_lesion_clip",
58
+ "colon_lesion_over_the_scope_clip",
59
+ ]
60
+
61
+ - model: endoreg_db.examination_indication
62
+ fields:
63
+ name: "colonoscopy_lesion_removal_large"
64
+ name_de: "Koloskopie (Läsionsentfernung, groß (≥ 10 mm), elektiv)"
65
+ name_en: "Colonoscopy (Lesion removal, large (≥ 10 mm), elective)"
66
+ examinations: ["colonoscopy"]
67
+ description: "Elective colonoscopy for removal of large lesions (≥ 10 mm)"
68
+ expected_interventions:
69
+ [
70
+ "colon_lesion_injection_vasoactive",
71
+ "colon_lesion_injection_liftup",
72
+ "colon_lesion_clip",
73
+ "colon_lesion_over_the_scope_clip",
74
+ "colon_lesion_emr",
75
+ "colon_lesion_esd",
76
+ "colon_lesion_eftr",
77
+ ]
78
+
79
+ ## Colonoscopy Acute
80
+ - model: endoreg_db.examination_indication
81
+ fields:
82
+ name: "colonoscopy_diagnostic_acute_symptomatic"
83
+ name_de: "Koloskopie (Diagnostik, akut-symptomatisch)"
84
+ name_en: "Colonoscopy (Diagnostic, Acute Symptomatic)"
85
+ examinations: ["colonoscopy"]
86
+ description: "Colonoscopy for diagnostic purposes in acute symptomatic patients"
87
+ expected_interventions:
88
+ ["colon_lesion_clip", "colon_lesion_injection_vasoactive"]
89
+
90
+ # Gastroscopy
91
+ - model: endoreg_db.examination_indication
92
+ fields:
93
+ name: "gastroscopy"
94
+ name_de: "Gastroskopie"
95
+ name_en: "Gastroscopy"
96
+ examinations: ["gastroscopy"]
97
+ description: "Gastroscopy without further specification"
98
+ expected_interventions: # Many2Many to finding intervention
99
+ [
100
+ "egd_lesion_polypectomy_cold_snare",
101
+ "egd_lesion_injection_liftup",
102
+ "egd_lesion_biopsy",
103
+ "egd_lesion_clip",
104
+ "egd_lesion_over_the_scope_clip",
105
+ ]
106
+
107
+ - model: endoreg_db.examination_indication
108
+ fields:
109
+ name: "gastroscopy_baseline"
110
+ name_de: "Gastroskopie (Basis)"
111
+ name_en: "Gastroscopy (Baseline)"
112
+ examinations: ["gastroscopy"]
113
+ description: "Baseline gastroscopy"
114
+ expected_interventions: ["egd_lesion_biopsy"]
115
+
116
+ ## Gastroscopy Acute
117
+ - model: endoreg_db.examination_indication
118
+ fields:
119
+ name: "gastroscopy_diagnostic_acute_symptomatic"
120
+ name_de: "Gastroskopie (Diagnostik, akut-symptomatisch)"
121
+ name_en: "Gastroscopy (Diagnostic, Acute Symptomatic)"
122
+ examinations: ["gastroscopy"]
123
+ description: "Gastroscopy for diagnostic purposes in acute symptomatic patients"
124
+ expected_interventions: [
125
+ "egd_hp_biopsy", # default
126
+ ]
127
+
128
+ - model: endoreg_db.examination_indication
129
+ fields:
130
+ name: "gastroscopy_acute_bleeding"
131
+ name_de: "Gastroskopie (akute Blutung)"
132
+ name_en: "Gastroscopy (acute bleeding)"
133
+ examinations: ["gastroscopy"]
134
+ description: "Gastroscopy for acute bleeding"
135
+ expected_interventions: [
136
+ "egd_lesion_injection_vasoactive",
137
+ "egd_lesion_clip", # default
138
+ "egd_lesion_over_the_scope_clip",
139
+ "egd_varice_band_ligation",
140
+ "egd_varice_sclerotherapy",
141
+ "egd_argon_plasma_coagulation",
142
+ ]
143
+
144
+ ## Gastroscopy Elective
145
+ - model: endoreg_db.examination_indication
146
+ fields:
147
+ name: "gastroscopy_diagnostic_elective"
148
+ name_de: "Gastroskopie (Diagnostik, elektiv)"
