endoreg-db 0.8.9.32__py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Potentially problematic release.


This version of endoreg-db might be problematic. Click here for more details.

Files changed (787) hide show
  1. endoreg_db/__init__.py +0 -0
  2. endoreg_db/_version.py +34 -0
  3. endoreg_db/admin.py +97 -0
  4. endoreg_db/api/serializers/finding_descriptions.py +0 -0
  5. endoreg_db/api/views/finding_descriptions.py +0 -0
  6. endoreg_db/api_urls.py +4 -0
  7. endoreg_db/apps.py +17 -0
  8. endoreg_db/assets/dummy_model.ckpt +1 -0
  9. endoreg_db/authz/auth.py +78 -0
  10. endoreg_db/authz/backends.py +168 -0
  11. endoreg_db/authz/management/commands/list_routes.py +20 -0
  12. endoreg_db/authz/middleware.py +84 -0
  13. endoreg_db/authz/permissions.py +138 -0
  14. endoreg_db/authz/policy.py +224 -0
  15. endoreg_db/authz/settings.py +64 -0
  16. endoreg_db/authz/views_auth.py +70 -0
  17. endoreg_db/codemods/readme.md +88 -0
  18. endoreg_db/codemods/rename_datetime_fields.py +99 -0
  19. endoreg_db/config/__init__.py +0 -0
  20. endoreg_db/config/env.py +106 -0
  21. endoreg_db/config/settings/__init__.py +6 -0
  22. endoreg_db/config/settings/base.py +148 -0
  23. endoreg_db/config/settings/case_gen.py +32 -0
  24. endoreg_db/config/settings/dev.py +108 -0
  25. endoreg_db/config/settings/keycloak.py +177 -0
  26. endoreg_db/config/settings/prod.py +66 -0
  27. endoreg_db/config/settings/test.py +72 -0
  28. endoreg_db/data/__init__.py +135 -0
  29. endoreg_db/data/ai_model/data.yaml +7 -0
  30. endoreg_db/data/ai_model_label/label/data.yaml +88 -0
  31. endoreg_db/data/ai_model_label/label/polyp_classification.yaml +52 -0
  32. endoreg_db/data/ai_model_label/label-set/data.yaml +40 -0
  33. endoreg_db/data/ai_model_label/label-set/polyp_classifications.yaml +25 -0
  34. endoreg_db/data/ai_model_label/label-type/data.yaml +7 -0
  35. endoreg_db/data/ai_model_meta/default_multilabel_classification.yaml +27 -0
  36. endoreg_db/data/ai_model_type/data.yaml +7 -0
  37. endoreg_db/data/ai_model_video_segmentation_label/base_segmentation.yaml +176 -0
  38. endoreg_db/data/ai_model_video_segmentation_labelset/data.yaml +20 -0
  39. endoreg_db/data/case_template/rule/00_patient_lab_sample_add_default_value.yaml +167 -0
  40. endoreg_db/data/case_template/rule/01_patient-set-age.yaml +8 -0
  41. endoreg_db/data/case_template/rule/01_patient-set-gender.yaml +9 -0
  42. endoreg_db/data/case_template/rule/11_create_patient_lab_sample.yaml +23 -0
  43. endoreg_db/data/case_template/rule/12_create-patient_medication-anticoagulation.yaml +19 -0
  44. endoreg_db/data/case_template/rule/13_create-patient_medication_schedule-anticoagulation.yaml +19 -0
  45. endoreg_db/data/case_template/rule/19_create_patient.yaml +17 -0
  46. endoreg_db/data/case_template/rule_type/base_types.yaml +35 -0
  47. endoreg_db/data/case_template/rule_value/.init +0 -0
  48. endoreg_db/data/case_template/rule_value_type/base_types.yaml +59 -0
  49. endoreg_db/data/case_template/template/base.yaml +8 -0
  50. endoreg_db/data/case_template/template_type/pre_endoscopy.yaml +3 -0
  51. endoreg_db/data/case_template/tmp/_rule_value +13 -0
  52. endoreg_db/data/case_template/tmp/rule/01_atrial_fibrillation.yaml +21 -0
  53. endoreg_db/data/case_template/tmp/rule/02_create_object.yaml +10 -0
  54. endoreg_db/data/case_template/tmp/template/atrial_fibrillation_low_risk.yaml +7 -0
  55. endoreg_db/data/center/data.yaml +99 -0
  56. endoreg_db/data/center_resource/green_endoscopy_dashboard_CenterResource.yaml +144 -0
  57. endoreg_db/data/center_shift/ukw.yaml +9 -0
  58. endoreg_db/data/center_waste/green_endoscopy_dashboard_CenterWaste.yaml +48 -0
  59. endoreg_db/data/contraindication/bleeding.yaml +11 -0
  60. endoreg_db/data/db_summary.csv +58 -0
  61. endoreg_db/data/db_summary.xlsx +0 -0
  62. endoreg_db/data/disease/cardiovascular.yaml +37 -0
  63. endoreg_db/data/disease/hepatology.yaml +5 -0
  64. endoreg_db/data/disease/misc.yaml +5 -0
  65. endoreg_db/data/disease/renal.yaml +5 -0
  66. endoreg_db/data/disease_classification/chronic_kidney_disease.yaml +6 -0
  67. endoreg_db/data/disease_classification/coronary_vessel_disease.yaml +6 -0
  68. endoreg_db/data/disease_classification_choice/chronic_kidney_disease.yaml +41 -0
  69. endoreg_db/data/disease_classification_choice/coronary_vessel_disease.yaml +20 -0
  70. endoreg_db/data/distribution/date/patient.yaml +7 -0
  71. endoreg_db/data/distribution/multiple_categorical/.init +0 -0
  72. endoreg_db/data/distribution/numeric/data.yaml +14 -0
  73. endoreg_db/data/distribution/single_categorical/patient.yaml +7 -0
  74. endoreg_db/data/emission_factor/green_endoscopy_dashboard_EmissionFactor.yaml +132 -0
  75. endoreg_db/data/endoscope/data.yaml +93 -0
  76. endoreg_db/data/endoscope_type/data.yaml +11 -0
  77. endoreg_db/data/endoscopy_processor/data.yaml +50 -0
  78. endoreg_db/data/event/cardiology.yaml +15 -0
  79. endoreg_db/data/event/neurology.yaml +14 -0
  80. endoreg_db/data/event/surgery.yaml +13 -0
  81. endoreg_db/data/event/thrombembolism.yaml +20 -0
  82. endoreg_db/data/event_classification/data.yaml +4 -0
  83. endoreg_db/data/event_classification_choice/data.yaml +9 -0
  84. endoreg_db/data/examination/examinations/data.yaml +172 -0
  85. endoreg_db/data/examination/time/data.yaml +48 -0
  86. endoreg_db/data/examination/time-type/data.yaml +5 -0
  87. endoreg_db/data/examination/type/data.yaml +17 -0
  88. endoreg_db/data/examination_indication/endoscopy.yaml +359 -0
  89. endoreg_db/data/examination_indication_classification/endoscopy.yaml +90 -0
  90. endoreg_db/data/examination_indication_classification_choice/endoscopy.yaml +97 -0
  91. endoreg_db/data/examination_requirement_set/colonoscopy.yaml +15 -0
  92. endoreg_db/data/finding/00_generic.yaml +35 -0
  93. endoreg_db/data/finding/00_generic_complication.yaml +9 -0
  94. endoreg_db/data/finding/01_gastroscopy_baseline.yaml +88 -0
  95. endoreg_db/data/finding/01_gastroscopy_observation.yaml +113 -0
  96. endoreg_db/data/finding/02_colonoscopy_baseline.yaml +53 -0
  97. endoreg_db/data/finding/02_colonoscopy_hidden.yaml +119 -0
  98. endoreg_db/data/finding/02_colonoscopy_observation.yaml +152 -0
  99. endoreg_db/data/finding_classification/00_generic.yaml +44 -0
  100. endoreg_db/data/finding_classification/00_generic_histology.yaml +28 -0
  101. endoreg_db/data/finding_classification/00_generic_lesion.yaml +52 -0
  102. endoreg_db/data/finding_classification/02_colonoscopy_baseline.yaml +83 -0
  103. endoreg_db/data/finding_classification/02_colonoscopy_histology.yaml +13 -0
  104. endoreg_db/data/finding_classification/02_colonoscopy_other.yaml +12 -0
  105. endoreg_db/data/finding_classification/02_colonoscopy_polyp.yaml +101 -0
  106. endoreg_db/data/finding_classification_choice/00_generic.yaml +15 -0
  107. endoreg_db/data/finding_classification_choice/00_generic_baseline.yaml +23 -0
  108. endoreg_db/data/finding_classification_choice/00_generic_complication.yaml +15 -0
  109. endoreg_db/data/finding_classification_choice/00_generic_histology.yaml +21 -0
  110. endoreg_db/data/finding_classification_choice/00_generic_lesion.yaml +158 -0
  111. endoreg_db/data/finding_classification_choice/02_colonoscopy_bowel_preparation.yaml +49 -0
  112. endoreg_db/data/finding_classification_choice/02_colonoscopy_generic.yaml +19 -0
  113. endoreg_db/data/finding_classification_choice/02_colonoscopy_histology.yaml +20 -0
  114. endoreg_db/data/finding_classification_choice/02_colonoscopy_location.yaml +248 -0
  115. endoreg_db/data/finding_classification_choice/02_colonoscopy_other.yaml +34 -0
  116. endoreg_db/data/finding_classification_choice/02_colonoscopy_polyp_advanced_imaging.yaml +76 -0
  117. endoreg_db/data/finding_classification_choice/02_colonoscopy_polyp_morphology.yaml +75 -0
  118. endoreg_db/data/finding_classification_choice/02_colonoscopy_size.yaml +27 -0
  119. endoreg_db/data/finding_classification_type/00_generic.yaml +53 -0
  120. endoreg_db/data/finding_classification_type/02_colonoscopy.yaml +9 -0
  121. endoreg_db/data/finding_intervention/00_generic_endoscopy.yaml +59 -0
  122. endoreg_db/data/finding_intervention/00_generic_endoscopy_ablation.yaml +44 -0
  123. endoreg_db/data/finding_intervention/00_generic_endoscopy_bleeding.yaml +55 -0
  124. endoreg_db/data/finding_intervention/00_generic_endoscopy_resection.yaml +85 -0
