endoreg-db 0.8.5.1__py3-none-any.whl

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  1. endoreg_db/__init__.py +0 -0
  2. endoreg_db/admin.py +92 -0
  3. endoreg_db/api/serializers/finding_descriptions.py +0 -0
  4. endoreg_db/api/views/finding_descriptions.py +0 -0
  5. endoreg_db/api_urls.py +4 -0
  6. endoreg_db/apps.py +18 -0
  7. endoreg_db/assets/dummy_model.ckpt +1 -0
  8. endoreg_db/codemods/readme.md +88 -0
  9. endoreg_db/codemods/rename_datetime_fields.py +92 -0
  10. endoreg_db/config/__init__.py +0 -0
  11. endoreg_db/config/env.py +101 -0
  12. endoreg_db/data/__init__.py +144 -0
  13. endoreg_db/data/ai_model/data.yaml +7 -0
  14. endoreg_db/data/ai_model_label/label/data.yaml +88 -0
  15. endoreg_db/data/ai_model_label/label/polyp_classification.yaml +52 -0
  16. endoreg_db/data/ai_model_label/label-set/data.yaml +40 -0
  17. endoreg_db/data/ai_model_label/label-set/polyp_classifications.yaml +25 -0
  18. endoreg_db/data/ai_model_label/label-type/data.yaml +7 -0
  19. endoreg_db/data/ai_model_meta/default_multilabel_classification.yaml +27 -0
  20. endoreg_db/data/ai_model_type/data.yaml +7 -0
  21. endoreg_db/data/ai_model_video_segmentation_label/base_segmentation.yaml +176 -0
  22. endoreg_db/data/ai_model_video_segmentation_labelset/data.yaml +20 -0
  23. endoreg_db/data/case_template/rule/00_patient_lab_sample_add_default_value.yaml +167 -0
  24. endoreg_db/data/case_template/rule/01_patient-set-age.yaml +8 -0
  25. endoreg_db/data/case_template/rule/01_patient-set-gender.yaml +9 -0
  26. endoreg_db/data/case_template/rule/11_create_patient_lab_sample.yaml +23 -0
  27. endoreg_db/data/case_template/rule/12_create-patient_medication-anticoagulation.yaml +19 -0
  28. endoreg_db/data/case_template/rule/13_create-patient_medication_schedule-anticoagulation.yaml +19 -0
  29. endoreg_db/data/case_template/rule/19_create_patient.yaml +17 -0
  30. endoreg_db/data/case_template/rule_type/base_types.yaml +35 -0
  31. endoreg_db/data/case_template/rule_value/.init +0 -0
  32. endoreg_db/data/case_template/rule_value_type/base_types.yaml +59 -0
  33. endoreg_db/data/case_template/template/base.yaml +8 -0
  34. endoreg_db/data/case_template/template_type/pre_endoscopy.yaml +3 -0
  35. endoreg_db/data/case_template/tmp/_rule_value +13 -0
  36. endoreg_db/data/case_template/tmp/rule/01_atrial_fibrillation.yaml +21 -0
  37. endoreg_db/data/case_template/tmp/rule/02_create_object.yaml +10 -0
  38. endoreg_db/data/case_template/tmp/template/atrial_fibrillation_low_risk.yaml +7 -0
  39. endoreg_db/data/center/data.yaml +91 -0
  40. endoreg_db/data/center_resource/green_endoscopy_dashboard_CenterResource.yaml +144 -0
  41. endoreg_db/data/center_shift/ukw.yaml +9 -0
  42. endoreg_db/data/center_waste/green_endoscopy_dashboard_CenterWaste.yaml +48 -0
  43. endoreg_db/data/contraindication/bleeding.yaml +11 -0
  44. endoreg_db/data/db_summary.csv +58 -0
  45. endoreg_db/data/db_summary.xlsx +0 -0
  46. endoreg_db/data/disease/cardiovascular.yaml +37 -0
  47. endoreg_db/data/disease/hepatology.yaml +5 -0
  48. endoreg_db/data/disease/misc.yaml +5 -0
  49. endoreg_db/data/disease/renal.yaml +5 -0
  50. endoreg_db/data/disease_classification/chronic_kidney_disease.yaml +6 -0
  51. endoreg_db/data/disease_classification/coronary_vessel_disease.yaml +6 -0
  52. endoreg_db/data/disease_classification_choice/chronic_kidney_disease.yaml +41 -0
  53. endoreg_db/data/disease_classification_choice/coronary_vessel_disease.yaml +20 -0
  54. endoreg_db/data/distribution/date/patient.yaml +7 -0
  55. endoreg_db/data/distribution/multiple_categorical/.init +0 -0
  56. endoreg_db/data/distribution/numeric/data.yaml +14 -0
  57. endoreg_db/data/distribution/single_categorical/patient.yaml +7 -0
  58. endoreg_db/data/emission_factor/green_endoscopy_dashboard_EmissionFactor.yaml +132 -0
  59. endoreg_db/data/endoscope/data.yaml +93 -0
  60. endoreg_db/data/endoscope_type/data.yaml +11 -0
  61. endoreg_db/data/endoscopy_processor/data.yaml +50 -0
  62. endoreg_db/data/event/cardiology.yaml +15 -0
  63. endoreg_db/data/event/neurology.yaml +14 -0
  64. endoreg_db/data/event/surgery.yaml +13 -0
  65. endoreg_db/data/event/thrombembolism.yaml +20 -0
  66. endoreg_db/data/examination/examinations/data.yaml +72 -0
  67. endoreg_db/data/examination/time/data.yaml +48 -0
  68. endoreg_db/data/examination/time-type/data.yaml +8 -0
  69. endoreg_db/data/examination/type/data.yaml +17 -0
  70. endoreg_db/data/examination_indication/endoscopy.yaml +424 -0
  71. endoreg_db/data/examination_indication_classification/endoscopy.yaml +160 -0
  72. endoreg_db/data/examination_indication_classification_choice/endoscopy.yaml +101 -0
  73. endoreg_db/data/examination_requirement_set/colonoscopy.yaml +15 -0
  74. endoreg_db/data/finding/anatomy_colon.yaml +128 -0
  75. endoreg_db/data/finding/colonoscopy.yaml +40 -0
  76. endoreg_db/data/finding/colonoscopy_bowel_prep.yaml +56 -0
  77. endoreg_db/data/finding/complication.yaml +16 -0
  78. endoreg_db/data/finding/data.yaml +105 -0
  79. endoreg_db/data/finding/examination_setting.yaml +16 -0
  80. endoreg_db/data/finding/medication_related.yaml +18 -0
  81. endoreg_db/data/finding/outcome.yaml +12 -0
  82. endoreg_db/data/finding_classification/colonoscopy_bowel_preparation.yaml +95 -0
  83. endoreg_db/data/finding_classification/colonoscopy_jnet.yaml +22 -0
  84. endoreg_db/data/finding_classification/colonoscopy_kudo.yaml +25 -0
  85. endoreg_db/data/finding_classification/colonoscopy_lesion_circularity.yaml +20 -0
  86. endoreg_db/data/finding_classification/colonoscopy_lesion_planarity.yaml +24 -0
  87. endoreg_db/data/finding_classification/colonoscopy_lesion_size.yaml +68 -0
  88. endoreg_db/data/finding_classification/colonoscopy_lesion_surface.yaml +20 -0
  89. endoreg_db/data/finding_classification/colonoscopy_location.yaml +80 -0
  90. endoreg_db/data/finding_classification/colonoscopy_lst.yaml +21 -0
  91. endoreg_db/data/finding_classification/colonoscopy_nice.yaml +20 -0
  92. endoreg_db/data/finding_classification/colonoscopy_paris.yaml +26 -0
  93. endoreg_db/data/finding_classification/colonoscopy_sano.yaml +22 -0
  94. endoreg_db/data/finding_classification/colonoscopy_summary.yaml +53 -0
