endoreg-db 0.4.5__py3-none-any.whl → 0.8.6.3__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.
Files changed (846) hide show
  1. endoreg_db/admin.py +90 -1
  2. endoreg_db/api_urls.py +4 -0
  3. endoreg_db/apps.py +12 -0
  4. endoreg_db/assets/dummy_model.ckpt +1 -0
  5. endoreg_db/codemods/readme.md +88 -0
  6. endoreg_db/codemods/rename_datetime_fields.py +92 -0
  7. endoreg_db/config/env.py +101 -0
  8. endoreg_db/data/__init__.py +76 -4
  9. endoreg_db/data/ai_model/data.yaml +7 -0
  10. endoreg_db/data/{label → ai_model_label}/label/data.yaml +27 -1
  11. endoreg_db/data/ai_model_label/label/polyp_classification.yaml +52 -0
  12. endoreg_db/data/ai_model_label/label-set/data.yaml +40 -0
  13. endoreg_db/data/ai_model_label/label-set/polyp_classifications.yaml +25 -0
  14. endoreg_db/data/ai_model_meta/default_multilabel_classification.yaml +27 -0
  15. endoreg_db/data/ai_model_video_segmentation_label/base_segmentation.yaml +176 -0
  16. endoreg_db/data/ai_model_video_segmentation_labelset/data.yaml +20 -0
  17. endoreg_db/data/center/data.yaml +40 -9
  18. endoreg_db/data/center_shift/ukw.yaml +9 -0
  19. endoreg_db/data/contraindication/bleeding.yaml +11 -0
  20. endoreg_db/data/db_summary.csv +58 -0
  21. endoreg_db/data/db_summary.xlsx +0 -0
  22. endoreg_db/data/disease/misc.yaml +1 -2
  23. endoreg_db/data/disease_classification/chronic_kidney_disease.yaml +2 -2
  24. endoreg_db/data/disease_classification_choice/chronic_kidney_disease.yaml +6 -6
  25. endoreg_db/data/distribution/numeric/data.yaml +14 -0
  26. endoreg_db/data/endoscope/data.yaml +93 -0
  27. endoreg_db/data/endoscopy_processor/data.yaml +3 -0
  28. endoreg_db/data/event/cardiology.yaml +0 -13
  29. endoreg_db/data/examination/examinations/data.yaml +34 -28
  30. endoreg_db/data/examination/type/data.yaml +12 -0
  31. endoreg_db/data/examination_indication/endoscopy.yaml +424 -0
  32. endoreg_db/data/examination_indication_classification/endoscopy.yaml +160 -0
  33. endoreg_db/data/examination_indication_classification_choice/endoscopy.yaml +101 -0
  34. endoreg_db/data/examination_requirement_set/colonoscopy.yaml +15 -0
  35. endoreg_db/data/finding/anatomy_colon.yaml +128 -0
  36. endoreg_db/data/finding/colonoscopy.yaml +40 -0
  37. endoreg_db/data/finding/colonoscopy_bowel_prep.yaml +56 -0
  38. endoreg_db/data/finding/complication.yaml +16 -0
  39. endoreg_db/data/finding/data.yaml +105 -0
  40. endoreg_db/data/finding/examination_setting.yaml +16 -0
  41. endoreg_db/data/finding/medication_related.yaml +18 -0
  42. endoreg_db/data/finding/outcome.yaml +12 -0
  43. endoreg_db/data/finding_classification/colonoscopy_bowel_preparation.yaml +95 -0
  44. endoreg_db/data/finding_classification/colonoscopy_jnet.yaml +22 -0
  45. endoreg_db/data/finding_classification/colonoscopy_kudo.yaml +25 -0
  46. endoreg_db/data/finding_classification/colonoscopy_lesion_circularity.yaml +20 -0
  47. endoreg_db/data/finding_classification/colonoscopy_lesion_planarity.yaml +24 -0
  48. endoreg_db/data/finding_classification/colonoscopy_lesion_size.yaml +68 -0
  49. endoreg_db/data/finding_classification/colonoscopy_lesion_surface.yaml +20 -0
  50. endoreg_db/data/finding_classification/colonoscopy_location.yaml +80 -0
  51. endoreg_db/data/finding_classification/colonoscopy_lst.yaml +21 -0
  52. endoreg_db/data/finding_classification/colonoscopy_nice.yaml +20 -0