  125. endoreg_db/data/finding_intervention/00_generic_endoscopy_stenosis.yaml +17 -0
  126. endoreg_db/data/finding_intervention/00_generic_endoscopy_stent.yaml +9 -0
  127. endoreg_db/data/finding_intervention/01_gastroscopy.yaml +19 -0
  128. endoreg_db/data/finding_intervention/04_eus.yaml +39 -0
  129. endoreg_db/data/finding_intervention/05_ercp.yaml +3 -0
  130. endoreg_db/data/finding_intervention_type/endoscopy.yaml +15 -0
  131. endoreg_db/data/finding_type/data.yaml +39 -0
  132. endoreg_db/data/gender/data.yaml +42 -0
  133. endoreg_db/data/information_source/annotation.yaml +6 -0
  134. endoreg_db/data/information_source/data.yaml +30 -0
  135. endoreg_db/data/information_source/endoscopy_guidelines.yaml +7 -0
  136. endoreg_db/data/information_source/medication.yaml +6 -0
  137. endoreg_db/data/information_source/prediction.yaml +7 -0
  138. endoreg_db/data/information_source_type/data.yaml +8 -0
  139. endoreg_db/data/lab_value/cardiac_enzymes.yaml +37 -0
  140. endoreg_db/data/lab_value/coagulation.yaml +54 -0
  141. endoreg_db/data/lab_value/electrolytes.yaml +228 -0
  142. endoreg_db/data/lab_value/gastrointestinal_function.yaml +133 -0
  143. endoreg_db/data/lab_value/hematology.yaml +184 -0
  144. endoreg_db/data/lab_value/hormones.yaml +59 -0
  145. endoreg_db/data/lab_value/lipids.yaml +53 -0
  146. endoreg_db/data/lab_value/misc.yaml +76 -0
  147. endoreg_db/data/lab_value/renal_function.yaml +12 -0
  148. endoreg_db/data/log_type/data.yaml +57 -0
  149. endoreg_db/data/lx_client_tag/base.yaml +54 -0
  150. endoreg_db/data/lx_client_type/base.yaml +30 -0
  151. endoreg_db/data/lx_permission/base.yaml +24 -0
  152. endoreg_db/data/lx_permission/endoreg.yaml +52 -0
  153. endoreg_db/data/material/material.yaml +91 -0
  154. endoreg_db/data/medication/anticoagulation.yaml +65 -0
  155. endoreg_db/data/medication/tah.yaml +70 -0
  156. endoreg_db/data/medication_indication/anticoagulation.yaml +115 -0
  157. endoreg_db/data/medication_indication_type/data.yaml +11 -0
  158. endoreg_db/data/medication_indication_type/thrombembolism.yaml +41 -0
  159. endoreg_db/data/medication_intake_time/base.yaml +31 -0
  160. endoreg_db/data/medication_schedule/apixaban.yaml +95 -0
  161. endoreg_db/data/medication_schedule/ass.yaml +12 -0
  162. endoreg_db/data/medication_schedule/enoxaparin.yaml +26 -0
  163. endoreg_db/data/names_first/first_names.yaml +54 -0
  164. endoreg_db/data/names_last/last_names.yaml +51 -0
  165. endoreg_db/data/network_device/data.yaml +59 -0
  166. endoreg_db/data/network_device_type/data.yaml +12 -0
  167. endoreg_db/data/organ/data.yaml +29 -0
  168. endoreg_db/data/patient_lab_sample_type/generic.yaml +6 -0
  169. endoreg_db/data/pdf_type/data.yaml +46 -0
  170. endoreg_db/data/product/green_endoscopy_dashboard_Product.yaml +66 -0
  171. endoreg_db/data/product_group/green_endoscopy_dashboard_ProductGroup.yaml +33 -0
  172. endoreg_db/data/product_material/green_endoscopy_dashboard_ProductMaterial.yaml +308 -0
  173. endoreg_db/data/product_weight/green_endoscopy_dashboard_ProductWeight.yaml +88 -0
  174. endoreg_db/data/profession/data.yaml +70 -0
  175. endoreg_db/data/qualification/endoscopy.yaml +36 -0
  176. endoreg_db/data/qualification/m2.yaml +39 -0
  177. endoreg_db/data/qualification/outpatient_clinic.yaml +35 -0
  178. endoreg_db/data/qualification/sonography.yaml +36 -0
  179. endoreg_db/data/qualification_type/base.yaml +29 -0
  180. endoreg_db/data/reference_product/green_endoscopy_dashboard_ReferenceProduct.yaml +55 -0
  181. endoreg_db/data/report_reader_flag/rkh-histology-generic.yaml +10 -0
  182. endoreg_db/data/report_reader_flag/ukw-examination-generic.yaml +30 -0
  183. endoreg_db/data/report_reader_flag/ukw-histology-generic.yaml +24 -0
  184. endoreg_db/data/requirement/01_patient_data.yaml +93 -0
  185. endoreg_db/data/requirement/old/colon_polyp_intervention.yaml +49 -0
  186. endoreg_db/data/requirement/old/colonoscopy_baseline_austria.yaml +45 -0
  187. endoreg_db/data/requirement/old/coloreg_colon_polyp.yaml +49 -0
  188. endoreg_db/data/requirement/old/disease_cardiovascular.yaml +79 -0
  189. endoreg_db/data/requirement/old/disease_classification_choice_cardiovascular.yaml +41 -0
  190. endoreg_db/data/requirement/old/disease_hepatology.yaml +12 -0
  191. endoreg_db/data/requirement/old/disease_misc.yaml +12 -0
  192. endoreg_db/data/requirement/old/disease_renal.yaml +96 -0
  193. endoreg_db/data/requirement/old/endoscopy_bleeding_risk.yaml +59 -0
  194. endoreg_db/data/requirement/old/event_cardiology.yaml +251 -0
  195. endoreg_db/data/requirement/old/event_requirements.yaml +145 -0
  196. endoreg_db/data/requirement/old/finding_colon_polyp.yaml +50 -0
  197. endoreg_db/data/requirement/old/gender.yaml +0 -0
  198. endoreg_db/data/requirement/old/lab_value.yaml +441 -0
  199. endoreg_db/data/requirement/old/medication.yaml +93 -0
  200. endoreg_db/data/requirement_operator/_old/age.yaml +13 -0
  201. endoreg_db/data/requirement_operator/_old/lab_operators.yaml +129 -0
  202. endoreg_db/data/requirement_operator/_old/model_operators.yaml +96 -0
  203. endoreg_db/data/requirement_operator/new_operators.yaml +36 -0
  204. endoreg_db/data/requirement_set/01_endoscopy_generic.yaml +65 -0
  205. endoreg_db/data/requirement_set/01_laboratory.yaml +13 -0
  206. endoreg_db/data/requirement_set/02_endoscopy_bleeding_risk.yaml +46 -0
  207. endoreg_db/data/requirement_set/90_coloreg.yaml +190 -0
  208. endoreg_db/data/requirement_set/_old_ +109 -0
  209. endoreg_db/data/requirement_set/colonoscopy_austria_screening.yaml +57 -0
  210. endoreg_db/data/requirement_set_type/data.yaml +41 -0
  211. endoreg_db/data/requirement_type/requirement_types.yaml +165 -0
  212. endoreg_db/data/resource/green_endoscopy_dashboard_Resource.yaml +15 -0
  213. endoreg_db/data/risk/bleeding.yaml +26 -0
  214. endoreg_db/data/risk/thrombosis.yaml +37 -0
  215. endoreg_db/data/risk_type/data.yaml +27 -0
  216. endoreg_db/data/setup_config.yaml +38 -0
  217. endoreg_db/data/shift/endoscopy.yaml +21 -0
  218. endoreg_db/data/shift/m2.yaml +0 -0
  219. endoreg_db/data/shift_type/base.yaml +35 -0
  220. endoreg_db/data/tag/requirement_set_tags.yaml +32 -0
  221. endoreg_db/data/tmp/chronic_kidney_disease.yaml +0 -0
  222. endoreg_db/data/tmp/congestive_heart_failure.yaml +0 -0
  223. endoreg_db/data/transport_route/green_endoscopy_dashboard_TransportRoute.yaml +12 -0
  224. endoreg_db/data/unit/concentration.yaml +115 -0
  225. endoreg_db/data/unit/data.yaml +17 -0
  226. endoreg_db/data/unit/length.yaml +31 -0
  227. endoreg_db/data/unit/misc.yaml +20 -0
  228. endoreg_db/data/unit/rate.yaml +6 -0
  229. endoreg_db/data/unit/time.yaml +48 -0
  230. endoreg_db/data/unit/volume.yaml +35 -0
  231. endoreg_db/data/unit/weight.yaml +38 -0
  232. endoreg_db/data/waste/data.yaml +12 -0
  233. endoreg_db/exceptions.py +24 -0
  234. endoreg_db/export/frames/export.py +6 -0
  235. endoreg_db/export/frames/export_frames_with_labels.py +616 -0
  236. endoreg_db/factories/__init__.py +0 -0
  237. endoreg_db/forms/__init__.py +4 -0
  238. endoreg_db/forms/examination_form.py +12 -0
  239. endoreg_db/forms/patient_finding_intervention_form.py +40 -0
  240. endoreg_db/forms/patient_form.py +23 -0
  241. endoreg_db/forms/questionnaires/__init__.py +1 -0
  242. endoreg_db/forms/questionnaires/tto_questionnaire.py +23 -0
  243. endoreg_db/forms/settings/__init__.py +11 -0
  244. endoreg_db/forms/unit.py +7 -0
  245. endoreg_db/helpers/__init__.py +0 -0
  246. endoreg_db/helpers/count_db.py +48 -0
  247. endoreg_db/helpers/data_loader.py +280 -0
  248. endoreg_db/helpers/default_objects.py +414 -0
  249. endoreg_db/helpers/download_segmentation_model.py +32 -0
  250. endoreg_db/helpers/interact.py +1 -0
  251. endoreg_db/helpers/test_video_helper.py +127 -0
  252. endoreg_db/import_files/__init__.py +27 -0
  253. endoreg_db/import_files/context/__init__.py +7 -0
  254. endoreg_db/import_files/context/default_sensitive_meta.py +83 -0
  255. endoreg_db/import_files/context/ensure_center.py +17 -0
  256. endoreg_db/import_files/context/file_lock.py +66 -0
  257. endoreg_db/import_files/context/import_context.py +42 -0
  258. endoreg_db/import_files/context/validate_directories.py +57 -0
  259. endoreg_db/import_files/file_storage/__init__.py +15 -0
  260. endoreg_db/import_files/file_storage/create_report_file.py +99 -0
  261. endoreg_db/import_files/file_storage/create_video_file.py +104 -0