  95. endoreg_db/data/finding_classification/complication_generic.yaml +25 -0
  96. endoreg_db/data/finding_classification/examination_setting_generic.yaml +40 -0
  97. endoreg_db/data/finding_classification/histology_colo.yaml +51 -0
  98. endoreg_db/data/finding_classification/intervention_required.yaml +26 -0
  99. endoreg_db/data/finding_classification/medication_related.yaml +23 -0
  100. endoreg_db/data/finding_classification/visualized.yaml +33 -0
  101. endoreg_db/data/finding_classification_choice/bowel_preparation.yaml +78 -0
  102. endoreg_db/data/finding_classification_choice/colon_lesion_circularity_default.yaml +32 -0
  103. endoreg_db/data/finding_classification_choice/colon_lesion_jnet.yaml +15 -0
  104. endoreg_db/data/finding_classification_choice/colon_lesion_kudo.yaml +23 -0
  105. endoreg_db/data/finding_classification_choice/colon_lesion_lst.yaml +15 -0
  106. endoreg_db/data/finding_classification_choice/colon_lesion_nice.yaml +17 -0
  107. endoreg_db/data/finding_classification_choice/colon_lesion_paris.yaml +57 -0
  108. endoreg_db/data/finding_classification_choice/colon_lesion_planarity_default.yaml +49 -0
  109. endoreg_db/data/finding_classification_choice/colon_lesion_sano.yaml +14 -0
  110. endoreg_db/data/finding_classification_choice/colon_lesion_surface_intact_default.yaml +36 -0
  111. endoreg_db/data/finding_classification_choice/colonoscopy_location.yaml +229 -0
  112. endoreg_db/data/finding_classification_choice/colonoscopy_not_complete_reason.yaml +19 -0
  113. endoreg_db/data/finding_classification_choice/colonoscopy_size.yaml +82 -0
  114. endoreg_db/data/finding_classification_choice/colonoscopy_summary_worst_finding.yaml +15 -0
  115. endoreg_db/data/finding_classification_choice/complication_generic_types.yaml +15 -0
  116. endoreg_db/data/finding_classification_choice/examination_setting_generic_types.yaml +15 -0
  117. endoreg_db/data/finding_classification_choice/histology.yaml +24 -0
  118. endoreg_db/data/finding_classification_choice/histology_polyp.yaml +20 -0
  119. endoreg_db/data/finding_classification_choice/outcome.yaml +19 -0
  120. endoreg_db/data/finding_classification_choice/yes_no_na.yaml +11 -0
  121. endoreg_db/data/finding_classification_type/colonoscopy_basic.yaml +48 -0
  122. endoreg_db/data/finding_intervention/endoscopy.yaml +43 -0
  123. endoreg_db/data/finding_intervention/endoscopy_colonoscopy.yaml +168 -0
  124. endoreg_db/data/finding_intervention/endoscopy_egd.yaml +128 -0
  125. endoreg_db/data/finding_intervention/endoscopy_ercp.yaml +32 -0
  126. endoreg_db/data/finding_intervention/endoscopy_eus_lower.yaml +9 -0
  127. endoreg_db/data/finding_intervention/endoscopy_eus_upper.yaml +36 -0
  128. endoreg_db/data/finding_intervention_type/endoscopy.yaml +15 -0
  129. endoreg_db/data/finding_morphology_classification_type/colonoscopy.yaml +79 -0
  130. endoreg_db/data/finding_type/data.yaml +43 -0
  131. endoreg_db/data/gender/data.yaml +42 -0
  132. endoreg_db/data/information_source/annotation.yaml +6 -0
  133. endoreg_db/data/information_source/data.yaml +30 -0
  134. endoreg_db/data/information_source/endoscopy_guidelines.yaml +7 -0
  135. endoreg_db/data/information_source/medication.yaml +6 -0
  136. endoreg_db/data/information_source/prediction.yaml +7 -0
  137. endoreg_db/data/information_source_type/data.yaml +8 -0
  138. endoreg_db/data/lab_value/cardiac_enzymes.yaml +37 -0
  139. endoreg_db/data/lab_value/coagulation.yaml +54 -0
  140. endoreg_db/data/lab_value/electrolytes.yaml +228 -0
  141. endoreg_db/data/lab_value/gastrointestinal_function.yaml +133 -0
  142. endoreg_db/data/lab_value/hematology.yaml +184 -0
  143. endoreg_db/data/lab_value/hormones.yaml +59 -0
  144. endoreg_db/data/lab_value/lipids.yaml +53 -0
  145. endoreg_db/data/lab_value/misc.yaml +76 -0
  146. endoreg_db/data/lab_value/renal_function.yaml +12 -0
  147. endoreg_db/data/log_type/data.yaml +57 -0
  148. endoreg_db/data/lx_client_tag/base.yaml +54 -0
  149. endoreg_db/data/lx_client_type/base.yaml +30 -0
  150. endoreg_db/data/lx_permission/base.yaml +24 -0
  151. endoreg_db/data/lx_permission/endoreg.yaml +52 -0
  152. endoreg_db/data/material/material.yaml +91 -0
  153. endoreg_db/data/medication/anticoagulation.yaml +65 -0
  154. endoreg_db/data/medication/tah.yaml +70 -0
  155. endoreg_db/data/medication_indication/anticoagulation.yaml +115 -0
  156. endoreg_db/data/medication_indication_type/data.yaml +11 -0
  157. endoreg_db/data/medication_indication_type/thrombembolism.yaml +41 -0
  158. endoreg_db/data/medication_intake_time/base.yaml +31 -0
  159. endoreg_db/data/medication_schedule/apixaban.yaml +95 -0
  160. endoreg_db/data/medication_schedule/ass.yaml +12 -0
  161. endoreg_db/data/medication_schedule/enoxaparin.yaml +26 -0
  162. endoreg_db/data/names_first/first_names.yaml +54 -0
  163. endoreg_db/data/names_last/last_names.yaml +51 -0
  164. endoreg_db/data/network_device/data.yaml +59 -0
  165. endoreg_db/data/network_device_type/data.yaml +12 -0
  166. endoreg_db/data/organ/data.yaml +29 -0
  167. endoreg_db/data/patient_lab_sample_type/generic.yaml +6 -0
  168. endoreg_db/data/pdf_type/data.yaml +46 -0
  169. endoreg_db/data/product/green_endoscopy_dashboard_Product.yaml +66 -0
  170. endoreg_db/data/product_group/green_endoscopy_dashboard_ProductGroup.yaml +33 -0
  171. endoreg_db/data/product_material/green_endoscopy_dashboard_ProductMaterial.yaml +308 -0
  172. endoreg_db/data/product_weight/green_endoscopy_dashboard_ProductWeight.yaml +88 -0
  173. endoreg_db/data/profession/data.yaml +70 -0
  174. endoreg_db/data/qualification/endoscopy.yaml +36 -0
  175. endoreg_db/data/qualification/m2.yaml +39 -0
  176. endoreg_db/data/qualification/outpatient_clinic.yaml +35 -0
  177. endoreg_db/data/qualification/sonography.yaml +36 -0
  178. endoreg_db/data/qualification_type/base.yaml +29 -0
  179. endoreg_db/data/reference_product/green_endoscopy_dashboard_ReferenceProduct.yaml +55 -0
  180. endoreg_db/data/report_reader_flag/rkh-histology-generic.yaml +10 -0
  181. endoreg_db/data/report_reader_flag/ukw-examination-generic.yaml +30 -0
  182. endoreg_db/data/report_reader_flag/ukw-histology-generic.yaml +24 -0
  183. endoreg_db/data/requirement/age.yaml +26 -0
  184. endoreg_db/data/requirement/colonoscopy_baseline_austria.yaml +45 -0