  53. endoreg_db/data/finding_classification/colonoscopy_paris.yaml +26 -0
  54. endoreg_db/data/finding_classification/colonoscopy_sano.yaml +22 -0
  55. endoreg_db/data/finding_classification/colonoscopy_summary.yaml +53 -0
  56. endoreg_db/data/finding_classification/complication_generic.yaml +25 -0
  57. endoreg_db/data/finding_classification/examination_setting_generic.yaml +40 -0
  58. endoreg_db/data/finding_classification/histology_colo.yaml +51 -0
  59. endoreg_db/data/finding_classification/intervention_required.yaml +26 -0
  60. endoreg_db/data/finding_classification/medication_related.yaml +23 -0
  61. endoreg_db/data/finding_classification/visualized.yaml +33 -0
  62. endoreg_db/data/finding_classification_choice/bowel_preparation.yaml +78 -0
  63. endoreg_db/data/finding_classification_choice/colon_lesion_circularity_default.yaml +32 -0
  64. endoreg_db/data/finding_classification_choice/colon_lesion_jnet.yaml +15 -0
  65. endoreg_db/data/finding_classification_choice/colon_lesion_kudo.yaml +23 -0
  66. endoreg_db/data/finding_classification_choice/colon_lesion_lst.yaml +15 -0
  67. endoreg_db/data/finding_classification_choice/colon_lesion_nice.yaml +17 -0
  68. endoreg_db/data/finding_classification_choice/colon_lesion_paris.yaml +57 -0
  69. endoreg_db/data/finding_classification_choice/colon_lesion_planarity_default.yaml +49 -0
  70. endoreg_db/data/finding_classification_choice/colon_lesion_sano.yaml +14 -0
  71. endoreg_db/data/finding_classification_choice/colon_lesion_surface_intact_default.yaml +36 -0
  72. endoreg_db/data/finding_classification_choice/colonoscopy_location.yaml +229 -0
  73. endoreg_db/data/finding_classification_choice/colonoscopy_not_complete_reason.yaml +19 -0
  74. endoreg_db/data/finding_classification_choice/colonoscopy_size.yaml +82 -0
  75. endoreg_db/data/finding_classification_choice/colonoscopy_summary_worst_finding.yaml +15 -0
  76. endoreg_db/data/finding_classification_choice/complication_generic_types.yaml +15 -0
  77. endoreg_db/data/finding_classification_choice/examination_setting_generic_types.yaml +15 -0
  78. endoreg_db/data/finding_classification_choice/histology.yaml +24 -0
  79. endoreg_db/data/finding_classification_choice/histology_polyp.yaml +20 -0
  80. endoreg_db/data/finding_classification_choice/outcome.yaml +19 -0
  81. endoreg_db/data/finding_classification_choice/yes_no_na.yaml +11 -0
  82. endoreg_db/data/finding_classification_type/colonoscopy_basic.yaml +48 -0
  83. endoreg_db/data/finding_intervention/endoscopy.yaml +43 -0
  84. endoreg_db/data/finding_intervention/endoscopy_colonoscopy.yaml +168 -0
  85. endoreg_db/data/finding_intervention/endoscopy_egd.yaml +128 -0
  86. endoreg_db/data/finding_intervention/endoscopy_ercp.yaml +32 -0
  87. endoreg_db/data/finding_intervention/endoscopy_eus_lower.yaml +9 -0
  88. endoreg_db/data/finding_intervention/endoscopy_eus_upper.yaml +36 -0
  89. endoreg_db/data/finding_intervention_type/endoscopy.yaml +15 -0
  90. endoreg_db/data/finding_morphology_classification_type/colonoscopy.yaml +79 -0
  91. endoreg_db/data/finding_type/data.yaml +43 -0
  92. endoreg_db/data/gender/data.yaml +24 -0
  93. endoreg_db/data/information_source/annotation.yaml +6 -0
  94. endoreg_db/data/information_source/endoscopy_guidelines.yaml +7 -0
  95. endoreg_db/data/information_source/prediction.yaml +7 -0
  96. endoreg_db/data/information_source_type/data.yaml +8 -0