  262. endoreg_db/import_files/file_storage/sensitive_meta_storage.py +42 -0
  263. endoreg_db/import_files/file_storage/state_management.py +463 -0
  264. endoreg_db/import_files/file_storage/storage.py +42 -0
  265. endoreg_db/import_files/import_service.md +26 -0
  266. endoreg_db/import_files/processing/__init__.py +11 -0
  267. endoreg_db/import_files/processing/report_processing/report_anonymization.py +99 -0
  268. endoreg_db/import_files/processing/sensitive_meta_adapter.py +51 -0
  269. endoreg_db/import_files/processing/video_processing/video_anonymization.py +107 -0
  270. endoreg_db/import_files/pseudonymization/__init__.py +0 -0
  271. endoreg_db/import_files/pseudonymization/fake.py +52 -0
  272. endoreg_db/import_files/pseudonymization/k_anonymity.py +181 -0
  273. endoreg_db/import_files/pseudonymization/k_pseudonymity.py +139 -0
  274. endoreg_db/import_files/pseudonymization/pseudonymize.py +0 -0
  275. endoreg_db/import_files/report_import_service.py +147 -0
  276. endoreg_db/import_files/video_import_service.py +154 -0
  277. endoreg_db/logger_conf.py +156 -0
  278. endoreg_db/management/__init__.py +1 -0
  279. endoreg_db/management/commands/__init__.py +1 -0
  280. endoreg_db/management/commands/anonymize_video.py +0 -0
  281. endoreg_db/management/commands/check_auth.py +132 -0
  282. endoreg_db/management/commands/create_model_meta_from_huggingface.py +177 -0
  283. endoreg_db/management/commands/create_multilabel_model_meta.py +419 -0
  284. endoreg_db/management/commands/export_frame_annot.py +196 -0
  285. endoreg_db/management/commands/fix_missing_patient_data.py +206 -0
  286. endoreg_db/management/commands/fix_video_paths.py +186 -0
  287. endoreg_db/management/commands/import_report.py +361 -0
  288. endoreg_db/management/commands/list_routes.py +20 -0
  289. endoreg_db/management/commands/load_ai_model_data.py +83 -0
  290. endoreg_db/management/commands/load_ai_model_label_data.py +60 -0
  291. endoreg_db/management/commands/load_base_db_data.py +63 -0
  292. endoreg_db/management/commands/load_center_data.py +68 -0
  293. endoreg_db/management/commands/load_contraindication_data.py +39 -0
  294. endoreg_db/management/commands/load_disease_classification_choices_data.py +38 -0
  295. endoreg_db/management/commands/load_disease_classification_data.py +38 -0
  296. endoreg_db/management/commands/load_disease_data.py +59 -0
  297. endoreg_db/management/commands/load_distribution_data.py +63 -0
  298. endoreg_db/management/commands/load_endoscope_data.py +58 -0
  299. endoreg_db/management/commands/load_event_data.py +39 -0
  300. endoreg_db/management/commands/load_examination_data.py +78 -0
  301. endoreg_db/management/commands/load_examination_indication_data.py +85 -0
  302. endoreg_db/management/commands/load_finding_data.py +115 -0
  303. endoreg_db/management/commands/load_gender_data.py +37 -0
  304. endoreg_db/management/commands/load_green_endoscopy_wuerzburg_data.py +142 -0
  305. endoreg_db/management/commands/load_information_source.py +46 -0
  306. endoreg_db/management/commands/load_lab_value_data.py +52 -0
  307. endoreg_db/management/commands/load_legacy_data.py +303 -0
  308. endoreg_db/management/commands/load_medication_data.py +104 -0
  309. endoreg_db/management/commands/load_name_data.py +36 -0
  310. endoreg_db/management/commands/load_organ_data.py +39 -0
  311. endoreg_db/management/commands/load_pdf_type_data.py +58 -0
  312. endoreg_db/management/commands/load_profession_data.py +40 -0
  313. endoreg_db/management/commands/load_qualification_data.py +56 -0
  314. endoreg_db/management/commands/load_report_reader_flag_data.py +40 -0
  315. endoreg_db/management/commands/load_requirement_data.py +207 -0
  316. endoreg_db/management/commands/load_requirement_set_tags.py +95 -0
  317. endoreg_db/management/commands/load_risk_data.py +57 -0
  318. endoreg_db/management/commands/load_shift_data.py +57 -0
  319. endoreg_db/management/commands/load_tag_data.py +54 -0
  320. endoreg_db/management/commands/load_unit_data.py +40 -0
  321. endoreg_db/management/commands/load_user_groups.py +26 -0
  322. endoreg_db/management/commands/model_input.py +169 -0
  323. endoreg_db/management/commands/register_ai_model.py +70 -0
  324. endoreg_db/management/commands/setup_endoreg_db.py +459 -0
  325. endoreg_db/management/commands/start_filewatcher.py +115 -0
  326. endoreg_db/management/commands/storage_management.py +622 -0
  327. endoreg_db/management/commands/summarize_db_content.py +280 -0
  328. endoreg_db/management/commands/train_image_multilabel_model.py +144 -0
  329. endoreg_db/management/commands/validate_video_files.py +189 -0
  330. endoreg_db/management/commands/video_validation.py +20 -0
  331. endoreg_db/mermaid/Overall_flow_patient_finding_intervention.md +10 -0
  332. endoreg_db/mermaid/anonymized_image_annotation.md +20 -0
  333. endoreg_db/mermaid/binary_classification_annotation.md +50 -0
  334. endoreg_db/mermaid/classification.md +8 -0
  335. endoreg_db/mermaid/examination.md +8 -0
  336. endoreg_db/mermaid/findings.md +7 -0
  337. endoreg_db/mermaid/image_classification.md +28 -0
  338. endoreg_db/mermaid/interventions.md +8 -0
  339. endoreg_db/mermaid/morphology.md +8 -0
  340. endoreg_db/mermaid/patient_creation.md +14 -0
  341. endoreg_db/mermaid/video_segmentation_annotation.md +17 -0
  342. endoreg_db/migrations/0001_initial.py +1953 -0
  343. endoreg_db/migrations/__init__.py +0 -0
  344. endoreg_db/models/__init__.py +322 -0
  345. endoreg_db/models/administration/__init__.py +95 -0
  346. endoreg_db/models/administration/ai/__init__.py +9 -0
  347. endoreg_db/models/administration/ai/active_model.py +35 -0
  348. endoreg_db/models/administration/ai/ai_model.py +180 -0
  349. endoreg_db/models/administration/ai/model_type.py +42 -0
  350. endoreg_db/models/administration/case/__init__.py +5 -0
  351. endoreg_db/models/administration/case/case.py +114 -0
  352. endoreg_db/models/administration/case/case_template/__init__.py +3 -0
  353. endoreg_db/models/administration/case/case_template/case_template.py +3 -0
  354. endoreg_db/models/administration/case/case_template/case_template_rule.py +3 -0
  355. endoreg_db/models/administration/case/case_template/case_template_rule_value.py +3 -0
  356. endoreg_db/models/administration/case/case_template/case_template_type.py +3 -0
  357. endoreg_db/models/administration/center/__init__.py +13 -0
  358. endoreg_db/models/administration/center/center.py +85 -0
  359. endoreg_db/models/administration/center/center_product.py +67 -0
  360. endoreg_db/models/administration/center/center_resource.py +69 -0
  361. endoreg_db/models/administration/center/center_shift.py +94 -0
  362. endoreg_db/models/administration/center/center_waste.py +42 -0
  363. endoreg_db/models/administration/person/__init__.py +26 -0
  364. endoreg_db/models/administration/person/employee/__init__.py +3 -0
  365. endoreg_db/models/administration/person/employee/employee.py +40 -0
  366. endoreg_db/models/administration/person/employee/employee_qualification.py +44 -0
  367. endoreg_db/models/administration/person/employee/employee_type.py +50 -0
  368. endoreg_db/models/administration/person/examiner/__init__.py +4 -0
  369. endoreg_db/models/administration/person/examiner/examiner.py +64 -0
  370. endoreg_db/models/administration/person/names/__init__.py +0 -0
  371. endoreg_db/models/administration/person/names/first_name.py +20 -0
  372. endoreg_db/models/administration/person/names/last_name.py +20 -0
  373. endoreg_db/models/administration/person/patient/__init__.py +7 -0
  374. endoreg_db/models/administration/person/patient/patient.py +488 -0
  375. endoreg_db/models/administration/person/patient/patient_external_id.py +36 -0
  376. endoreg_db/models/administration/person/person.py +35 -0
  377. endoreg_db/models/administration/person/profession/__init__.py +28 -0
  378. endoreg_db/models/administration/person/user/__init__.py +5 -0
  379. endoreg_db/models/administration/person/user/portal_user_information.py +41 -0
  380. endoreg_db/models/administration/product/__init__.py +15 -0
  381. endoreg_db/models/administration/product/product.py +106 -0
  382. endoreg_db/models/administration/product/product_group.py +41 -0
  383. endoreg_db/models/administration/product/product_material.py +60 -0
  384. endoreg_db/models/administration/product/product_weight.py +51 -0
  385. endoreg_db/models/administration/product/reference_product.py +147 -0