  185. endoreg_db/data/requirement/disease_cardiovascular.yaml +79 -0
  186. endoreg_db/data/requirement/disease_classification_choice_cardiovascular.yaml +41 -0
  187. endoreg_db/data/requirement/disease_hepatology.yaml +12 -0
  188. endoreg_db/data/requirement/disease_misc.yaml +12 -0
  189. endoreg_db/data/requirement/disease_renal.yaml +96 -0
  190. endoreg_db/data/requirement/endoscopy_bleeding_risk.yaml +59 -0
  191. endoreg_db/data/requirement/event_cardiology.yaml +251 -0
  192. endoreg_db/data/requirement/event_requirements.yaml +145 -0
  193. endoreg_db/data/requirement/finding_colon_polyp.yaml +50 -0
  194. endoreg_db/data/requirement/gender.yaml +25 -0
  195. endoreg_db/data/requirement/lab_value.yaml +441 -0
  196. endoreg_db/data/requirement/medication.yaml +93 -0
  197. endoreg_db/data/requirement_operator/age.yaml +13 -0
  198. endoreg_db/data/requirement_operator/lab_operators.yaml +129 -0
  199. endoreg_db/data/requirement_operator/model_operators.yaml +96 -0
  200. endoreg_db/data/requirement_set/01_endoscopy_generic.yaml +48 -0
  201. endoreg_db/data/requirement_set/colonoscopy_austria_screening.yaml +57 -0
  202. endoreg_db/data/requirement_set/endoscopy_bleeding_risk.yaml +52 -0
  203. endoreg_db/data/requirement_set_type/data.yaml +20 -0
  204. endoreg_db/data/requirement_type/requirement_types.yaml +165 -0
  205. endoreg_db/data/resource/green_endoscopy_dashboard_Resource.yaml +15 -0
  206. endoreg_db/data/risk/bleeding.yaml +26 -0
  207. endoreg_db/data/risk/thrombosis.yaml +37 -0
  208. endoreg_db/data/risk_type/data.yaml +27 -0
  209. endoreg_db/data/setup_config.yaml +38 -0
  210. endoreg_db/data/shift/endoscopy.yaml +21 -0
  211. endoreg_db/data/shift/m2.yaml +0 -0
  212. endoreg_db/data/shift_type/base.yaml +35 -0
  213. endoreg_db/data/tag/requirement_set_tags.yaml +11 -0
  214. endoreg_db/data/tmp/chronic_kidney_disease.yaml +0 -0
  215. endoreg_db/data/tmp/congestive_heart_failure.yaml +0 -0
  216. endoreg_db/data/transport_route/green_endoscopy_dashboard_TransportRoute.yaml +12 -0
  217. endoreg_db/data/unit/concentration.yaml +115 -0
  218. endoreg_db/data/unit/data.yaml +17 -0
  219. endoreg_db/data/unit/length.yaml +31 -0
  220. endoreg_db/data/unit/misc.yaml +20 -0
  221. endoreg_db/data/unit/rate.yaml +6 -0
  222. endoreg_db/data/unit/time.yaml +48 -0
  223. endoreg_db/data/unit/volume.yaml +35 -0
  224. endoreg_db/data/unit/weight.yaml +38 -0
  225. endoreg_db/data/waste/data.yaml +12 -0
  226. endoreg_db/exceptions.py +19 -0
  227. endoreg_db/factories/__init__.py +0 -0
  228. endoreg_db/forms/__init__.py +5 -0
  229. endoreg_db/forms/examination_form.py +11 -0
  230. endoreg_db/forms/patient_finding_intervention_form.py +18 -0
  231. endoreg_db/forms/patient_form.py +27 -0
  232. endoreg_db/forms/questionnaires/__init__.py +1 -0
  233. endoreg_db/forms/questionnaires/tto_questionnaire.py +23 -0
  234. endoreg_db/forms/settings/__init__.py +8 -0
  235. endoreg_db/forms/unit.py +6 -0
  236. endoreg_db/helpers/__init__.py +0 -0
  237. endoreg_db/helpers/count_db.py +45 -0
  238. endoreg_db/helpers/data_loader.py +208 -0
  239. endoreg_db/helpers/default_objects.py +378 -0
  240. endoreg_db/helpers/download_segmentation_model.py +31 -0
  241. endoreg_db/helpers/interact.py +6 -0
  242. endoreg_db/helpers/test_video_helper.py +119 -0
  243. endoreg_db/logger_conf.py +140 -0
  244. endoreg_db/management/__init__.py +1 -0
  245. endoreg_db/management/commands/__init__.py +1 -0
  246. endoreg_db/management/commands/anonymize_video.py +0 -0
  247. endoreg_db/management/commands/check_auth.py +125 -0
  248. endoreg_db/management/commands/create_model_meta_from_huggingface.py +115 -0
  249. endoreg_db/management/commands/create_multilabel_model_meta.py +214 -0
  250. endoreg_db/management/commands/fix_missing_patient_data.py +172 -0
  251. endoreg_db/management/commands/fix_video_paths.py +165 -0
  252. endoreg_db/management/commands/import_fallback_video.py +203 -0
  253. endoreg_db/management/commands/import_report.py +298 -0
  254. endoreg_db/management/commands/import_video.py +423 -0
  255. endoreg_db/management/commands/import_video_with_classification.py +367 -0
  256. endoreg_db/management/commands/init_default_ai_model.py +112 -0
  257. endoreg_db/management/commands/load_ai_model_data.py +77 -0
  258. endoreg_db/management/commands/load_ai_model_label_data.py +59 -0
  259. endoreg_db/management/commands/load_base_db_data.py +192 -0
  260. endoreg_db/management/commands/load_center_data.py +68 -0
  261. endoreg_db/management/commands/load_contraindication_data.py +41 -0
  262. endoreg_db/management/commands/load_disease_classification_choices_data.py +41 -0
  263. endoreg_db/management/commands/load_disease_classification_data.py +41 -0
  264. endoreg_db/management/commands/load_disease_data.py +62 -0
  265. endoreg_db/management/commands/load_distribution_data.py +66 -0
  266. endoreg_db/management/commands/load_endoscope_data.py +68 -0
  267. endoreg_db/management/commands/load_event_data.py +41 -0
  268. endoreg_db/management/commands/load_examination_data.py +75 -0
  269. endoreg_db/management/commands/load_examination_indication_data.py +86 -0
  270. endoreg_db/management/commands/load_finding_data.py +128 -0
  271. endoreg_db/management/commands/load_gender_data.py +44 -0
  272. endoreg_db/management/commands/load_green_endoscopy_wuerzburg_data.py +132 -0
  273. endoreg_db/management/commands/load_information_source.py +51 -0
  274. endoreg_db/management/commands/load_lab_value_data.py +50 -0
  275. endoreg_db/management/commands/load_medication_data.py +103 -0
  276. endoreg_db/management/commands/load_name_data.py +37 -0
  277. endoreg_db/management/commands/load_organ_data.py +43 -0
  278. endoreg_db/management/commands/load_pdf_type_data.py +61 -0
  279. endoreg_db/management/commands/load_profession_data.py +44 -0
  280. endoreg_db/management/commands/load_qualification_data.py +59 -0
  281. endoreg_db/management/commands/load_report_reader_flag_data.py +46 -0
  282. endoreg_db/management/commands/load_requirement_data.py +180 -0
  283. endoreg_db/management/commands/load_risk_data.py +56 -0
  284. endoreg_db/management/commands/load_shift_data.py +60 -0