149
+ name_en: "Gastroscopy (Diagnostic, Elective)"
150
+ examinations: ["gastroscopy"]
151
+ description: "Gastroscopy for diagnostic purposes in elective patients"
152
+ expected_interventions: ["egd_hp_biopsy"]
153
+
154
+ - model: endoreg_db.examination_indication
155
+ fields:
156
+ name: "gastroscopy_percutane_enterostomy"
157
+ name_de: "Gastroskopie (perkutane Enterostomie)"
158
+ name_en: "Gastroscopy (percutaneous enterostomy)"
159
+ examinations: ["gastroscopy"]
160
+ description: "Gastroscopy for percutaneous enterostomy"
161
+ expected_interventions:
162
+ [
163
+ "egd_percutaneous_gastroenterostomy",
164
+ "egd_percutaneous_jejunostomy",
165
+ "egd_lesion_biopsy",
166
+ "egd_clip",
167
+ ]
168
+
169
+ - model: endoreg_db.examination_indication
170
+ fields:
171
+ name: "gastroscopy_therapeutic_varicosis_esophagus"
172
+ name_de: "Gastroskopie (Therapie, Varikosis Ösophagus, elektiv)"
173
+ name_en: "Gastroscopy (Therapeutic, Varicosis Esophagus, elective)"
174
+ examinations: ["gastroscopy"]
175
+ description: "Elective gastroscopy for therapeutic purposes in elective patients with varicosis of the esophagus"
176
+ expected_interventions:
177
+ [
178
+ "egd_varicosis_band_ligation",
179
+ "egd_varicosis_sclerotherapy",
180
+ "egd_injection_vasoactive",
181
+ "egd_clip",
182
+ ]
183
+
184
+ - model: endoreg_db.examination_indication
185
+ fields:
186
+ name: "gastroscopy_therapeutic_varicosis_stomach"
187
+ name_de: "Gastroskopie (Therapie, Varikosis Magen, elektiv)"
188
+ name_en: "Gastroscopy (Therapeutic, Varicosis Stomach, elective)"
189
+ examinations: ["gastroscopy"]
190
+ description: "Elective gastroscopy for therapeutic purposes in elective patients with varicosis of the stomach"
191
+ expected_interventions:
192
+ [
193
+ "egd_varicosis_band_ligation",
194
+ "egd_clip",
195
+ "egd_injection_varicosis",
196
+ "egd_injection_vasoactive",
197
+ ]
198
+
199
+ - model: endoreg_db.examination_indication
200
+ fields:
201
+ name: "gastroscopy_therapeutic_varicosis_intestine"
202
+ name_de: "Gastroskopie (Therapie, Varikosis Darm, elektiv)"
203
+ name_en: "Gastroscopy (Therapeutic, Varicosis Intestine, elective)"
204
+ examinations: ["gastroscopy"]
205
+ description: "Elective gastroscopy for therapeutic purposes in elective patients with varicosis of the intestine"
206
+ expected_interventions:
207
+ [
208
+ "egd_varicosis_band_ligation",
209
+ "egd_clip",
210
+ "egd_injection_varicosis",
211
+ "egd_injection_vasoactive",
212
+ ]
213
+
214
+ - model: endoreg_db.examination_indication
215
+ fields:
216
+ name: "gastroscopy_lesion_removal_small"
217
+ name_de: "Gastroskopie (Läsionsentfernung, klein (< 10 mm), elektiv)"
218
+ name_en: "Gastroscopy (Lesion removal, small (< 10 mm), elective)"
219
+ examinations: ["gastroscopy"]
220
+ description: "Elective gastroscopy for removal of small lesions (< 10 mm)"
221
+ expected_interventions:
222
+ [
223
+ "egd_lesion_polypectomy_cold_snare",
224
+ "egd_lesion_polypectomy_hot_snare",
225
+ "egd_lesion_polypectomy_forceps",
226
+ "egd_lesion_injection_vasoactive",
227
+ "egd_lesion_injection_liftup",
228
+ "egd_lesion_clip",
229
+ "egd_lesion_over_the_scope_clip",
230
+ ]
231
+
232