  386. endoreg_db/models/administration/qualification/__init__.py +7 -0
  387. endoreg_db/models/administration/qualification/qualification.py +43 -0
  388. endoreg_db/models/administration/qualification/qualification_type.py +39 -0
  389. endoreg_db/models/administration/shift/__init__.py +9 -0
  390. endoreg_db/models/administration/shift/scheduled_days.py +72 -0
  391. endoreg_db/models/administration/shift/shift.py +57 -0
  392. endoreg_db/models/administration/shift/shift_type.py +108 -0
  393. endoreg_db/models/aidataset/__init__.py +5 -0
  394. endoreg_db/models/aidataset/aidataset.py +193 -0
  395. endoreg_db/models/label/__init__.py +23 -0
  396. endoreg_db/models/label/annotation/__init__.py +12 -0
  397. endoreg_db/models/label/annotation/image_classification.py +85 -0
  398. endoreg_db/models/label/annotation/video_segmentation_annotation.py +61 -0
  399. endoreg_db/models/label/label.py +91 -0
  400. endoreg_db/models/label/label_set.py +68 -0
  401. endoreg_db/models/label/label_type.py +29 -0
  402. endoreg_db/models/label/label_video_segment/__init__.py +3 -0
  403. endoreg_db/models/label/label_video_segment/_create_from_video.py +42 -0
  404. endoreg_db/models/label/label_video_segment/label_video_segment.py +611 -0
  405. endoreg_db/models/label/video_segmentation_label.py +35 -0
  406. endoreg_db/models/label/video_segmentation_labelset.py +28 -0
  407. endoreg_db/models/media/__init__.py +23 -0
  408. endoreg_db/models/media/frame/__init__.py +3 -0
  409. endoreg_db/models/media/frame/frame.py +137 -0
  410. endoreg_db/models/media/pdf/__init__.py +12 -0
  411. endoreg_db/models/media/pdf/raw_pdf.py +764 -0
  412. endoreg_db/models/media/pdf/report_file.py +162 -0
  413. endoreg_db/models/media/pdf/report_reader/__init__.py +7 -0
  414. endoreg_db/models/media/pdf/report_reader/report_reader_config.py +85 -0
  415. endoreg_db/models/media/pdf/report_reader/report_reader_flag.py +46 -0
  416. endoreg_db/models/media/video/__init__.py +9 -0
  417. endoreg_db/models/media/video/create_from_file.py +402 -0
  418. endoreg_db/models/media/video/pipe_1.py +258 -0
  419. endoreg_db/models/media/video/pipe_2.py +129 -0
  420. endoreg_db/models/media/video/video_file.py +907 -0
  421. endoreg_db/models/media/video/video_file_ai.py +828 -0
  422. endoreg_db/models/media/video/video_file_anonymize.py +524 -0
  423. endoreg_db/models/media/video/video_file_frames/__init__.py +49 -0
  424. endoreg_db/models/media/video/video_file_frames/_bulk_create_frames.py +25 -0
  425. endoreg_db/models/media/video/video_file_frames/_create_frame_object.py +23 -0
  426. endoreg_db/models/media/video/video_file_frames/_delete_frames.py +126 -0
  427. endoreg_db/models/media/video/video_file_frames/_extract_frames.py +233 -0
  428. endoreg_db/models/media/video/video_file_frames/_get_frame.py +36 -0
  429. endoreg_db/models/media/video/video_file_frames/_get_frame_number.py +13 -0
  430. endoreg_db/models/media/video/video_file_frames/_get_frame_path.py +24 -0
  431. endoreg_db/models/media/video/video_file_frames/_get_frame_paths.py +40 -0
  432. endoreg_db/models/media/video/video_file_frames/_get_frame_range.py +44 -0
  433. endoreg_db/models/media/video/video_file_frames/_get_frames.py +30 -0
  434. endoreg_db/models/media/video/video_file_frames/_initialize_frames.py +205 -0
  435. endoreg_db/models/media/video/video_file_frames/_manage_frame_range.py +228 -0
  436. endoreg_db/models/media/video/video_file_frames/_mark_frames_extracted_status.py +107 -0
  437. endoreg_db/models/media/video/video_file_io.py +272 -0
  438. endoreg_db/models/media/video/video_file_meta/__init__.py +22 -0
  439. endoreg_db/models/media/video/video_file_meta/get_crop_template.py +58 -0
  440. endoreg_db/models/media/video/video_file_meta/get_endo_roi.py +62 -0
  441. endoreg_db/models/media/video/video_file_meta/get_fps.py +183 -0
  442. endoreg_db/models/media/video/video_file_meta/initialize_video_specs.py +198 -0
  443. endoreg_db/models/media/video/video_file_meta/text_meta.py +178 -0
  444. endoreg_db/models/media/video/video_file_meta/video_meta.py +105 -0
  445. endoreg_db/models/media/video/video_file_segments.py +317 -0
  446. endoreg_db/models/media/video/video_metadata.py +67 -0
  447. endoreg_db/models/media/video/video_processing.py +192 -0
  448. endoreg_db/models/medical/__init__.py +136 -0
  449. endoreg_db/models/medical/contraindication/README.md +1 -0
  450. endoreg_db/models/medical/contraindication/__init__.py +29 -0
  451. endoreg_db/models/medical/disease.py +174 -0
  452. endoreg_db/models/medical/event.py +154 -0
  453. endoreg_db/models/medical/examination/__init__.py +20 -0
  454. endoreg_db/models/medical/examination/examination.py +183 -0
  455. endoreg_db/models/medical/examination/examination_indication.py +229 -0
  456. endoreg_db/models/medical/examination/examination_time.py +68 -0
  457. endoreg_db/models/medical/examination/examination_time_type.py +44 -0
  458. endoreg_db/models/medical/examination/examination_type.py +47 -0
  459. endoreg_db/models/medical/finding/__init__.py +20 -0
  460. endoreg_db/models/medical/finding/finding.py +113 -0
  461. endoreg_db/models/medical/finding/finding_classification.py +131 -0
  462. endoreg_db/models/medical/finding/finding_intervention.py +68 -0
  463. endoreg_db/models/medical/finding/finding_type.py +38 -0
  464. endoreg_db/models/medical/hardware/__init__.py +8 -0
  465. endoreg_db/models/medical/hardware/endoscope.py +77 -0
  466. endoreg_db/models/medical/hardware/endoscopy_processor.py +182 -0
  467. endoreg_db/models/medical/laboratory/__init__.py +5 -0
  468. endoreg_db/models/medical/laboratory/lab_value.py +490 -0
  469. endoreg_db/models/medical/medication/__init__.py +23 -0
  470. endoreg_db/models/medical/medication/medication.py +45 -0
  471. endoreg_db/models/medical/medication/medication_indication.py +78 -0
  472. endoreg_db/models/medical/medication/medication_indication_type.py +58 -0
  473. endoreg_db/models/medical/medication/medication_intake_time.py +58 -0
  474. endoreg_db/models/medical/medication/medication_schedule.py +58 -0
  475. endoreg_db/models/medical/organ/__init__.py +38 -0
  476. endoreg_db/models/medical/patient/__init__.py +48 -0
  477. endoreg_db/models/medical/patient/medication_examples.py +56 -0
  478. endoreg_db/models/medical/patient/patient_disease.py +72 -0
  479. endoreg_db/models/medical/patient/patient_event.py +80 -0
  480. endoreg_db/models/medical/patient/patient_examination.py +280 -0
  481. endoreg_db/models/medical/patient/patient_examination_indication.py +57 -0
  482. endoreg_db/models/medical/patient/patient_finding.py +416 -0
  483. endoreg_db/models/medical/patient/patient_finding_classification.py +231 -0
  484. endoreg_db/models/medical/patient/patient_finding_intervention.py +37 -0
  485. endoreg_db/models/medical/patient/patient_lab_sample.py +157 -0
  486. endoreg_db/models/medical/patient/patient_lab_value.py +247 -0
  487. endoreg_db/models/medical/patient/patient_medication.py +111 -0
  488. endoreg_db/models/medical/patient/patient_medication_schedule.py +152 -0
  489. endoreg_db/models/medical/risk/__init__.py +7 -0
  490. endoreg_db/models/medical/risk/risk.py +73 -0
  491. endoreg_db/models/medical/risk/risk_type.py +54 -0
  492. endoreg_db/models/metadata/__init__.py +19 -0
  493. endoreg_db/models/metadata/model_meta.py +266 -0
  494. endoreg_db/models/metadata/model_meta_logic.py +485 -0
  495. endoreg_db/models/metadata/pdf_meta.py +96 -0
  496. endoreg_db/models/metadata/sensitive_meta.py +345 -0
  497. endoreg_db/models/metadata/sensitive_meta_logic.py +1161 -0
  498. endoreg_db/models/metadata/video_meta.py +459 -0
  499. endoreg_db/models/metadata/video_prediction_logic.py +232 -0
  500. endoreg_db/models/metadata/video_prediction_meta.py +319 -0
  501. endoreg_db/models/operation_log.py +63 -0
  502. endoreg_db/models/other/__init__.py +40 -0
  503. endoreg_db/models/other/distribution/__init__.py +46 -0
  504. endoreg_db/models/other/distribution/base_value_distribution.py +22 -0
  505. endoreg_db/models/other/distribution/date_value_distribution.py +163 -0
  506. endoreg_db/models/other/distribution/multiple_categorical_value_distribution.py +50 -0
  507. endoreg_db/models/other/distribution/numeric_value_distribution.py +211 -0
  508. endoreg_db/models/other/distribution/single_categorical_value_distribution.py +23 -0