  285. endoreg_db/management/commands/load_tag_data.py +57 -0
  286. endoreg_db/management/commands/load_unit_data.py +46 -0
  287. endoreg_db/management/commands/load_user_groups.py +28 -0
  288. endoreg_db/management/commands/register_ai_model.py +64 -0
  289. endoreg_db/management/commands/reset_celery_schedule.py +9 -0
  290. endoreg_db/management/commands/setup_endoreg_db.py +381 -0
  291. endoreg_db/management/commands/start_filewatcher.py +106 -0
  292. endoreg_db/management/commands/storage_management.py +548 -0
  293. endoreg_db/management/commands/summarize_db_content.py +189 -0
  294. endoreg_db/management/commands/validate_video.py +204 -0
  295. endoreg_db/management/commands/validate_video_files.py +161 -0
  296. endoreg_db/management/commands/video_validation.py +22 -0
  297. endoreg_db/mermaid/Overall_flow_patient_finding_intervention.md +10 -0
  298. endoreg_db/mermaid/anonymized_image_annotation.md +20 -0
  299. endoreg_db/mermaid/binary_classification_annotation.md +50 -0
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  607. endoreg_db/tasks/video_processing_tasks.py +327 -0
  608. endoreg_db/templates/admin/patient_finding_intervention.html +253 -0
  609. endoreg_db/templates/admin/start_examination.html +12 -0
  610. endoreg_db/templates/timeline.html +176 -0
  611. endoreg_db/urls/__init__.py +70 -0
  612. endoreg_db/urls/anonymization.py +32 -0
  613. endoreg_db/urls/auth.py +16 -0
  614. endoreg_db/urls/classification.py +39 -0
  615. endoreg_db/urls/examination.py +54 -0
  616. endoreg_db/urls/files.py +6 -0
  617. endoreg_db/urls/label_video_segment_validate.py +33 -0
  618. endoreg_db/urls/label_video_segments.py +44 -0
  619. endoreg_db/urls/media.py +226 -0
  620. endoreg_db/urls/patient.py +19 -0
  621. endoreg_db/urls/report.py +48 -0
  622. endoreg_db/urls/requirements.py +13 -0
  623. endoreg_db/urls/sensitive_meta.py +0 -0
  624. endoreg_db/urls/stats.py +46 -0
  625. endoreg_db/urls/upload.py +20 -0
  626. endoreg_db/urls/video.py +61 -0
  627. endoreg_db/urls.py +9 -0
  628. endoreg_db/utils/__init__.py +88 -0
  629. endoreg_db/utils/ai/__init__.py +9 -0
  630. endoreg_db/utils/ai/get.py +5 -0
  631. endoreg_db/utils/ai/inference_dataset.py +52 -0
  632. endoreg_db/utils/ai/multilabel_classification_net.py +159 -0
  633. endoreg_db/utils/ai/postprocess.py +63 -0
  634. endoreg_db/utils/ai/predict.py +291 -0
  635. endoreg_db/utils/ai/preprocess.py +68 -0
  636. endoreg_db/utils/calc_duration_seconds.py +24 -0
  637. endoreg_db/utils/case_generator/__init__.py +0 -0
  638. endoreg_db/utils/case_generator/case_generator.py +159 -0
  639. endoreg_db/utils/case_generator/lab_sample_factory.py +33 -0
  640. endoreg_db/utils/case_generator/utils.py +30 -0
  641. endoreg_db/utils/check_video_files.py +148 -0
  642. endoreg_db/utils/cropping.py +29 -0
  643. endoreg_db/utils/dataloader.py +175 -0
  644. endoreg_db/utils/dates.py +60 -0
  645. endoreg_db/utils/env.py +33 -0
  646. endoreg_db/utils/extract_specific_frames.py +72 -0
  647. endoreg_db/utils/file_operations.py +58 -0
  648. endoreg_db/utils/fix_video_path_direct.py +141 -0
  649. endoreg_db/utils/frame_anonymization_utils.py +463 -0
  650. endoreg_db/utils/hashs.py +153 -0
  651. endoreg_db/utils/links/__init__.py +0 -0
  652. endoreg_db/utils/links/requirement_link.py +193 -0
  653. endoreg_db/utils/mime_types.py +0 -0
  654. endoreg_db/utils/names.py +76 -0
  655. endoreg_db/utils/ocr.py +190 -0
  656. endoreg_db/utils/parse_and_generate_yaml.py +46 -0
  657. endoreg_db/utils/paths.py +95 -0
  658. endoreg_db/utils/permissions.py +143 -0
  659. endoreg_db/utils/pipelines/Readme.md +235 -0
  660. endoreg_db/utils/pipelines/__init__.py +0 -0
  661. endoreg_db/utils/pipelines/process_video_dir.py +120 -0
  662. endoreg_db/utils/product/__init__.py +0 -0
  663. endoreg_db/utils/product/sum_emissions.py +20 -0
  664. endoreg_db/utils/product/sum_weights.py +18 -0
  665. endoreg_db/utils/pydantic_models/__init__.py +6 -0
  666. endoreg_db/utils/pydantic_models/db_config.py +57 -0
  667. endoreg_db/utils/requirement_helpers.py +0 -0
  668. endoreg_db/utils/requirement_operator_logic/__init__.py +0 -0
  669. endoreg_db/utils/requirement_operator_logic/lab_value_operators.py +578 -0
  670. endoreg_db/utils/requirement_operator_logic/model_evaluators.py +368 -0
  671. endoreg_db/utils/setup_config.py +177 -0
  672. endoreg_db/utils/translation.py +27 -0
  673. endoreg_db/utils/uuid.py +4 -0
  674. endoreg_db/utils/validate_endo_roi.py +19 -0
  675. endoreg_db/utils/validate_subcategory_dict.py +91 -0
  676. endoreg_db/utils/validate_video_detailed.py +357 -0
  677. endoreg_db/utils/video/__init__.py +26 -0
  678. endoreg_db/utils/video/extract_frames.py +88 -0
  679. endoreg_db/utils/video/ffmpeg_wrapper.py +835 -0
  680. endoreg_db/utils/video/names.py +42 -0
  681. endoreg_db/utils/video/streaming_processor.py +312 -0
  682. endoreg_db/utils/video/video_splitter.py +94 -0
  683. endoreg_db/views/Frames_NICE_and_PARIS_classifications_views.py +238 -0
  684. endoreg_db/views/__init__.py +272 -0
  685. endoreg_db/views/anonymization/__init__.py +27 -0
  686. endoreg_db/views/anonymization/media_management.py +454 -0
  687. endoreg_db/views/anonymization/overview.py +216 -0
  688. endoreg_db/views/anonymization/validate.py +107 -0
  689. endoreg_db/views/auth/__init__.py +13 -0
  690. endoreg_db/views/auth/keycloak.py +113 -0
  691. endoreg_db/views/examination/__init__.py +33 -0
  692. endoreg_db/views/examination/examination.py +37 -0
  693. endoreg_db/views/examination/examination_manifest_cache.py +26 -0
  694. endoreg_db/views/examination/get_finding_classification_choices.py +59 -0
  695. endoreg_db/views/examination/get_finding_classifications.py +36 -0
  696. endoreg_db/views/examination/get_findings.py +41 -0
  697. endoreg_db/views/examination/get_instruments.py +18 -0
  698. endoreg_db/views/examination/get_interventions.py +14 -0
  699. endoreg_db/views/finding/__init__.py +9 -0
  700. endoreg_db/views/finding/finding.py +112 -0
  701. endoreg_db/views/finding/get_classifications.py +14 -0
  702. endoreg_db/views/finding/get_interventions.py +17 -0
  703. endoreg_db/views/finding_classification/__init__.py +13 -0
  704. endoreg_db/views/finding_classification/base.py +0 -0