+ - model: endoreg_db.examination_indication
233
+ fields:
234
+ name: "gastroscopy_lesion_removal_large"
235
+ name_de: "Gastroskopie (Läsionsentfernung, groß (≥ 10 mm), elektiv)"
236
+ name_en: "Gastroscopy (Lesion removal, large (≥ 10 mm), elective)"
237
+ examinations: ["gastroscopy"]
238
+ description: "Elective gastroscopy for removal of large lesions (≥ 10 mm)"
239
+ expected_interventions:
240
+ [
241
+ "egd_lesion_injection_vasoactive",
242
+ "egd_lesion_injection_liftup",
243
+ "egd_lesion_clip",
244
+ "egd_lesion_over_the_scope_clip",
245
+ "egd_lesion_emr",
246
+ "egd_lesion_esd",
247
+ "egd_eftr",
248
+ "egd_poem",
249
+ ]
250
+
251
+ - model: endoreg_db.examination_indication
252
+ fields:
253
+ name: "gastroscopy_obstruction_generic"
254
+ name_de: "Gastroskopie (Obstruktion / Dysphagie, generisch, elektiv)"
255
+ name_en: "Gastroscopy (Obstruction / Dysphagia, generic, elective)"
256
+ examinations: ["gastroscopy"]
257
+ description: "Elective gastroscopy for patients with obstruction / dysphagia"
258
+ expected_interventions:
259
+ [
260
+ "egd_stepwise_biopsy",
261
+ "egd_lesion_biopsy",
262
+ "egd_clip",
263
+ "egd_esophagus_injection_botox",
264
+ "egd_stenosis_dilation",
265
+ "egd_stenosis_bougie",
266
+ "egd_stenosis_balloon",
267
+ "egd_stenosis_stent",
268
+ "egd_lesion_radiofrequency_ablation",
269
+ "egd_lesion_cryotherapy",
270
+ "egd_stenosis_laser",
271
+ ]
272
+
273
+ # Endosonography
274
+ - model: endoreg_db.examination_indication
275
+ fields:
276
+ name: "endosonography_upper_gi"
277
+ name_de: "Endosonographie oberer GI-Trakt"
278
+ name_en: "Endosonography Upper GI Tract"
279
+ examinations: ["endosonography_upper_gi"]
280
+ description: "Endosonography of the upper GI tract without further specification"
281
+ expected_interventions: []
282
+
283
+ - model: endoreg_db.examination_indication
284
+ fields:
285
+ name: "endosonography_upper_gi_invasive"
286
+ name_de: "Endosonographie oberer GI-Trakt (invasiv)"
287
+ name_en: "Endosonography Upper GI Tract (invasive)"
288
+ examinations: ["endosonography_upper_gi"]
289
+ description: "Invasive endosonography of the upper GI tract"
290
+ expected_interventions:
291
+ [
292
+ "endosonography_upper_gi_solid_lesion_fna",
293
+ "endosonography_upper_gi_cyst_fna",
294
+ "endosonography_upper_gi_pseudocyst_fna",
295
+ "endosonography_upper_gi_biliary_drainage",
296
+ "endosonography_upper_gi_pancreatic_drainage",
297
+ "endosonography_upper_gi_cyst_gastrostomy",
298
+ "endosonography_upper_gi_pancreaticogastrostomy",
299
+ "endosonography_upper_gi_cholangioduodenostomy",
300
+ "endosonography_upper_gi_pancreaticoduodenostomy",
301
+ ]
302
+
303
+ - model: endoreg_db.examination_indication
304
+ fields:
305
+ name: "endosonography_lower_gi"
306
+ name_de: "Endosonographie unterer GI-Trakt"
307
+ name_en: "Endosonography Lower GI Tract"
308
+ examinations: ["endosonography_lower_gi"]
309
+ description: "Endosonography of the lower GI tract without further specification"
310
+ expected_interventions: []
311
+
312
+ - model: endoreg_db.examination_indication
313
+ fields:
314
+ name: "endosonography_lower_gi_invasive"
315
+ name_de: "Endosonographie unterer GI-Trakt (invasiv)"
316