  97. endoreg_db/data/lab_value/cardiac_enzymes.yaml +7 -1
  98. endoreg_db/data/lab_value/coagulation.yaml +6 -1
  99. endoreg_db/data/lab_value/electrolytes.yaml +39 -1
  100. endoreg_db/data/lab_value/gastrointestinal_function.yaml +12 -0
  101. endoreg_db/data/lab_value/hematology.yaml +17 -2
  102. endoreg_db/data/lab_value/hormones.yaml +6 -0
  103. endoreg_db/data/lab_value/lipids.yaml +12 -3
  104. endoreg_db/data/lab_value/misc.yaml +48 -2
  105. endoreg_db/data/lab_value/renal_function.yaml +2 -1
  106. endoreg_db/data/lx_client_tag/base.yaml +54 -0
  107. endoreg_db/data/lx_client_type/base.yaml +30 -0
  108. endoreg_db/data/lx_permission/base.yaml +24 -0
  109. endoreg_db/data/lx_permission/endoreg.yaml +52 -0
  110. endoreg_db/data/medication/anticoagulation.yaml +5 -5
  111. endoreg_db/data/medication/tah.yaml +5 -5
  112. endoreg_db/data/medication_indication/anticoagulation.yaml +48 -53
  113. endoreg_db/data/medication_intake_time/base.yaml +4 -4
  114. endoreg_db/data/names_first/first_names.yaml +54 -0
  115. endoreg_db/data/names_last/last_names.yaml +51 -0
  116. endoreg_db/data/network_device/data.yaml +30 -0
  117. endoreg_db/data/organ/data.yaml +29 -0
  118. endoreg_db/data/pdf_type/data.yaml +27 -9
  119. endoreg_db/data/qualification/endoscopy.yaml +36 -0
  120. endoreg_db/data/qualification/m2.yaml +39 -0
  121. endoreg_db/data/qualification/outpatient_clinic.yaml +35 -0
  122. endoreg_db/data/qualification/sonography.yaml +36 -0
  123. endoreg_db/data/qualification_type/base.yaml +29 -0
  124. endoreg_db/data/report_reader_flag/rkh-histology-generic.yaml +10 -0
  125. endoreg_db/data/report_reader_flag/ukw-examination-generic.yaml +4 -0
  126. endoreg_db/data/report_reader_flag/ukw-histology-generic.yaml +5 -0
  127. endoreg_db/data/requirement/age.yaml +26 -0
  128. endoreg_db/data/requirement/colonoscopy_baseline_austria.yaml +45 -0
  129. endoreg_db/data/requirement/disease_cardiovascular.yaml +79 -0
  130. endoreg_db/data/requirement/disease_classification_choice_cardiovascular.yaml +41 -0
  131. endoreg_db/data/requirement/disease_hepatology.yaml +12 -0
  132. endoreg_db/data/requirement/disease_misc.yaml +12 -0
  133. endoreg_db/data/requirement/disease_renal.yaml +96 -0
  134. endoreg_db/data/requirement/endoscopy_bleeding_risk.yaml +59 -0
  135. endoreg_db/data/requirement/event_cardiology.yaml +251 -0
  136. endoreg_db/data/requirement/event_requirements.yaml +145 -0
  137. endoreg_db/data/requirement/finding_colon_polyp.yaml +50 -0
  138. endoreg_db/data/requirement/gender.yaml +25 -0
  139. endoreg_db/data/requirement/lab_value.yaml +441 -0
  140. endoreg_db/data/requirement/medication.yaml +93 -0
  141. endoreg_db/data/requirement_operator/age.yaml +13 -0
  142. endoreg_db/data/requirement_operator/lab_operators.yaml +129 -0
  143. endoreg_db/data/requirement_operator/model_operators.yaml +96 -0
  144. endoreg_db/data/requirement_set/01_endoscopy_generic.yaml +48 -0
  145. endoreg_db/data/requirement_set/colonoscopy_austria_screening.yaml +57 -0
  146. endoreg_db/data/requirement_set/endoscopy_bleeding_risk.yaml +52 -0
  147. endoreg_db/data/requirement_set_type/data.yaml +20 -0
  148. endoreg_db/data/requirement_type/requirement_types.yaml +165 -0
  149. endoreg_db/data/risk/bleeding.yaml +26 -0
  150. endoreg_db/data/risk/thrombosis.yaml +37 -0
  151. endoreg_db/data/risk_type/data.yaml +27 -0
  152. endoreg_db/data/setup_config.yaml +38 -0