  705. endoreg_db/views/finding_classification/finding_classification.py +42 -0
  706. endoreg_db/views/finding_classification/get_classification_choices.py +55 -0
  707. endoreg_db/views/label/__init__.py +5 -0
  708. endoreg_db/views/label/label.py +15 -0
  709. endoreg_db/views/label_video_segment/__init__.py +16 -0
  710. endoreg_db/views/label_video_segment/create_lvs_from_annotation.py +44 -0
  711. endoreg_db/views/label_video_segment/get_lvs_by_name_and_video.py +50 -0
  712. endoreg_db/views/label_video_segment/label_video_segment.py +77 -0
  713. endoreg_db/views/label_video_segment/label_video_segment_by_label.py +174 -0
  714. endoreg_db/views/label_video_segment/label_video_segment_detail.py +73 -0
  715. endoreg_db/views/label_video_segment/update_lvs_from_annotation.py +46 -0
  716. endoreg_db/views/label_video_segment/validate.py +226 -0
  717. endoreg_db/views/media/__init__.py +45 -0
  718. endoreg_db/views/media/pdf_media.py +386 -0
  719. endoreg_db/views/media/segments.py +71 -0
  720. endoreg_db/views/media/sensitive_metadata.py +314 -0
  721. endoreg_db/views/media/video_media.py +272 -0
  722. endoreg_db/views/media/video_segments.py +524 -0
  723. endoreg_db/views/meta/__init__.py +15 -0
  724. endoreg_db/views/meta/available_files_list.py +146 -0
  725. endoreg_db/views/meta/report_meta.py +53 -0
  726. endoreg_db/views/meta/sensitive_meta_detail.py +148 -0
  727. endoreg_db/views/meta/sensitive_meta_list.py +104 -0
  728. endoreg_db/views/meta/sensitive_meta_verification.py +71 -0
  729. endoreg_db/views/misc/__init__.py +63 -0
  730. endoreg_db/views/misc/center.py +13 -0
  731. endoreg_db/views/misc/csrf.py +7 -0
  732. endoreg_db/views/misc/gender.py +14 -0
  733. endoreg_db/views/misc/secure_file_serving_view.py +80 -0
  734. endoreg_db/views/misc/secure_file_url_view.py +84 -0
  735. endoreg_db/views/misc/secure_url_validate.py +79 -0
  736. endoreg_db/views/misc/stats.py +220 -0
  737. endoreg_db/views/misc/translation.py +182 -0
  738. endoreg_db/views/misc/upload_views.py +240 -0
  739. endoreg_db/views/patient/__init__.py +5 -0
  740. endoreg_db/views/patient/patient.py +210 -0
  741. endoreg_db/views/patient_examination/DEPRECATED_video_backup.py +164 -0
  742. endoreg_db/views/patient_examination/__init__.py +11 -0
  743. endoreg_db/views/patient_examination/patient_examination.py +140 -0
  744. endoreg_db/views/patient_examination/patient_examination_create.py +63 -0
  745. endoreg_db/views/patient_examination/patient_examination_detail.py +66 -0
  746. endoreg_db/views/patient_examination/patient_examination_list.py +68 -0
  747. endoreg_db/views/patient_examination/video.py +194 -0
  748. endoreg_db/views/patient_finding/__init__.py +7 -0
  749. endoreg_db/views/patient_finding/base.py +0 -0
  750. endoreg_db/views/patient_finding/patient_finding.py +64 -0
  751. endoreg_db/views/patient_finding/patient_finding_optimized.py +259 -0
  752. endoreg_db/views/patient_finding_classification/__init__.py +5 -0
  753. endoreg_db/views/patient_finding_classification/pfc_create.py +67 -0
  754. endoreg_db/views/patient_finding_location/__init__.py +5 -0
  755. endoreg_db/views/patient_finding_location/pfl_create.py +70 -0
  756. endoreg_db/views/patient_finding_morphology/__init__.py +5 -0
  757. endoreg_db/views/patient_finding_morphology/pfm_create.py +70 -0
  758. endoreg_db/views/pdf/__init__.py +11 -0
  759. endoreg_db/views/pdf/pdf_media.py +239 -0
  760. endoreg_db/views/pdf/pdf_stream_views.py +127 -0
  761. endoreg_db/views/pdf/reimport.py +161 -0
  762. endoreg_db/views/report/__init__.py +9 -0
  763. endoreg_db/views/report/report_list.py +112 -0
  764. endoreg_db/views/report/report_with_secure_url.py +28 -0
  765. endoreg_db/views/report/start_examination.py +7 -0
  766. endoreg_db/views/requirement/__init__.py +10 -0
  767. endoreg_db/views/requirement/evaluate.py +279 -0
  768. endoreg_db/views/requirement/lookup.py +483 -0
  769. endoreg_db/views/requirement/lookup_store.py +252 -0
  770. endoreg_db/views/requirement_lookup/lookup.py +0 -0
  771. endoreg_db/views/requirement_lookup/lookup_store.py +0 -0
  772. endoreg_db/views/stats/__init__.py +13 -0
  773. endoreg_db/views/stats/stats_views.py +229 -0
  774. endoreg_db/views/video/__init__.py +61 -0
  775. endoreg_db/views/video/correction.py +530 -0
  776. endoreg_db/views/video/reimport.py +195 -0
  777. endoreg_db/views/video/segmentation.py +274 -0
  778. endoreg_db/views/video/task_status.py +49 -0
  779. endoreg_db/views/video/timeline.py +46 -0
  780. endoreg_db/views/video/video_analyze.py +52 -0
  781. endoreg_db/views/video/video_apply_mask.py +48 -0
  782. endoreg_db/views/video/video_correction.py +21 -0
  783. endoreg_db/views/video/video_download_processed.py +58 -0
  784. endoreg_db/views/video/video_examination_viewset.py +329 -0
  785. endoreg_db/views/video/video_media.py +158 -0
  786. endoreg_db/views/video/video_meta.py +29 -0
  787. endoreg_db/views/video/video_processing_history.py +24 -0
  788. endoreg_db/views/video/video_remove_frames.py +48 -0
  789. endoreg_db/views/video/video_stream.py +306 -0
  790. endoreg_db/views.py +0 -0
  791. endoreg_db-0.8.5.1.dist-info/METADATA +383 -0
  792. endoreg_db-0.8.5.1.dist-info/RECORD +794 -0
  793. endoreg_db-0.8.5.1.dist-info/WHEEL +4 -0
  794. endoreg_db-0.8.5.1.dist-info/licenses/LICENSE +674 -0
@@ -0,0 +1,483 @@
1
+ # api/viewsets/lookup.py
2
+
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+ from rest_framework import viewsets, status
4
+
5
+ from rest_framework.decorators import action
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+
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+ from rest_framework.response import Response
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+
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+
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+ from rest_framework.parsers import JSONParser, FormParser, MultiPartParser
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+
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+
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+ from endoreg_db.services.lookup_store import LookupStore, DEFAULT_TTL_SECONDS
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+