  509. endoreg_db/models/other/emission/__init__.py +5 -0
  510. endoreg_db/models/other/emission/emission_factor.py +110 -0
  511. endoreg_db/models/other/gender.py +32 -0
  512. endoreg_db/models/other/information_source.py +190 -0
  513. endoreg_db/models/other/material.py +34 -0
  514. endoreg_db/models/other/resource.py +24 -0
  515. endoreg_db/models/other/tag.py +32 -0
  516. endoreg_db/models/other/transport_route.py +40 -0
  517. endoreg_db/models/other/unit.py +40 -0
  518. endoreg_db/models/other/waste.py +28 -0
  519. endoreg_db/models/report/__init__.py +0 -0
  520. endoreg_db/models/report/images.py +0 -0
  521. endoreg_db/models/report/report.py +5 -0
  522. endoreg_db/models/requirement/__init__.py +11 -0
  523. endoreg_db/models/requirement/requirement.py +792 -0
  524. endoreg_db/models/requirement/requirement_error.py +84 -0
  525. endoreg_db/models/requirement/requirement_evaluation/__init__.py +6 -0
  526. endoreg_db/models/requirement/requirement_evaluation/evaluate_with_dependencies.py +268 -0
  527. endoreg_db/models/requirement/requirement_evaluation/get_values.py +40 -0
  528. endoreg_db/models/requirement/requirement_evaluation/operator_evaluation_models.py +6 -0
  529. endoreg_db/models/requirement/requirement_evaluation/requirement_type_parser.py +137 -0
  530. endoreg_db/models/requirement/requirement_operator.py +187 -0
  531. endoreg_db/models/requirement/requirement_set.py +327 -0
  532. endoreg_db/models/state/__init__.py +13 -0
  533. endoreg_db/models/state/abstract.py +11 -0
  534. endoreg_db/models/state/anonymization.py +30 -0
  535. endoreg_db/models/state/audit_ledger.py +155 -0
  536. endoreg_db/models/state/label_video_segment.py +31 -0
  537. endoreg_db/models/state/processing_history/__init__.py +3 -0
  538. endoreg_db/models/state/processing_history/processing_history.py +136 -0
  539. endoreg_db/models/state/raw_pdf.py +219 -0
  540. endoreg_db/models/state/sensitive_meta.py +50 -0
  541. endoreg_db/models/state/video.py +251 -0
  542. endoreg_db/models/upload_job.py +100 -0
  543. endoreg_db/models/utils.py +138 -0
  544. endoreg_db/queries/__init__.py +3 -0
  545. endoreg_db/queries/annotations/__init__.py +1 -0
  546. endoreg_db/queries/annotations/legacy.py +169 -0
  547. endoreg_db/queries/sanity/__init_.py +0 -0
  548. endoreg_db/root_urls.py +27 -0
  549. endoreg_db/schemas/__init__.py +0 -0
  550. endoreg_db/schemas/examination_evaluation.py +30 -0
  551. endoreg_db/serializers/Frames_NICE_and_PARIS_classifications.py +861 -0
  552. endoreg_db/serializers/__init__.py +104 -0
  553. endoreg_db/serializers/administration/__init__.py +13 -0
  554. endoreg_db/serializers/administration/ai/__init__.py +9 -0
  555. endoreg_db/serializers/administration/ai/active_model.py +12 -0
  556. endoreg_db/serializers/administration/ai/ai_model.py +20 -0
  557. endoreg_db/serializers/administration/ai/model_type.py +12 -0
  558. endoreg_db/serializers/administration/center.py +14 -0
  559. endoreg_db/serializers/administration/gender.py +11 -0
  560. endoreg_db/serializers/anonymization.py +77 -0
  561. endoreg_db/serializers/evaluation/examination_evaluation.py +0 -0
  562. endoreg_db/serializers/examination/__init__.py +10 -0
  563. endoreg_db/serializers/examination/base.py +45 -0
  564. endoreg_db/serializers/examination/dropdown.py +20 -0
  565. endoreg_db/serializers/examination_serializer.py +9 -0
  566. endoreg_db/serializers/finding/__init__.py +5 -0
  567. endoreg_db/serializers/finding/finding.py +61 -0
  568. endoreg_db/serializers/finding_classification/__init__.py +7 -0
  569. endoreg_db/serializers/finding_classification/choice.py +19 -0
  570. endoreg_db/serializers/finding_classification/classification.py +11 -0
  571. endoreg_db/serializers/label_video_segment/__init__.py +9 -0
  572. endoreg_db/serializers/label_video_segment/image_classification_annotation.py +62 -0
  573. endoreg_db/serializers/label_video_segment/label/__init__.py +6 -0
  574. endoreg_db/serializers/label_video_segment/label/label.py +15 -0
  575. endoreg_db/serializers/label_video_segment/label_video_segment.py +427 -0
  576. endoreg_db/serializers/meta/__init__.py +13 -0
  577. endoreg_db/serializers/meta/sensitive_meta_detail.py +122 -0
  578. endoreg_db/serializers/meta/sensitive_meta_update.py +153 -0
  579. endoreg_db/serializers/meta/sensitive_meta_verification.py +62 -0
  580. endoreg_db/serializers/meta/video_meta.py +39 -0
  581. endoreg_db/serializers/misc/__init__.py +14 -0
  582. endoreg_db/serializers/misc/file_overview.py +72 -0
  583. endoreg_db/serializers/misc/sensitive_patient_data.py +144 -0
  584. endoreg_db/serializers/misc/stats.py +35 -0
  585. endoreg_db/serializers/misc/translatable_field_mix_in.py +44 -0
  586. endoreg_db/serializers/misc/upload_job.py +74 -0
  587. endoreg_db/serializers/patient/__init__.py +12 -0
  588. endoreg_db/serializers/patient/patient.py +103 -0
  589. endoreg_db/serializers/patient/patient_dropdown.py +35 -0
  590. endoreg_db/serializers/patient_examination/__init__.py +7 -0
  591. endoreg_db/serializers/patient_examination/patient_examination.py +168 -0
  592. endoreg_db/serializers/patient_finding/__init__.py +15 -0
  593. endoreg_db/serializers/patient_finding/patient_finding.py +32 -0
  594. endoreg_db/serializers/patient_finding/patient_finding_classification.py +47 -0
  595. endoreg_db/serializers/patient_finding/patient_finding_detail.py +62 -0
  596. endoreg_db/serializers/patient_finding/patient_finding_intervention.py +28 -0
  597. endoreg_db/serializers/patient_finding/patient_finding_list.py +40 -0
  598. endoreg_db/serializers/patient_finding/patient_finding_write.py +135 -0
  599. endoreg_db/serializers/pdf/__init__.py +3 -0
  600. endoreg_db/serializers/pdf/anony_text_validation.py +101 -0
  601. endoreg_db/serializers/requirements/requirement_schema.py +20 -0
  602. endoreg_db/serializers/requirements/requirement_sets.py +99 -0
  603. endoreg_db/serializers/sensitive_meta_serializer.py +301 -0
  604. endoreg_db/serializers/video/__init__.py +7 -0
  605. endoreg_db/serializers/video/video_file.py +283 -0
  606. endoreg_db/serializers/video/video_file_brief.py +14 -0
  607. endoreg_db/serializers/video/video_file_detail.py +96 -0
  608. endoreg_db/serializers/video/video_file_list.py +100 -0
  609. endoreg_db/serializers/video/video_processing_history.py +172 -0
  610. endoreg_db/serializers/video_examination.py +198 -0
  611. endoreg_db/services/__init__.py +5 -0
  612. endoreg_db/services/anonymization.py +274 -0
  613. endoreg_db/services/examination_evaluation.py +172 -0
  614. endoreg_db/services/finding_description_service.py +0 -0
  615. endoreg_db/services/lookup_service.py +424 -0
  616. endoreg_db/services/lookup_store.py +266 -0
  617. endoreg_db/services/model_meta_from_hf.py +76 -0
  618. endoreg_db/services/pdf_import.py +0 -0
  619. endoreg_db/services/polling_coordinator.py +319 -0
  620. endoreg_db/services/pseudonym_service.py +94 -0
  621. endoreg_db/services/report_import.py +13 -0
  622. endoreg_db/services/segment_sync.py +171 -0
  623. endoreg_db/services/video_import.py +9 -0
  624. endoreg_db/templates/admin/patient_finding_intervention.html +253 -0
  625. endoreg_db/templates/admin/start_examination.html +12 -0
  626. endoreg_db/templates/timeline.html +176 -0
  627. endoreg_db/urls/__init__.py +56 -0
  628. endoreg_db/urls/ai.py +14 -0
  629. endoreg_db/urls/anonymization.py +78 -0
  630. endoreg_db/urls/auth.py +16 -0
  631. endoreg_db/urls/classification.py +34 -0
  632. endoreg_db/urls/examination.py +63 -0
  633. endoreg_db/urls/media.py +251 -0
  634. endoreg_db/urls/patient.py +23 -0
  635. endoreg_db/urls/requirements.py +15 -0
  636. endoreg_db/urls/root_urls.py +28 -0
  637. endoreg_db/urls/stats.py +54 -0
  638. endoreg_db/urls/upload.py +12 -0
  639. endoreg_db/urls.py +9 -0
  640. endoreg_db/utils/__init__.py +97 -0
  641. endoreg_db/utils/ai/__init__.py +9 -0
  642. endoreg_db/utils/ai/data_loader_for_model_input.py +262 -0
  643. endoreg_db/utils/ai/data_loader_for_model_training.py +262 -0
  644. endoreg_db/utils/ai/get.py +6 -0
  645. endoreg_db/utils/ai/inference_dataset.py +51 -0
  646. endoreg_db/utils/ai/model_training/config.py +117 -0
  647. endoreg_db/utils/ai/model_training/dataset.py +74 -0
  648. endoreg_db/utils/ai/model_training/losses.py +68 -0
  649. endoreg_db/utils/ai/model_training/metrics.py +78 -0
  650. endoreg_db/utils/ai/model_training/model_backbones.py +155 -0