+ name_en: "Endosonography Lower GI Tract (invasive)"
317
+ examinations: ["endosonography_lower_gi"]
318
+ description: "Invasive endosonography of the lower GI tract"
319
+ expected_interventions:
320
+ [
321
+ "endosonography_lower_gi_solid_lesion_fna",
322
+ "endosonography_lower_gi_lymph_node_fna",
323
+ ]
324
+
325
+ # PTC(D)
326
+ - model: endoreg_db.examination_indication
327
+ fields:
328
+ name: "percutaneous_transhepatic_cholangiography"
329
+ name_de: "Perkutane transhepatische Cholangiographie"
330
+ name_en: "Percutaneous Transhepatic Cholangiography"
331
+ examinations: ["percutaneous_transhepatic_cholangiography"]
332
+ description: "Percutaneous transhepatic cholangiography without further specification"
333
+ expected_interventions:
334
+ [
335
+ "percutaneous_transhepatic_cholangiography",
336
+ "sonography_guided_liver_punction",
337
+ "xray_guided_liver_punction",
338
+ ]
339
+
340
+ - model: endoreg_db.examination_indication
341
+ fields:
342
+ name: "percutaneous_transhepatic_biliary_drainage"
343
+ name_de: "Perkutane transhepatische Gallengangdrainage"
344
+ name_en: "Percutaneous Transhepatic Biliary Drainage"
345
+ examinations: ["percutaneous_transhepatic_cholangiography"]
346
+ description: "Percutaneous transhepatic biliary drainage without further specification"
347
+ expected_interventions:
348
+ [
349
+ "percutaneous_transhepatic_cholangiography",
350
+ "percutaneous_transhepatic_biliary_drainage",
351
+ "biliary_stent",
352
+ ]
353
+
354
+ # ERCP
355
+ - model: endoreg_db.examination_indication
356
+ fields:
357
+ name: "erc"
358
+ name_de: "Endoskopische retrograde Cholangiographie"
359
+ name_en: "Endoscopic Retrograde Cholangiography"
360
+ examinations: ["ercp"]
361
+ description: "ERC without further specification"
362
+ expected_interventions:
363
+ [
364
+ "ercp",
365
+ "ercp_sphincterotomy",
366
+ "ercp_stent",
367
+ "ercp_extraction",
368
+ "ercp_biopsy",
369
+ ]
370
+
371
+ - model: endoreg_db.examination_indication
372
+ fields:
373
+ name: "erc_no_est"
374
+ name_de: "ERC (ohne EST)"
375
+ name_en: "ERC (without EST)"
376
+ examinations: ["ercp"]
377
+ description: "ERC without endoscopic sphincterotomy"
378
+ expected_interventions:
379
+ ["erc", "ercp_stent", "ercp_extraction", "ercp_biopsy"]
380
+
381
+ - model: endoreg_db.examination_indication
382
+ fields:
383
+ name: "ERCP"
384
+ name_de: "Endoskopische retrograde Cholangiopankreatikographie"
385
+ name_en: "Endoscopic Retrograde Cholangiopancreatography"
386
+ examinations: ["ercp"]
387
+ description: "ERCP without further specification"
388
+ expected_interventions:
389
+ [
390
+ "erp",
391
+ "erc",
392
+ "ercp_sphincterotomy",
393
+ "ercp_stent",
394
+ "ercp_extraction",
395
+ "ercp_biopsy",
396
+ ]
397
+
398
+ - model: endoreg_db.examination_indication
399
+ fields:
400
+ name: "ercp_no_est"
401
+ name_de: "ERCP (ohne EST)"
402
+ name_en: "ERCP (without EST)"
403
+ examinations: ["ercp"]
404
+ description: "ERCP without endoscopic sphincterotomy"
405
+ expected_interventions:
406
+ ["erc", "erp", "ercp_stent", "ercp_extraction", "ercp_biopsy"]
407
+
408
+ - model: endoreg_db.examination_indication
409
+ fields:
410
+ name: "ercp_therapeutic_stenosis"