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+
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+ # Use module import so tests can monkeypatch functions on the module
17
+
18
+
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+ from endoreg_db.services import lookup_service as ls
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+
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+
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+ from endoreg_db.utils.permissions import EnvironmentAwarePermission
23
+
24
+
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+ from django.core.cache import cache
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+
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+
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+ import logging
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+
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+
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+ from ast import literal_eval
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+
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+
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+ from collections.abc import Mapping
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+
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+
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+
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+
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+
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+ ORIGIN_MAP_PREFIX = "lookup:origin:"
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+
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+
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+ ISSUED_MAP_PREFIX = "lookup:issued_for_internal:"
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+
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+
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+
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+
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+
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+ logger = logging.getLogger(__name__)
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+
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+
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+
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+ class LookupViewSet(viewsets.ViewSet):
54
+
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+
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+ permission_classes = [EnvironmentAwarePermission]
57
+
58
+
59
+ parser_classes = (JSONParser, FormParser, MultiPartParser)
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+
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+
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+
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+
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+
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+
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+
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+
68
+
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+ INPUT_KEYS = {"patient_examination_id", "selectedRequirementSetIds", "selectedChoices"}
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+
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+
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+
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+ @action(detail=False, methods=["post"])
74
+
75
+ def init(self, request):
76
+
77
+
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+
79
+
80
+ try:
81
+
82
+
83
+ debug_data = getattr(request, 'data', None)
84
+
85
+
86
+ raw_post = getattr(getattr(request, '_request', None), 'POST', None)
87
+
88
+
89
+ body_preview = None
90
+
91
+
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+ try:
93
+
94
+
95
+ body = getattr(getattr(request, '_request', None), 'body', b'')
96
+
97
+
98
+ body_preview = body[:200]
99
+
100
+
101
+ except Exception:
102
+
103
+
104
+ body_preview = None
105
+
106
+
107
+ logger.debug("lookup.init incoming: data=%r POST=%r body[:200]=%r", debug_data, raw_post, body_preview)
108
+
109
+
110
+ except Exception:
111
+
112
+
113
+ pass
114
+
115
+
116
+
117
+
118
+
119
+ # Prefer DRF data
120
+
121
+
122
+ raw_pe = request.data.get("patient_examination_id") if hasattr(request, "data") else None
123
+
124
+
125
+
126
+
127
+
128
+ # Fallback: parse malformed form payload where the entire dict was sent as a single key string
129
+
130
+
131
+ if raw_pe is None:
132
+
133
+
134
+ for candidate in (getattr(getattr(request, '_request', None), 'POST', None), request.data if hasattr(request, 'data') else None):
135
+
136
+
137
+ try:
138
+
139
+
140
+ if isinstance(candidate, Mapping) and len(candidate.keys()) == 1:
141
+
142
+
143
+ only_key = next(iter(candidate.keys()))
144
+
145
+
146
+ if isinstance(only_key, str) and only_key.startswith('{') and only_key.endswith('}'):
147
+
148
+
149
+ try:
150
+
151
+
152
+ parsed = literal_eval(only_key)
153
+
154
+
155
+ if isinstance(parsed, dict) and 'patient_examination_id' in parsed:
156
+
157
+
158
+ raw_pe = parsed.get('patient_examination_id')
159
+
160
+
161
+ logger.debug("lookup.init recovered pe_id from malformed payload: %r", raw_pe)
162
+
163
+
164
+ break
165
+
166
+
167
+ except Exception:
168
+
169
+
170
+ pass
171
+
172
+
173
+ except Exception:
174
+
175
+
176
+ pass
177
+
178
+
179
+
180
+
181
+
182
+ # Fallback to query params
183
+
184
+
185
+ if raw_pe is None:
186
+
187
+
188
+ raw_pe = request.query_params.get("patient_examination_id")
189
+
190
+
191
+
192
+
193
+
194
+ logger.debug("lookup.init raw_pe=%r type=%s", raw_pe, type(raw_pe))
195
+
196
+
197
+
198
+
199
+
200
+ # Normalize potential list/tuple inputs (e.g., from form submissions)
201
+
202
+
203
+ if isinstance(raw_pe, (list, tuple)):
204
+
205
+
206
+ raw_pe = raw_pe[0] if raw_pe else None
207
+
208
+
209
+ if raw_pe in (None, ""):
210
+
211
+
212
+ return Response({"detail": "patient_examination_id must be an integer"}, status=status.HTTP_400_BAD_REQUEST)
213
+
214
+
215
+
216
+
217
+
218
+ # Coerce to int robustly
219
+
220
+
221
+ try:
222
+
223
+
224
+ pe_id = int(str(raw_pe))
225
+
226
+
227
+ except (TypeError, ValueError):