  651. endoreg_db/utils/ai/model_training/model_gastronet_resnet.py +118 -0
  652. endoreg_db/utils/ai/model_training/trainer_gastronet_multilabel.py +771 -0
  653. endoreg_db/utils/ai/multilabel_classification_net.py +270 -0
  654. endoreg_db/utils/ai/postprocess.py +63 -0
  655. endoreg_db/utils/ai/predict.py +293 -0
  656. endoreg_db/utils/ai/preprocess.py +76 -0
  657. endoreg_db/utils/calc_duration_seconds.py +24 -0
  658. endoreg_db/utils/case_generator/__init__.py +3 -0
  659. endoreg_db/utils/case_generator/lab_sample_factory.py +32 -0
  660. endoreg_db/utils/check_video_files.py +175 -0
  661. endoreg_db/utils/cropping.py +30 -0
  662. endoreg_db/utils/dataloader.py +285 -0
  663. endoreg_db/utils/dates.py +59 -0
  664. endoreg_db/utils/defaults/set_default_center.py +33 -0
  665. endoreg_db/utils/env.py +37 -0
  666. endoreg_db/utils/extract_specific_frames.py +87 -0
  667. endoreg_db/utils/file_operations.py +70 -0
  668. endoreg_db/utils/fix_video_path_direct.py +157 -0
  669. endoreg_db/utils/frame_anonymization_utils.py +463 -0
  670. endoreg_db/utils/hashs.py +138 -0
  671. endoreg_db/utils/links/__init__.py +0 -0
  672. endoreg_db/utils/links/requirement_link.py +237 -0
  673. endoreg_db/utils/mime_types.py +0 -0
  674. endoreg_db/utils/names.py +82 -0
  675. endoreg_db/utils/ocr.py +195 -0
  676. endoreg_db/utils/operation_log.py +87 -0
  677. endoreg_db/utils/parse_and_generate_yaml.py +45 -0
  678. endoreg_db/utils/paths.py +159 -0
  679. endoreg_db/utils/permissions.py +160 -0
  680. endoreg_db/utils/pipelines/Readme.md +235 -0
  681. endoreg_db/utils/pipelines/__init__.py +0 -0
  682. endoreg_db/utils/pipelines/process_video_dir.py +144 -0
  683. endoreg_db/utils/product/__init__.py +0 -0
  684. endoreg_db/utils/product/sum_emissions.py +22 -0
  685. endoreg_db/utils/product/sum_weights.py +20 -0
  686. endoreg_db/utils/pydantic_models/__init__.py +5 -0
  687. endoreg_db/utils/pydantic_models/db_config.py +57 -0
  688. endoreg_db/utils/requirement_helpers.py +0 -0
  689. endoreg_db/utils/requirement_operator_logic/__init__.py +0 -0
  690. endoreg_db/utils/requirement_operator_logic/_old/lab_value_operators.py +678 -0
  691. endoreg_db/utils/requirement_operator_logic/_old/model_evaluators.py +842 -0
  692. endoreg_db/utils/requirement_operator_logic/new_operator_logic.py +114 -0
  693. endoreg_db/utils/setup_config.py +196 -0
  694. endoreg_db/utils/storage.py +117 -0
  695. endoreg_db/utils/translation.py +31 -0
  696. endoreg_db/utils/uuid.py +5 -0
  697. endoreg_db/utils/validate_endo_roi.py +33 -0
  698. endoreg_db/utils/validate_subcategory_dict.py +93 -0
  699. endoreg_db/utils/validate_video_detailed.py +415 -0
  700. endoreg_db/utils/video/__init__.py +30 -0
  701. endoreg_db/utils/video/extract_frames.py +100 -0
  702. endoreg_db/utils/video/ffmpeg_wrapper.py +996 -0
  703. endoreg_db/utils/video/names.py +47 -0
  704. endoreg_db/utils/video/streaming_processor.py +386 -0
  705. endoreg_db/utils/video/video_splitter.py +105 -0
  706. endoreg_db/versioning.md +79 -0
  707. endoreg_db/views/Frames_NICE_and_PARIS_classifications_views.py +247 -0
  708. endoreg_db/views/__init__.py +157 -0
  709. endoreg_db/views/anonymization/__init__.py +31 -0
  710. endoreg_db/views/anonymization/media_management.py +486 -0
  711. endoreg_db/views/anonymization/overview.py +307 -0
  712. endoreg_db/views/anonymization/validate.py +310 -0
  713. endoreg_db/views/auth/__init__.py +13 -0
  714. endoreg_db/views/auth/keycloak.py +146 -0
  715. endoreg_db/views/examination/__init__.py +30 -0
  716. endoreg_db/views/examination/examination.py +37 -0
  717. endoreg_db/views/examination/examination_manifest_cache.py +26 -0
  718. endoreg_db/views/examination/get_finding_classification_choices.py +62 -0
  719. endoreg_db/views/examination/get_finding_classifications.py +38 -0
  720. endoreg_db/views/examination/get_findings.py +39 -0
  721. endoreg_db/views/examination/get_instruments.py +19 -0
  722. endoreg_db/views/examination/get_interventions.py +14 -0
  723. endoreg_db/views/finding/__init__.py +9 -0
  724. endoreg_db/views/finding/finding.py +116 -0
  725. endoreg_db/views/finding/get_classifications.py +14 -0
  726. endoreg_db/views/finding/get_interventions.py +17 -0
  727. endoreg_db/views/finding_classification/__init__.py +13 -0
  728. endoreg_db/views/finding_classification/base.py +0 -0
  729. endoreg_db/views/finding_classification/finding_classification.py +41 -0
  730. endoreg_db/views/finding_classification/get_classification_choices.py +54 -0
  731. endoreg_db/views/media/__init__.py +32 -0
  732. endoreg_db/views/media/pdf_media.py +411 -0
  733. endoreg_db/views/media/sensitive_metadata.py +372 -0
  734. endoreg_db/views/media/video_media.py +275 -0
  735. endoreg_db/views/meta/__init__.py +7 -0
  736. endoreg_db/views/meta/sensitive_meta_list.py +102 -0
  737. endoreg_db/views/meta/sensitive_meta_verification.py +74 -0
  738. endoreg_db/views/misc/__init__.py +29 -0
  739. endoreg_db/views/misc/center.py +14 -0
  740. endoreg_db/views/misc/csrf.py +8 -0
  741. endoreg_db/views/misc/gender.py +15 -0
  742. endoreg_db/views/misc/stats.py +255 -0
  743. endoreg_db/views/misc/upload_views.py +241 -0
  744. endoreg_db/views/patient/__init__.py +3 -0
  745. endoreg_db/views/patient/patient.py +253 -0
  746. endoreg_db/views/patient_examination/__init__.py +11 -0
  747. endoreg_db/views/patient_examination/patient_examination.py +141 -0
  748. endoreg_db/views/patient_examination/patient_examination_create.py +58 -0
  749. endoreg_db/views/patient_examination/patient_examination_detail.py +63 -0
  750. endoreg_db/views/patient_examination/patient_examination_list.py +72 -0
  751. endoreg_db/views/patient_examination/video.py +228 -0
  752. endoreg_db/views/patient_finding/__init__.py +7 -0
  753. endoreg_db/views/patient_finding/base.py +0 -0
  754. endoreg_db/views/patient_finding/patient_finding.py +71 -0
  755. endoreg_db/views/patient_finding/patient_finding_optimized.py +291 -0
  756. endoreg_db/views/patient_finding_classification/__init__.py +5 -0
  757. endoreg_db/views/patient_finding_classification/pfc_create.py +75 -0
  758. endoreg_db/views/report/__init__.py +7 -0
  759. endoreg_db/views/report/reimport.py +177 -0
  760. endoreg_db/views/report/report_stream.py +191 -0
  761. endoreg_db/views/requirement/__init__.py +11 -0
  762. endoreg_db/views/requirement/evaluate.py +278 -0
  763. endoreg_db/views/requirement/lookup.py +380 -0
  764. endoreg_db/views/requirement/lookup_store.py +183 -0
  765. endoreg_db/views/requirement/requirement_utils.py +87 -0
  766. endoreg_db/views/requirement_lookup/lookup.py +0 -0
  767. endoreg_db/views/requirement_lookup/lookup_store.py +0 -0
  768. endoreg_db/views/stats/__init__.py +13 -0
  769. endoreg_db/views/stats/stats_views.py +266 -0
  770. endoreg_db/views/video/__init__.py +49 -0
  771. endoreg_db/views/video/ai/__init__.py +8 -0
  772. endoreg_db/views/video/ai/label.py +159 -0
  773. endoreg_db/views/video/correction.py +529 -0
  774. endoreg_db/views/video/reimport.py +230 -0
  775. endoreg_db/views/video/segments_crud.py +709 -0
  776. endoreg_db/views/video/video_apply_mask.py +49 -0
  777. endoreg_db/views/video/video_correction.py +22 -0
  778. endoreg_db/views/video/video_download_processed.py +58 -0
  779. endoreg_db/views/video/video_examination_viewset.py +242 -0
  780. endoreg_db/views/video/video_metadata.py +101 -0
  781. endoreg_db/views/video/video_processing_history.py +25 -0
  782. endoreg_db/views/video/video_remove_frames.py +49 -0
  783. endoreg_db/views/video/video_stream.py +334 -0
  784. endoreg_db-0.8.9.32.dist-info/METADATA +404 -0
  785. endoreg_db-0.8.9.32.dist-info/RECORD +787 -0
  786. endoreg_db-0.8.9.32.dist-info/WHEEL +4 -0
  787. endoreg_db-0.8.9.32.dist-info/licenses/LICENSE +674 -0
@@ -0,0 +1,198 @@
1
+ # --- Add Imports ---
2
+ import logging
3
+ from pathlib import Path
4
+ from typing import TYPE_CHECKING, Optional
5
+
6
+ import cv2
7
+
8
+ # --- End Add Imports ---
9
+
10
+ if TYPE_CHECKING:
11
+ from ..video_file import VideoFile # Correct import path
12
+
13
+ # --- Add Logger ---
14
+ logger = logging.getLogger(__name__)
15
+ # --- End Add Logger ---
16
+
17
+
18
+ def _initialize_video_specs(video: "VideoFile", use_raw: bool = True) -> bool:
19
+ """
20
+ Initializes video specifications for a VideoFile object by reading from the video file.