  153. endoreg_db/data/shift/endoscopy.yaml +21 -0
  154. endoreg_db/data/shift_type/base.yaml +35 -0
  155. endoreg_db/data/tag/requirement_set_tags.yaml +11 -0
  156. endoreg_db/data/unit/concentration.yaml +23 -0
  157. endoreg_db/data/unit/time.yaml +36 -1
  158. endoreg_db/exceptions.py +19 -0
  159. endoreg_db/forms/__init__.py +3 -1
  160. endoreg_db/forms/examination_form.py +11 -0
  161. endoreg_db/forms/patient_finding_intervention_form.py +18 -0
  162. endoreg_db/forms/patient_form.py +27 -0
  163. endoreg_db/forms/questionnaires/__init__.py +1 -1
  164. endoreg_db/forms/questionnaires/tto_questionnaire.py +19 -19
  165. endoreg_db/helpers/count_db.py +45 -0
  166. endoreg_db/helpers/data_loader.py +208 -0
  167. endoreg_db/helpers/default_objects.py +378 -0
  168. endoreg_db/helpers/download_segmentation_model.py +31 -0
  169. endoreg_db/helpers/interact.py +6 -0
  170. endoreg_db/helpers/test_video_helper.py +119 -0
  171. endoreg_db/logger_conf.py +140 -0
  172. endoreg_db/management/__init__.py +1 -0
  173. endoreg_db/management/commands/__init__.py +1 -0
  174. endoreg_db/management/commands/anonymize_video.py +0 -0
  175. endoreg_db/management/commands/check_auth.py +125 -0
  176. endoreg_db/management/commands/create_model_meta_from_huggingface.py +115 -0
  177. endoreg_db/management/commands/create_multilabel_model_meta.py +214 -0
  178. endoreg_db/management/commands/fix_missing_patient_data.py +172 -0
  179. endoreg_db/management/commands/fix_video_paths.py +165 -0
  180. endoreg_db/management/commands/import_fallback_video.py +203 -0
  181. endoreg_db/management/commands/import_report.py +298 -0
  182. endoreg_db/management/commands/import_video.py +423 -0
  183. endoreg_db/management/commands/import_video_with_classification.py +367 -0
  184. endoreg_db/management/commands/init_default_ai_model.py +112 -0
  185. endoreg_db/management/commands/load_ai_model_data.py +58 -26
  186. endoreg_db/management/commands/load_ai_model_label_data.py +59 -0
  187. endoreg_db/management/commands/load_base_db_data.py +174 -118
  188. endoreg_db/management/commands/load_center_data.py +46 -21
  189. endoreg_db/management/commands/{load_logging_data.py → load_contraindication_data.py} +4 -2
  190. endoreg_db/management/commands/load_disease_data.py +29 -7
  191. endoreg_db/management/commands/{load_endoscope_type_data.py → load_endoscope_data.py} +30 -7
  192. endoreg_db/management/commands/load_examination_indication_data.py +86 -0
  193. endoreg_db/management/commands/load_finding_data.py +128 -0
  194. endoreg_db/management/commands/load_green_endoscopy_wuerzburg_data.py +0 -1
  195. endoreg_db/management/commands/load_information_source.py +13 -7
  196. endoreg_db/management/commands/load_lab_value_data.py +3 -3
  197. endoreg_db/management/commands/load_medication_data.py +83 -21
  198. endoreg_db/management/commands/load_name_data.py +37 -0
  199. endoreg_db/management/commands/{load_medication_intake_time_data.py → load_organ_data.py} +7 -5
  200. endoreg_db/management/commands/load_qualification_data.py +59 -0
  201. endoreg_db/management/commands/load_requirement_data.py +180 -0
  202. endoreg_db/management/commands/load_risk_data.py +56 -0
  203. endoreg_db/management/commands/load_shift_data.py +60 -0
  204. endoreg_db/management/commands/load_tag_data.py +57 -0
  205. endoreg_db/management/commands/register_ai_model.py +1 -1