228
+
229
+
230
+ logger.warning("lookup.init failed to int() raw_pe=%r", raw_pe)
231
+
232
+
233
+ return Response({"detail": "patient_examination_id must be an integer"}, status=status.HTTP_400_BAD_REQUEST)
234
+
235
+
236
+ if pe_id <= 0:
237
+
238
+
239
+ return Response({"detail": "patient_examination_id must be positive"}, status=status.HTTP_400_BAD_REQUEST)
240
+
241
+
242
+
243
+
244
+
245
+ try:
246
+
247
+
248
+ # Create internal session via service (may seed its own token/cache)
249
+
250
+
251
+ internal_token = ls.create_lookup_token_for_pe(pe_id)
252
+
253
+
254
+ internal_data = LookupStore(token=internal_token).get_all()
255
+
256
+
257
+
258
+
259
+
260
+ issued_key = f"{ISSUED_MAP_PREFIX}{internal_token}"
261
+
262
+
263
+ issued_count = cache.get(issued_key, 0)
264
+
265
+
266
+
267
+
268
+
269
+ if issued_count == 0:
270
+
271
+
272
+ # First issuance: return the service token directly
273
+
274
+
275
+ token_to_return = internal_token
276
+
277
+
278
+ cache.set(issued_key, 1, DEFAULT_TTL_SECONDS)
279
+
280
+
281
+ else:
282
+
283
+
284
+ # Subsequent inits for same internal token: issue a fresh public token seeded with internal data
285
+
286
+
287
+ public_store = LookupStore()
288
+
289
+
290
+ token_to_return = public_store.init(initial=internal_data, ttl=DEFAULT_TTL_SECONDS)
291
+
292
+
293
+ cache.set(issued_key, issued_count + 1, DEFAULT_TTL_SECONDS)
294
+
295
+
296
+
297
+
298
+
299
+ # Persist origin mapping so we can restart expired sessions
300
+
301
+
302
+ cache.set(f"{ORIGIN_MAP_PREFIX}{token_to_return}", pe_id, DEFAULT_TTL_SECONDS)
303
+
304
+ except Exception as e:
305
+
306
+ return Response({"detail": str(e)}, status=status.HTTP_400_BAD_REQUEST)
307
+
308
+
309
+ return Response({"token": token_to_return}, status=status.HTTP_201_CREATED)
310
+
311
+
312
+
313
+ @action(detail=True, methods=["get"], url_path="all")
314
+
315
+ def get_all(self, request, pk=None):
316
+
317
+
318
+ if not pk:
319
+
320
+
321
+ return Response({"detail": "Token required"}, status=status.HTTP_404_NOT_FOUND)
322
+
323
+ store = LookupStore(token=pk)
324
+
325
+
326
+ try:
327
+
328
+
329
+ validated_data = store.validate_and_recover_data(pk)
330
+
331
+
332
+ except Exception:
333
+
334
+
335
+ validated_data = None
336
+
337
+ if validated_data is None:
338
+
339
+
340
+ # Try automatic restart once using persisted origin mapping
341
+
342
+
343
+ pe_id = cache.get(f"{ORIGIN_MAP_PREFIX}{pk}")
344
+
345
+
346
+ if pe_id:
347
+
348
+
349
+ try:
350
+
351
+
352
+ internal_token = ls.create_lookup_token_for_pe(int(pe_id))
353
+
354
+
355
+ new_data = LookupStore(token=internal_token).get_all()
356
+
357
+
358
+ if not new_data:
359
+
360
+
361
+ return Response({"error": "Lookup data not available after restart", "token": pk}, status=status.HTTP_404_NOT_FOUND)
362
+
363
+
364
+ return Response(new_data, status=status.HTTP_200_OK)
365
+
366
+
367
+ except Exception:
368
+
369
+
370
+ pass
371
+
372
+
373
+ return Response({"error": "Lookup data not found or expired", "token": pk}, status=status.HTTP_404_NOT_FOUND)
374
+
375
+ return Response(store.get_all())
376
+
377
+
378
+
379
+ @action(detail=True, methods=["get", "patch"], url_path="parts")
380
+
381
+ def parts(self, request, pk=None):
382
+
383
+
384
+ if not pk:
385
+
386
+
387
+ return Response({"detail": "Token required"}, status=status.HTTP_404_NOT_FOUND)
388
+
389
+ store = LookupStore(token=pk)
390
+
391
+
392
+
393
+ if request.method == "GET":
394
+
395
+ keys_param = request.query_params.get("keys", "")
396
+
397
+ keys = [k.strip() for k in keys_param.split(",") if k.strip()]
398
+
399
+ if not keys:
400
+
401
+ return Response({"detail": "Provide ?keys=key1,key2"}, status=status.HTTP_400_BAD_REQUEST)
402
+
403
+
404
+ try:
405
+
406
+
407
+ return Response(store.get_many(keys))
408
+
409
+
410
+ except Exception:
411
+
412
+
413
+ return Response({"detail": "Lookup data not found or expired"}, status=status.HTTP_404_NOT_FOUND)
414
+
415
+
416
+
417
+ # PATCH
418
+
419
+ updates = request.data.get("updates", {})
420
+
421
+
422
+ if not isinstance(updates, dict) or not updates:
423
+
424
+
425
+ return Response({"detail": "updates must be a non-empty object"}, status=status.HTTP_400_BAD_REQUEST)
426
+
427
+
428
+
429
+ store.set_many(updates)
430
+
431
+
432
+
433
+ if any(key in self.INPUT_KEYS for key in updates.keys()):
434
+
435
+ try:
436
+
437
+
438
+ ls.recompute_lookup(pk)
439
+
440
+ except Exception as e:
441
+
442
+ import logging
443
+
444
+
445
+ logging.getLogger(__name__).error("Failed to recompute after patch for token %s: %s", pk, e)
446
+
447
+
448
+
449
+ return Response({"ok": True, "token": pk}, status=status.HTTP_200_OK)
450
+
451
+
452
+
453
+ @action(detail=True, methods=["post"], url_path="recompute")
454
+
455
+ def recompute(self, request, pk=None):
456
+
457
+ """Recompute lookup data based on current PatientExamination and user selections"""
458
+
459
+
460
+ if not pk:
461
+
462
+
463
+ return Response({"detail": "Token required"}, status=status.HTTP_404_NOT_FOUND)
464
+
465
+ try:
466
+
467
+
468
+ updates = ls.recompute_lookup(pk)
469
+
470
+
471
+ return Response({"ok": True, "token": pk, "updates": updates}, status=status.HTTP_200_OK)
472
+
473
+
474
+
475
+
476
+
477
+ except ValueError as e:
478
+
479
+ return Response({"detail": str(e)}, status=status.HTTP_404_NOT_FOUND)
480
+
481
+ except Exception as e:
482
+
483
+ return Response({"detail": str(e)}, status=status.HTTP_400_BAD_REQUEST)
@@ -0,0 +1,252 @@
1
+ # services/lookup_store.py
2
+
3
+ from __future__ import annotations
4
+
5
+ import uuid
6
+
7
+ from typing import Any, Dict, Iterable, Optional
8
+
9
+ from django.core.cache import cache
10
+
11
+
12
+ from django.conf import settings
13
+
14
+ from endoreg_db.models.medical import PatientExamination
15
+
16
+
17
+
18
+ # Align TTL with Django cache TIMEOUT for consistency in tests and runtime
19
+
20
+
21
+ try:
22
+
23
+
24
+ DEFAULT_TTL_SECONDS = int(settings.CACHES.get('default', {}).get('TIMEOUT', 60 * 30))
25
+
26
+
27
+ except Exception:
28
+
29
+
30
+ DEFAULT_TTL_SECONDS = 60 * 30 # 30 minutes fallback
31
+
32
+
33
+
34
+ class LookupStore:
35
+
36
+ """
37
+
38
+ Server-side lookup dictionary stored in Django cache.