21
+
22
+ Attempts to populate missing values for fps, width, height, frame count, and duration using OpenCV. Selects the raw file if available and requested, otherwise uses the active file. Updates only unset fields if valid values are obtained. Returns True if successful or if no updates are needed. Raises FileNotFoundError if the video file cannot be found, or RuntimeError if the file cannot be opened or properties cannot be read.
23
+ """
24
+ video_path: Optional[Path] = None
25
+ target_file_name: Optional[str] = None
26
+
27
+ if use_raw and video.has_raw:
28
+ video_path = video.get_raw_file_path() # Use IO helper
29
+ target_file_name = video.raw_file.name
30
+ elif video.active_file: # Fallback to active file if raw not requested or available
31
+ video_path = video.active_file_path # Use property relying on IO helpers
32
+ target_file_name = video.active_file.name
33
+ else:
34
+ logger.error(
35
+ "No suitable video file found for spec initialization for %s.",
36
+ video.video_hash,
37
+ )
38
+ return False
39
+
40
+ if not video_path:
41
+ # Raise exception
42
+ raise FileNotFoundError(
43
+ f"Could not determine video file path for spec initialization for {video.video_hash}."
44
+ )
45
+
46
+ logger.info(
47
+ "Initializing video specs directly from file %s (%s) for %s",
48
+ target_file_name,
49
+ video_path,
50
+ video.video_hash,
51
+ )
52
+ try:
53
+ if not video_path.exists():
54
+ # Raise exception
55
+ raise FileNotFoundError(
56
+ f"Video file not found at {video_path} for spec initialization (Video: {video.video_hash})."
57
+ )
58
+
59
+ video_cap = cv2.VideoCapture(video_path.as_posix())
60
+ if not video_cap.isOpened():
61
+ # Raise exception
62
+ video_cap.release() # Ensure release
63
+ raise RuntimeError(
64
+ f"Could not open video file {video_path} with OpenCV for spec initialization (Video: {video.video_hash})."
65
+ )
66
+
67
+ updated = False
68
+ fields_to_update = []
69
+
70
+ # Get current values before checking
71
+ current_fps = video.fps
72
+ current_width = video.width
73
+ current_height = video.height
74
+ current_frame_count = video.frame_count
75
+ current_duration = video.duration
76
+
77
+ # --- Get values from OpenCV ---
78
+ try:
79
+ file_fps = video_cap.get(cv2.CAP_PROP_FPS)
80
+ file_width = int(video_cap.get(cv2.CAP_PROP_FRAME_WIDTH))
81
+ file_height = int(video_cap.get(cv2.CAP_PROP_FRAME_HEIGHT))
82
+ file_frame_count = int(video_cap.get(cv2.CAP_PROP_FRAME_COUNT))
83
+ except Exception as cv_err:
84
+ logger.error(
85
+ "Error getting properties from OpenCV for %s (Video: %s): %s",
86
+ video_path,
87
+ video.video_hash,
88
+ cv_err,
89
+ exc_info=True,
90
+ )
91
+ raise RuntimeError(
92
+ f"OpenCV failed to get properties for {video_path}"
93
+ ) from cv_err
94
+ finally:
95
+ video_cap.release() # Ensure release after getting props
96
+
97
+ # --- Update FPS ---
98
+ if current_fps is None and file_fps and file_fps > 0:
99
+ video.fps = file_fps
100
+ fields_to_update.append("fps")
101
+ updated = True
102
+ current_fps = file_fps # Update local var for duration calc
103
+
104
+ # --- Update Width ---
105
+ if current_width is None and file_width > 0:
106
+ video.width = file_width
107
+ fields_to_update.append("width")
108
+ updated = True
109
+
110
+ # --- Update Height ---
111
+ if current_height is None and file_height > 0:
112
+ video.height = file_height
113
+ fields_to_update.append("height")
114
+ updated = True
115
+
116
+ # --- Update Frame Count ---
117
+ if current_frame_count is None and file_frame_count and file_frame_count > 0:
118
+ video.frame_count = file_frame_count
119
+ fields_to_update.append("frame_count")
120
+ updated = True
121
+ elif (
122
+ file_frame_count is None or file_frame_count <= 0
123
+ ): # Log if not updated due to invalid file_frame_count
124
+ logger.warning(
125
+ "Invalid frame count (value: %s) obtained from OpenCV for %s. Video frame_count not updated.",
126
+ file_frame_count,
127
+ video_path,
128
+ )
129
+
130
+ # --- Update Duration ---
131
+ if current_duration is None: # Only if duration isn't already set
132
+ # Use the potentially updated video.frame_count and current_fps (which reflects video.fps or file_fps)
133
+ final_frame_count_for_duration = video.frame_count
134
+ final_fps_for_duration = (
135
+ current_fps # This is video.fps after potential update from file_fps
136
+ )
137
+
138
+ if (
139
+ final_frame_count_for_duration
140
+ and final_frame_count_for_duration > 0
141
+ and final_fps_for_duration
142
+ and final_fps_for_duration > 0
143
+ ):
144
+ video.duration = final_frame_count_for_duration / final_fps_for_duration
145
+ fields_to_update.append("duration")
146
+ updated = True
147
+ else:
148
+ # Log if duration could not be calculated, indicating which component was missing/invalid
149
+ if not (
150
+ final_frame_count_for_duration
151
+ and final_frame_count_for_duration > 0
152
+ ):
153
+ logger.warning(
154
+ "Duration not calculated for %s: frame count is unavailable or invalid (value: %s).",
155
+ video_path,
156
+ final_frame_count_for_duration,
157
+ )
158
+ if not (final_fps_for_duration and final_fps_for_duration > 0):
159
+ logger.warning(
160
+ "Duration not calculated for %s: FPS is unavailable or invalid (value: %s).",
161
+ video_path,
162
+ final_fps_for_duration,
163
+ )
164
+
165
+ # --- Save if updated ---
166
+ if updated:
167
+ logger.info(
168
+ "Updated video specs for %s from file %s: %s",
169
+ video.video_hash,
170
+ target_file_name,
171
+ ", ".join(fields_to_update),
172
+ )
173
+ video.save(update_fields=fields_to_update)
174
+ return True
175
+ else:
176
+ logger.info(
177
+ "No video specs needed updating for %s from file %s.",
178
+ video.video_hash,
179
+ target_file_name,
180
+ )
181
+ return True
182
+
183
+ except Exception as e:
184
+ # Log and re-raise exception
185
+ logger.error(
186
+ "Error initializing video specs for %s from file %s: %s",
187
+ video.video_hash,
188
+ video_path,
189
+ e,
190
+ exc_info=True,
191
+ )
192
+ # Ensure capture is released in case of unexpected error
193
+ if "video_cap" in locals() and video_cap.isOpened():
194
+ video_cap.release()
195
+ # Re-raise as RuntimeError
196
+ raise RuntimeError(
197
+ f"Failed to initialize video specs for {video.video_hash} from {video_path}"
198
+ ) from e
@@ -0,0 +1,178 @@
1
+ import logging
2
+ from typing import TYPE_CHECKING, Optional
3
+
4
+ # --- End Fix ---
5
+ from django.db import transaction
6
+
7
+ # --- Fix Imports ---
8
+ from ....metadata import SensitiveMeta
9
+ from ....metadata.sensitive_meta_logic import update_or_create_sensitive_meta_from_dict
10
+
11
+ if TYPE_CHECKING:
12
+ from ..video_file import VideoFile
13
+
14
+ # SensitiveMeta is already imported above
15
+
16
+ logger = logging.getLogger(__name__)
17
+
18
+
19
+ def _update_text_metadata(
20
+ video: "VideoFile",
21
+ extracted_data_dict: Optional[dict] = None,
22
+ ocr_frame_fraction: float = 0.01,
23
+ cap: int = 10,
24
+ overwrite: bool = False,
25
+ ) -> Optional["SensitiveMeta"]:
26
+ """
27
+ Extracts text from a fraction of video frames, updates or creates SensitiveMeta,
28
+ and potentially updates the VideoFile's date field. Requires frames to be extracted.
29
+ Raises ValueError if pre-conditions not met, RuntimeError on processing failure.
30
+
31
+ State Transitions:
32
+ - Pre-condition: Requires state.frames_extracted=True.
33
+ - Post-condition: Sets state.text_meta_extracted=True (even if no text found).
34
+ """
35
+ logger.debug(f"Updating text metadata for video {video.video_hash}")
36
+ state = video.get_or_create_state()
37
+
38
+ # --- Pre-condition Checks ---
39
+ if not state.frames_extracted:
40
+ # Attempt to extract frames automatically if they're not available
41
+ logger.warning(
42
+ f"Frames not extracted for video {video.video_hash}. Attempting automatic frame extraction..."