411
+ name_de: "ERC(P) (Therapie, Stenose)"
412
+ name_en: "ERC(P) (Therapeutic, Stenosis)"
413
+ examinations: ["ercp"]
414
+ description: "ERC(P) for therapeutic purposes in patients with stenosis"
415
+ expected_interventions:
416
+ [
417
+ "erc",
418
+ "erp",
419
+ "ercp_sphincterotomy",
420
+ "ercp_stent",
421
+ "ercp_extraction",
422
+ "ercp_biopsy",
423
+ "ercp_radiofrequency_ablation",
424
+ ]
endoreg_db/data/examination_indication_classification/endoscopy.yaml ADDED
@@ -0,0 +1,160 @@
1
+ - model: endoreg_db.examination_indication_classification
2
+ fields:
3
+ name: endoscopy_colonoscopy
4
+ name_de: Koloskopie (unspezifisch)
5
+ name_en: Colonoscopy (unspecific)
6
+ description: Colonoscopy without further specification
7
+ examinations: ["colonoscopy"]
8
+ indications:
9
+ [
10
+ "colonoscopy",
11
+ "colonoscopy_screening",
12
+ "colonoscopy_lesion_removal_small",
13
+ "colonoscopy_lesion_removal_large",
14
+ "colonoscopy_diagnostic_acute_symptomatic",
15
+ ]
16
+
17
+ - model: endoreg_db.examination_indication_classification
18
+ fields:
19
+ name: endoscopy_colonoscopy_acute
20
+ name_de: Koloskopie (akut)
21
+ name_en: Colonoscopy (acute)
22
+ description: Colonoscopy for acute indications
23
+ examinations: ["colonoscopy"]
24
+ indications: ["colonoscopy_diagnostic_acute_symptomatic"]
25
+
26
+ - model: endoreg_db.examination_indication_classification
27
+ fields:
28
+ name: endoscopy_colonoscopy_elective
29
+ name_de: Koloskopie (elektiv)
30
+ name_en: Colonoscopy (elective)
31
+ description: Colonoscopy for elective indications
32
+ examinations: ["colonoscopy"]
33
+ indications:
34
+ [
35
+ "colonoscopy_screening",
36
+ "colonoscopy_lesion_removal_small",
37
+ "colonoscopy_lesion_removal_large",
38
+ ]
39
+
40
+ - model: endoreg_db.examination_indication_classification
41
+ fields:
42
+ name: endoscopy_gastroscopy
43
+ name_de: Gastroskopie
44
+ name_en: Gastroscopy
45
+ description: Gastroscopy without further specification
46
+ examinations: ["gastroscopy"]
47
+ indications:
48
+ [
49
+ "gastroscopy",
50
+ "gastroscopy_baseline",
51
+ "gastroscopy_diagnostic_acute_symptomatic",
52
+ "gastroscopy_acute_bleeding",
53
+ "gastroscopy_diagnostic_elective",
54
+ "gastroscopy_percutane_enterostomy",
55
+ "gastroscopy_therapeutic_varicosis_esophagus",
56
+ "gastroscopy_therapeutic_varicosis_stomach",
57
+ "gastroscopy_therapeutic_varicosis_intestine",
58
+ "gastroscopy_lesion_removal_small",
59
+ "gastroscopy_lesion_removal_large",
60
+ "gastroscopy_obstruction_generic",
61
+ ]
62
+
63
+ - model: endoreg_db.examination_indication_classification
64
+ fields:
65
+ name: endoscopy_gastroscopy_acute
66
+ name_de: Gastroskopie (akut)
67
+ name_en: Gastroscopy (acute)
68
+ description: Gastroscopy for acute indications
69
+ examinations: ["gastroscopy"]
70
+ indications:
71
+ ["gastroscopy_diagnostic_acute_symptomatic", "gastroscopy_acute_bleeding"]
72
+
73
+ - model: endoreg_db.examination_indication_classification
74
+ fields:
75
+ name: endoscopy_gastroscopy_elective
76
+ name_de: Gastroskopie (elektiv)
77
+ name_en: Gastroscopy (elective)
78
+ description: Gastroscopy for elective indications
79
+ examinations: ["gastroscopy"]
80
+ indications:
81
+ [
82
+ "gastroscopy_diagnostic_elective",
83
+ "gastroscopy_percutane_enterostomy",
84
+ "gastroscopy_therapeutic_varicosis_esophagus",
85
+ "gastroscopy_therapeutic_varicosis_stomach",
86
+ "gastroscopy_therapeutic_varicosis_intestine",
87
+ "gastroscopy_lesion_removal_small",
88
+ "gastroscopy_lesion_removal_large",
89
+ "gastroscopy_obstruction_generic",
90
+ ]
91
+
92
+ - model: endoreg_db.examination_indication_classification
93
+ fields:
94
+ name: small_bowel_endoscopy
95
+ name_de: "Dünndarmendoskopie"
96
+ name_en: Small Bowel Endoscopy
97
+ description: Small Bowel Endoscopy without further specification
98
+ examinations: ["small_bowel_endoscopy"]
99
+ indications: []
100
+
101
+ - model: endoreg_db.examination_indication_classification
102
+ fields:
103
+ name: capsule_endoscopy
104
+ name_de: Kapselendoskopie
105
+ name_en: Capsule Endoscopy
106
+ description: Capsule Endoscopy without further specification
107
+ examinations: ["capsule_endoscopy"]
108
+ indications: []
109
+
110
+ - model: endoreg_db.examination_indication_classification
111
+ fields:
112
+ name: endosonography_lower_gi
113
+ name_de: Endosonographie unterer GI-Trakt
114
+ name_en: Endosonography Lower GI Tract
115
+ description: Endosonography Lower GI Tract without further specification
116
+ examinations: ["endosonography_lower_gi"]
117
+ indications: ["endosonography_lower_gi"]
118
+
119
+ - model: endoreg_db.examination_indication_classification
120
+ fields:
121
+ name: endosonography_upper_gi
122
+ name_de: Endosonographie oberer GI-Trakt
123
+ name_en: Endosonography Upper GI Tract
124
+ description: Endosonography Upper GI Tract without further specification
125
+ examinations: ["endosonography_upper_gi"]
126
+ indications: ["endosonography_upper_gi", "endosonography_upper_gi_invasive"]
127
+
128
+ - model: endoreg_db.examination_indication_classification
129
+ fields:
130
+ name: endoscopy_ercp
131
+ name_de: Endoskopische retrograde Cholangiopankreatikographie
132
+ name_en: Endoscopic Retrograde Cholangiopancreatography
133
+ description: Endoscopic Retrograde Cholangiopancreatography without further specification
134
+ examinations: ["ercp"]
135
+ indications:
136
+ ["erc", "erc_no_est", "ERCP", "ercp_no_est", "ercp_therapeutic_stenosis"]
137
+
138
+ - model: endoreg_db.examination_indication_classification
139
+ fields:
140
+ name: sonography_guided
141
+ name_de: Sonographisch gesteuert
142
+ name_en: Sonography guided
143
+ description: Sonography guided procedures
144
+ indications:
145
+ [
146
+ "percutaneous_transhepatic_cholangiography",
147
+ "percutaneous_transhepatic_biliary_drainage",
148
+ ]
149
+
150
+ - model: endoreg_db.examination_indication_classification
151
+ fields:
152
+ name: xray_guided
153
+ name_de: Röntgen gesteuert
154
+ name_en: X-ray guided
155
+ description: X-ray guided procedures
156
+ indications:
157
+ [
158
+ "percutaneous_transhepatic_cholangiography",
159
+ "percutaneous_transhepatic_biliary_drainage",
160
+ ]
endoreg_db/data/examination_indication_classification_choice/endoscopy.yaml ADDED
@@ -0,0 +1,101 @@
1
+ - model: endoreg_db.examination_indication_classification_choice
2
+ fields:
3
+ name: "colonoscopy_bleeding"
4