39
+
40
+ Return a token to the client; later requests use that token to get/update parts.
41
+
42
+ """
43
+
44
+ def __init__(self, token: Optional[str] = None):
45
+
46
+ self.token = token or uuid.uuid4().hex
47
+
48
+
49
+
50
+ @property
51
+
52
+ def cache_key(self) -> str:
53
+
54
+ return f"lookup:{self.token}"
55
+
56
+
57
+
58
+ def init(self, initial: Optional[Dict[str, Any]] = None, ttl: int = DEFAULT_TTL_SECONDS) -> str:
59
+
60
+ cache.set(self.cache_key, initial or {}, ttl)
61
+
62
+ return self.token
63
+
64
+
65
+
66
+ def get_all(self) -> Dict[str, Any]:
67
+
68
+ return cache.get(self.cache_key, {})
69
+
70
+
71
+
72
+ def get_many(self, keys: Iterable[str]) -> Dict[str, Any]:
73
+
74
+ data = self.get_all()
75
+
76
+ return {k: data.get(k) for k in keys}
77
+
78
+
79
+
80
+ def set_many(self, updates: Dict[str, Any], ttl: int = DEFAULT_TTL_SECONDS) -> None:
81
+
82
+ data = self.get_all()
83
+
84
+ data.update(updates)
85
+
86
+ cache.set(self.cache_key, data, ttl)
87
+
88
+
89
+
90
+ def get(self, key: str, default: Any = None) -> Any:
91
+
92
+ return self.get_all().get(key, default)
93
+
94
+
95
+
96
+ def set(self, key: str, value: Any, ttl: int = DEFAULT_TTL_SECONDS) -> None:
97
+
98
+ data = self.get_all()
99
+
100
+ data[key] = value
101
+
102
+ cache.set(self.cache_key, data, ttl)
103
+
104
+
105
+
106
+ def delete(self) -> None:
107
+
108
+ cache.delete(self.cache_key)
109
+
110
+
111
+
112
+ def patch(self, updates: Dict[str, Any], ttl: int = DEFAULT_TTL_SECONDS) -> None:
113
+
114
+ """Patch existing data with updates."""
115
+
116
+ data = self.get_all()
117
+
118
+ data.update(updates)
119
+
120
+ cache.set(self.cache_key, data, ttl)
121
+
122
+
123
+
124
+
125
+
126
+ def validate_and_recover_data(self, token):
127
+
128
+ """Validate stored data and attempt recovery if corrupted"""
129
+
130
+ data = self.get_all()
131
+
132
+
133
+
134
+ if not data:
135
+
136
+ return None
137
+
138
+
139
+
140
+ # Check if required fields are present
141
+
142
+ required_fields = ['patient_examination_id', 'requirementsBySet', 'requirementStatus']
143
+
144
+ missing_fields = [field for field in required_fields if field not in data]
145
+
146
+
147
+
148
+ if missing_fields:
149
+
150
+ import logging
151
+
152
+ logger = logging.getLogger(__name__)
153
+
154
+ logger.warning(f"Missing fields in lookup data for token {token}: {missing_fields}")
155
+
156
+
157
+
158
+ # Try to recover patient_examination_id from token or related data
159
+
160
+ if 'patient_examination_id' in missing_fields:
161
+
162
+ # Attempt to extract from token or find related examination
163
+
164
+ recovered_id = self._recover_patient_examination_id(token)
165
+
166
+ if recovered_id:
167
+
168
+ data['patient_examination_id'] = recovered_id
169
+
170
+ logger.info(f"Recovered patient_examination_id {recovered_id} for token {token}")
171
+
172
+
173
+
174
+ # Do not automatically recompute here to avoid loops
175
+
176
+
177
+ # Recompute is only triggered by PATCH or explicit POST /recompute/
178
+
179
+ # For now, just return the data as is
180
+
181
+
182
+
183
+ return data
184
+
185
+
186
+
187
+ def _recover_patient_examination_id(self, token: str) -> Optional[str]:
188
+
189
+ """
190
+
191
+ Placeholder for recovering patient_examination_id.
192
+
193
+ This should be implemented with logic to find the ID based on the token or other data.
194
+
195
+ """
196
+
197
+ # In a real implementation, you might query a database or another service.
198
+
199
+ # For now, we return None as recovery logic is not defined.
200
+
201
+ return None
202
+
203
+
204
+
205
+ def should_recompute(self, token):
206
+
207
+ """Check if recomputation is needed based on data freshness"""
208
+
209
+ data = self.get_all()
210
+
211
+ if not data:
212
+
213
+ return True
214
+
215
+
216
+
217
+ # Check if we have a last_recompute timestamp
218
+
219
+ last_recompute = data.get('_last_recompute')
220
+
221
+ if not last_recompute:
222
+
223
+ return True
224
+
225
+
226
+
227
+ # Only recompute if it's been more than 30 seconds since last recompute
228
+
229
+ # This prevents excessive recomputation while allowing for updates
230
+
231
+ from datetime import datetime, timedelta
232
+
233
+ try:
234
+
235
+ last_recompute_time = datetime.fromisoformat(last_recompute)
236
+
237
+ return datetime.now() - last_recompute_time > timedelta(seconds=30)
238
+
239
+ except (ValueError, TypeError):
240
+
241
+ return True
242
+
243
+
244
+
245
+ def mark_recompute_done(self):
246
+
247
+ """Mark that recomputation has been completed"""
248
+
249
+ from datetime import datetime
250
+
251
+ self.set('_last_recompute', datetime.now().isoformat())
252
+
File without changes
File without changes