  206. endoreg_db/management/commands/setup_endoreg_db.py +381 -0
  207. endoreg_db/management/commands/start_filewatcher.py +106 -0
  208. endoreg_db/management/commands/storage_management.py +548 -0
  209. endoreg_db/management/commands/summarize_db_content.py +189 -0
  210. endoreg_db/management/commands/validate_video.py +204 -0
  211. endoreg_db/management/commands/validate_video_files.py +161 -0
  212. endoreg_db/management/commands/video_validation.py +22 -0
  213. endoreg_db/mermaid/Overall_flow_patient_finding_intervention.md +10 -0
  214. endoreg_db/mermaid/anonymized_image_annotation.md +20 -0
  215. endoreg_db/mermaid/binary_classification_annotation.md +50 -0
  216. endoreg_db/mermaid/classification.md +8 -0
  217. endoreg_db/mermaid/examination.md +8 -0
  218. endoreg_db/mermaid/findings.md +7 -0
  219. endoreg_db/mermaid/image_classification.md +28 -0
  220. endoreg_db/mermaid/interventions.md +8 -0
  221. endoreg_db/mermaid/morphology.md +8 -0
  222. endoreg_db/mermaid/patient_creation.md +14 -0
  223. endoreg_db/mermaid/video_segmentation_annotation.md +17 -0
  224. endoreg_db/migrations/0001_initial.py +1234 -944
  225. endoreg_db/migrations/0002_add_video_correction_models.py +52 -0
  226. endoreg_db/migrations/0003_add_center_display_name.py +30 -0
  227. endoreg_db/models/__init__.py +339 -53
  228. endoreg_db/models/administration/__init__.py +116 -0
  229. endoreg_db/models/administration/ai/__init__.py +9 -0
  230. endoreg_db/models/administration/ai/active_model.py +35 -0
  231. endoreg_db/models/administration/ai/ai_model.py +156 -0
  232. endoreg_db/models/{ai_model → administration/ai}/model_type.py +19 -4
  233. endoreg_db/models/administration/case/__init__.py +19 -0
  234. endoreg_db/models/administration/case/case.py +114 -0
  235. endoreg_db/models/{case_template → administration/case/case_template}/__init__.py +10 -1
  236. endoreg_db/models/{case_template → administration/case/case_template}/case_template.py +60 -16
  237. endoreg_db/models/{case_template → administration/case/case_template}/case_template_rule.py +6 -13
  238. endoreg_db/models/{case_template → administration/case/case_template}/case_template_rule_value.py +21 -8
  239. endoreg_db/models/{case_template → administration/case/case_template}/case_template_type.py +1 -3
  240. endoreg_db/models/{center → administration/center}/__init__.py +9 -0
  241. endoreg_db/models/administration/center/center.py +67 -0
  242. endoreg_db/models/administration/center/center_product.py +64 -0
  243. endoreg_db/models/administration/center/center_resource.py +49 -0
  244. endoreg_db/models/administration/center/center_shift.py +88 -0
  245. endoreg_db/models/administration/center/center_waste.py +30 -0
  246. endoreg_db/models/administration/permissions/__init__.py +44 -0
  247. endoreg_db/models/administration/person/__init__.py +24 -0
  248. endoreg_db/models/administration/person/employee/__init__.py +3 -0
  249. endoreg_db/models/administration/person/employee/employee.py +35 -0
  250. endoreg_db/models/administration/person/employee/employee_qualification.py +39 -0
  251. endoreg_db/models/administration/person/employee/employee_type.py +42 -0
  252. endoreg_db/models/administration/person/examiner/__init__.py +4 -0
  253. endoreg_db/models/administration/person/examiner/examiner.py +54 -0
  254. endoreg_db/models/administration/person/names/__init__.py +0 -0