+ classification: "endoscopy_colonoscopy"
5
+ name_de: "Koloskopie: Blutung"
6
+ name_en: "Colonoscopy: Bleeding"
7
+ subcategories:
8
+ acuteness:
9
+ choices: ["N0", "N1", "N2", "N3", "N4", "N5"]
10
+ default: "N4"
11
+ probability: [0.005, 0.005, 0.01, 0.13, 0.35, 0.5]
12
+ required: false
13
+ description: "Acuteness of the examination (N0: immediate, N1: < 1h, N2: < 6h, N3: < 12h, N4: < 24h, N5: >= 24h)"
14
+
15
+ - model: endoreg_db.examination_indication_classification_choice
16
+ fields:
17
+ name: "colonoscopy_surveillance"
18
+ classification: "endoscopy_colonoscopy"
19
+ name_de: "Koloskopie: Überwachung"
20
+ name_en: "Colonoscopy: Surveillance"
21
+ subcategories:
22
+ reason:
23
+ choices: [
24
+ "unknown",
25
+ "polypectomy_surveillance",
26
+ "known_polyposis_syndrome",
27
+ "known_inflammatory_bowel_disease",
28
+ "suspected_inflammatory_bowel_disease",
29
+ "positive_ifobt",
30
+ ]
31
+ default: "unknown"
32
+ probability: [0.5, 0.1, 0.1, 0.1, 0.2]
33
+ required: true
34
+ description: "Reason for surveillance"
35
+ numerical_descriptors:
36
+ months_since_last_colonoscopy:
37
+ unit: "month"
38
+ min: 3
39
+ max: 120
40
+ mean: 24
41
+ std: 12
42
+ distribution: "normal"
43
+ description: "Months since last colonoscopy"
44
+ required: true
45
+
46
+ - model: endoreg_db.examination_indication_classification_choice
47
+ fields:
48
+ name: "colonoscopy_screening"
49
+ classification: "endoscopy_colonoscopy"
50
+ name_de: "Koloskopie: Screening"
51
+ name_en: "Colonoscopy: Screening"
52
+ subcategories:
53
+ reason:
54
+ choices: [
55
+ "age",
56
+ "family_history_colorectal_cancer",
57
+ "family_history_polyposis_syndrome",
58
+ ]
59
+ default: "age"
60
+ probability: [0.8, 0.1, 0.1]
61
+ required: true
62
+ description: "Reason for screening"
63
+
64
+ - model: endoreg_db.examination_indication_classification_choice
65
+ fields:
66
+ name: "colonoscopy_diagnostic"
67
+ classification: "endoscopy_colonoscopy"
68
+ name_de: "Koloskopie: Diagnostik"
69
+ name_en: "Colonoscopy: Diagnostic"
70
+ subcategories:
71
+ reason:
72
+ choices: [
73
+ "abdominal_pain",
74
+ "diarrhea",
75
+ "constipation",
76
+ "weight_loss",
77
+ "anemia",
78
+ "positive_ifobt",
79
+ "suspected_inflammatory_bowel_disease",
80
+ ]
81
+ default: "abdominal_pain"
82
+ probability: [0.2,0.2,0.2,0.0.5,0.1,0.1,0.05]
83
+ required: true
84
+
85
+ - model: endoreg_db.examination_indication_classification_choice
86
+ fields:
87
+ name: "colonoscopy_therapeutic"
88
+ classification: "endoscopy_colonoscopy"
89
+ name_de: "Koloskopie: therapeutisch"
90
+ name_en: "Colonoscopy: Therapeutic"
91
+ subcategories:
92
+ reason:
93
+ choices: [
94
+ "lesion_removal", # > 9mm
95
+ "hemostasis",
96
+ "dilatation",
97
+ "stent_placement",
98
+ "foreign_body_removal"
99
+ ]
100
+
101
+
endoreg_db/data/examination_requirement_set/colonoscopy.yaml ADDED
@@ -0,0 +1,15 @@
1
+ - model: endoreg_db.examination_requirement_set
2
+ fields:
3
+ name: "colonoscopy_req_sets"
4
+ examinations:
5
+ [
6
+ "colonoscopy",
7
+ ]
8
+
9
+ - model: endoreg_db.examination_requirement_set
10
+ fields:
11
+ name: "colonoscopy_austria_req_sets"
12
+ examinations:
13
+ [
14
+ "colonoscopy_austria_screening",
15
+ ]