43
+ )
44
+ try:
45
+ success = video.extract_frames(overwrite=False)
46
+ except (FileNotFoundError, RuntimeError, ValueError, OSError) as exc:
47
+ logger.error(
48
+ "Failed to extract frames for video %s: %s",
49
+ video.video_hash,
50
+ exc,
51
+ exc_info=True,
52
+ )
53
+ raise ValueError(
54
+ f"Cannot update text metadata for video {video.video_hash}: Frames not extracted and automatic extraction failed"
55
+ ) from exc
56
+
57
+ if not success:
58
+ raise ValueError(
59
+ f"Cannot update text metadata for video {video.video_hash}: Frame extraction returned False"
60
+ )
61
+
62
+ state.refresh_from_db()
63
+ if not state.frames_extracted:
64
+ raise ValueError(
65
+ f"Cannot update text metadata for video {video.video_hash}: Frame extraction completed but state was not updated"
66
+ )
67
+
68
+ logger.info(f"Successfully extracted frames for video {video.video_hash}")
69
+
70
+ if state.text_meta_extracted and not overwrite:
71
+ logger.info(
72
+ "Text already extracted for video %s and overwrite=False. Skipping.",
73
+ video.video_hash,
74
+ ) # Changed to info
75
+ return video.sensitive_meta # Return existing meta if available
76
+ # --- End Pre-condition Checks ---
77
+
78
+ # Extract text using the AI helper function
79
+ # _extract_text_from_video_frames raises ValueError on pre-condition failure
80
+ try:
81
+ if not extracted_data_dict:
82
+ extracted_data_dict = video.extract_text_from_frames(
83
+ frame_fraction=ocr_frame_fraction, cap=cap
84
+ )
85
+ except Exception as text_extract_e:
86
+ logger.error(
87
+ "Failed during text extraction step for video %s: %s",
88
+ video.video_hash,
89
+ text_extract_e,
90
+ exc_info=True,
91
+ )
92
+ raise RuntimeError(
93
+ f"Text extraction failed for video {video.video_hash}"
94
+ ) from text_extract_e
95
+
96
+ # --- Atomic Update Block ---
97
+ try:
98
+ with transaction.atomic():
99
+ # Refresh state in case it changed
100
+ state.refresh_from_db()
101
+ sensitive_meta_instance = video.sensitive_meta # Get current instance
102
+
103
+ if not extracted_data_dict:
104
+ logger.warning(
105
+ "No text extracted for video %s; skipping SensitiveMeta update.",
106
+ video.video_hash,
107
+ )
108
+ # Mark state as retrieved even if no data found, to avoid re-running unless overwrite=True
109
+ if not state.text_meta_extracted:
110
+ state.text_meta_extracted = True
111
+ state.save(update_fields=["text_meta_extracted"])
112
+ return sensitive_meta_instance # Return existing meta if available
113
+
114
+ # Add center info if not already present in extracted data
115
+ if "center_name" not in extracted_data_dict and video.center:
116
+ extracted_data_dict["center_name"] = video.center.name
117
+ logger.debug(
118
+ "Data for SensitiveMeta update for video %s: %s",
119
+ video.video_hash,
120
+ extracted_data_dict,
121
+ )
122
+
123
+ # Pass the Class, the data dict, and the current instance (or None)
124
+ # This function might raise exceptions if data is invalid
125
+ sensitive_meta, created = update_or_create_sensitive_meta_from_dict(
126
+ SensitiveMeta, # Pass the class
127
+ extracted_data_dict,
128
+ instance=sensitive_meta_instance, # Pass current instance via keyword
129
+ )
130
+
131
+ # Update VideoFile fields if necessary
132
+ update_fields_video = []
133
+ if (
134
+ created or sensitive_meta != sensitive_meta_instance
135
+ ): # Check if relation needs update
136
+ video.sensitive_meta = sensitive_meta
137
+ update_fields_video.append("sensitive_meta")
138
+
139
+ if not video.date and sensitive_meta and extracted_data_dict.get("date"):
140
+ extracted_date = extracted_data_dict.get("date")
141
+ if extracted_date: # Ensure date is not None or empty
142
+ video.date = extracted_date
143
+ update_fields_video.append("date")
144
+
145
+ # Save VideoFile if fields changed
146
+ if update_fields_video:
147
+ video.save(update_fields=update_fields_video)
148
+
149
+ # Update state
150
+ if not state.text_meta_extracted:
151
+ state.text_meta_extracted = True
152
+ state.save(update_fields=["text_meta_extracted"])
153
+
154
+ # Mark sensitive meta as processed when updated via text metadata
155
+ if sensitive_meta:
156
+ state.mark_sensitive_meta_processed(save=True)
157
+ logger.info(
158
+ f"Marked sensitive_meta_processed=True for video {video.video_hash} after text metadata update"
159
+ )
160
+
161
+ logger.info(
162
+ "Successfully updated/created SensitiveMeta and state for video %s.",
163
+ video.video_hash,
164
+ ) # Changed to info
165
+ return sensitive_meta
166
+
167
+ except Exception as e:
168
+ logger.error(
169
+ "Failed to update/create SensitiveMeta or state for video %s: %s",
170
+ video.video_hash,
171
+ e,
172
+ exc_info=True,
173
+ )
174
+ # Re-raise exception for the pipeline to catch
175
+ raise RuntimeError(
176
+ f"Failed to update/create SensitiveMeta or state for video {video.video_hash}"
177
+ ) from e
178
+ # --- End Atomic Update Block ---
@@ -0,0 +1,105 @@
1
+ import logging
2
+ from typing import TYPE_CHECKING
3
+
4
+ if TYPE_CHECKING:
5
+ from ..video_file import VideoFile
6
+
7
+ logger = logging.getLogger(__name__)
8
+
9
+
10
+ def _update_video_meta(video: "VideoFile", save_instance: bool = True):
11
+ """
12
+ Updates or creates the technical VideoMeta from the raw video file.
13
+ Raises FileNotFoundError or ValueError on pre-condition failure, RuntimeError on processing failure.
14
+ """
15
+ from ....metadata import VideoMeta # Local import
16
+
17
+ logger.debug(
18
+ "Updating technical VideoMeta for video %s (from raw file).", video.video_hash
19
+ )
20
+
21
+ if not video.has_raw:
22
+ # DEFENSIVE: Log warning and skip instead of crashing
23
+ logger.warning(
24
+ f"Raw video file path not available for {video.video_hash}. Skipping VideoMeta update - this may indicate the video was processed and raw file moved."
25
+ )
26
+ return # Graceful skip instead of FileNotFoundError
27
+
28
+ raw_video_path = video.get_raw_file_path() # Use helper
29
+ if not raw_video_path or not raw_video_path.exists():
30
+ # DEFENSIVE: Log warning and skip instead of crashing production pipeline
31
+ logger.warning(
32
+ f"Raw video file path {raw_video_path} does not exist for video {video.video_hash}. Skipping VideoMeta update - this typically happens after video processing when raw files are moved to processed location."
33
+ )
34
+ return # Graceful skip instead of FileNotFoundError that crashes production
35
+
36
+ try:
37
+ vm = video.video_meta
38
+ if vm:
39
+ logger.info(
40
+ "Updating existing VideoMeta (PK: %s) for video %s.",
41
+ vm.pk,
42
+ video.video_hash,
43
+ )
44
+ vm.update_meta(
45
+ raw_video_path
46
+ ) # Assuming this method exists and raises on error
47
+ vm.save()
48
+ else:
49
+ if not video.center or not video.processor:
50
+ # Raise exception
51
+ raise ValueError(
52
+ f"Cannot create VideoMeta for {video.video_hash}: Center or Processor is missing."
53
+ )
54
+
55
+ logger.info("Creating new VideoMeta for video %s.", video.video_hash)
56
+ # Assuming create_from_file exists and raises on error
57
+ video.video_meta = VideoMeta.create_from_file(
58
+ video_path=raw_video_path,
59
+ center=video.center,
60
+ processor=video.processor,
61
+ save_instance=True, # Let create_from_file handle saving
62
+ )
63
+ vm = video.video_meta
64
+ assert vm is not None # For type checker
65
+ logger.info(
66
+ "Created and linked VideoMeta (PK: %s) for video %s.",
67
+ vm.pk,
68
+ video.video_hash,
69
+ )
70
+
71
+ # Save the VideoFile instance itself if requested and if video_meta was linked/updated
72
+ if save_instance:
73
+ update_fields = ["video_meta"]
74
+ # Check if derived fields also need updating
75
+ if video.video_meta:
76
+ meta_fields = ["fps", "duration", "frame_count", "width", "height"]
77
+ for field in meta_fields:
78
+ # Check if field is None on video but has value on meta
79
+ if (
80
+ getattr(video, field) is None
81
+ and getattr(video.video_meta, field, None) is not None
82
+ ):
83
+ # No need to set attribute here, save method handles it
84
+ update_fields.append(field)
85
+ # Ensure update_fields has unique values before saving
86
+ unique_update_fields = list(set(update_fields))
87
+ if unique_update_fields:
88
+ video.save(update_fields=unique_update_fields)
89
+ logger.info(
90
+ "Saved video %s after VideoMeta update (Fields: %s).",
91
+ video.video_hash,
92
+ unique_update_fields,
93
+ )
94
+
95
+ except Exception as e:
96
+ logger.error(
97
+ "Failed to update/create VideoMeta for video %s: %s",
98
+ video.video_hash,
99
+ e,
100
+ exc_info=True,
101
+ )
102
+ # Re-raise exception
103
+ raise RuntimeError(
104
+ f"Failed to update/create VideoMeta for video {video.video_hash}"
105
+ ) from e