  255. endoreg_db/models/{persons → administration/person/names}/first_name.py +1 -1
  256. endoreg_db/models/{persons → administration/person/names}/last_name.py +2 -3
  257. endoreg_db/models/administration/person/patient/__init__.py +5 -0
  258. endoreg_db/models/administration/person/patient/patient.py +460 -0
  259. endoreg_db/models/administration/person/profession/__init__.py +24 -0
  260. endoreg_db/models/administration/person/user/__init__.py +5 -0
  261. endoreg_db/models/administration/person/user/portal_user_information.py +37 -0
  262. endoreg_db/models/administration/product/__init__.py +14 -0
  263. endoreg_db/models/administration/product/product.py +97 -0
  264. endoreg_db/models/administration/product/product_group.py +39 -0
  265. endoreg_db/models/administration/product/product_material.py +54 -0
  266. endoreg_db/models/{product → administration/product}/product_weight.py +21 -0
  267. endoreg_db/models/{product → administration/product}/reference_product.py +44 -13
  268. endoreg_db/models/administration/qualification/__init__.py +7 -0
  269. endoreg_db/models/administration/qualification/qualification.py +37 -0
  270. endoreg_db/models/administration/qualification/qualification_type.py +35 -0
  271. endoreg_db/models/administration/shift/__init__.py +9 -0
  272. endoreg_db/models/administration/shift/scheduled_days.py +69 -0
  273. endoreg_db/models/administration/shift/shift.py +51 -0
  274. endoreg_db/models/administration/shift/shift_type.py +108 -0
  275. endoreg_db/models/label/__init__.py +24 -1
  276. endoreg_db/models/label/annotation/__init__.py +12 -0
  277. endoreg_db/models/label/annotation/image_classification.py +84 -0
  278. endoreg_db/models/label/annotation/video_segmentation_annotation.py +66 -0
  279. endoreg_db/models/label/label.py +53 -54
  280. endoreg_db/models/label/label_set.py +53 -0
  281. endoreg_db/models/label/label_type.py +29 -0
  282. endoreg_db/models/label/label_video_segment/__init__.py +3 -0
  283. endoreg_db/models/label/label_video_segment/_create_from_video.py +41 -0
  284. endoreg_db/models/label/label_video_segment/label_video_segment.py +511 -0
  285. endoreg_db/models/label/video_segmentation_label.py +31 -0
  286. endoreg_db/models/label/video_segmentation_labelset.py +27 -0
  287. endoreg_db/models/media/__init__.py +16 -0
  288. endoreg_db/models/media/frame/__init__.py +3 -0
  289. endoreg_db/models/media/frame/frame.py +111 -0
  290. endoreg_db/models/media/pdf/__init__.py +11 -0
  291. endoreg_db/models/media/pdf/raw_pdf.py +757 -0
  292. endoreg_db/models/media/pdf/report_file.py +162 -0
  293. endoreg_db/models/media/pdf/report_reader/__init__.py +7 -0
  294. endoreg_db/models/media/pdf/report_reader/report_reader_config.py +77 -0
  295. endoreg_db/models/media/video/__init__.py +8 -0
  296. endoreg_db/models/media/video/create_from_file.py +358 -0
  297. endoreg_db/models/media/video/pipe_1.py +213 -0
  298. endoreg_db/models/media/video/pipe_2.py +105 -0
  299. endoreg_db/models/media/video/refactor_plan.md +0 -0
  300. endoreg_db/models/media/video/video_file.py +825 -0
  301. endoreg_db/models/media/video/video_file_ai.py +443 -0
  302. endoreg_db/models/media/video/video_file_anonymize.py +349 -0
  303. endoreg_db/models/media/video/video_file_frames/__init__.py +47 -0
  304. endoreg_db/models/media/video/video_file_frames/_bulk_create_frames.py +22 -0
  305. endoreg_db/models/media/video/video_file_frames/_create_frame_object.py +23 -0
  306. endoreg_db/models/media/video/video_file_frames/_delete_frames.py +104 -0
  307. endoreg_db/models/media/video/video_file_frames/_extract_frames.py +174 -0
  308. endoreg_db/models/media/video/video_file_frames/_get_frame.py +28 -0
  309. endoreg_db/models/media/video/video_file_frames/_get_frame_number.py +27 -0
  310. endoreg_db/models/media/video/video_file_frames/_get_frame_path.py +20 -0
  311. endoreg_db/models/media/video/video_file_frames/_get_frame_paths.py +27 -0
  312. endoreg_db/models/media/video/video_file_frames/_get_frame_range.py +34 -0
  313. endoreg_db/models/media/video/video_file_frames/_get_frames.py +27 -0
  314. endoreg_db/models/media/video/video_file_frames/_initialize_frames.py +129 -0
  315. endoreg_db/models/media/video/video_file_frames/_manage_frame_range.py +141 -0
  316. endoreg_db/models/media/video/video_file_frames/_mark_frames_extracted_status.py +65 -0
  317. endoreg_db/models/media/video/video_file_frames.py +0 -0
  318. endoreg_db/models/media/video/video_file_io.py +168 -0
  319. endoreg_db/models/media/video/video_file_meta/__init__.py +22 -0
  320. endoreg_db/models/media/video/video_file_meta/get_crop_template.py +45 -0
  321. endoreg_db/models/media/video/video_file_meta/get_endo_roi.py +39 -0
  322. endoreg_db/models/media/video/video_file_meta/get_fps.py +147 -0
  323. endoreg_db/models/media/video/video_file_meta/initialize_video_specs.py +143 -0
  324. endoreg_db/models/media/video/video_file_meta/text_meta.py +134 -0
  325. endoreg_db/models/media/video/video_file_meta/video_meta.py +70 -0
  326. endoreg_db/models/media/video/video_file_segments.py +209 -0
  327. endoreg_db/models/media/video/video_metadata.py +65 -0
  328. endoreg_db/models/media/video/video_processing.py +152 -0
  329. endoreg_db/models/medical/__init__.py +146 -0
  330. endoreg_db/models/medical/contraindication/__init__.py +17 -0
  331. endoreg_db/models/medical/disease.py +156 -0
  332. endoreg_db/models/medical/event.py +137 -0
  333. endoreg_db/models/medical/examination/__init__.py +9 -0
  334. endoreg_db/models/medical/examination/examination.py +148 -0
  335. endoreg_db/models/medical/examination/examination_indication.py +278 -0
  336. endoreg_db/models/medical/examination/examination_time.py +49 -0
  337. endoreg_db/models/medical/examination/examination_time_type.py +41 -0
  338. endoreg_db/models/medical/examination/examination_type.py +48 -0
  339. endoreg_db/models/medical/finding/__init__.py +18 -0
  340. endoreg_db/models/medical/finding/finding.py +96 -0
  341. endoreg_db/models/medical/finding/finding_classification.py +142 -0
  342. endoreg_db/models/medical/finding/finding_intervention.py +52 -0
  343. endoreg_db/models/medical/finding/finding_type.py +35 -0
  344. endoreg_db/models/medical/hardware/__init__.py +8 -0
  345. endoreg_db/models/medical/hardware/endoscope.py +65 -0
  346. endoreg_db/models/{hardware → medical/hardware}/endoscopy_processor.py +68 -29
  347. endoreg_db/models/medical/laboratory/__init__.py +5 -0
  348. endoreg_db/models/medical/laboratory/lab_value.py +419 -0
  349. endoreg_db/models/medical/medication/__init__.py +19 -0
  350. endoreg_db/models/medical/medication/medication.py +31 -0
  351. endoreg_db/models/medical/medication/medication_indication.py +50 -0
  352. endoreg_db/models/medical/medication/medication_indication_type.py +39 -0
  353. endoreg_db/models/medical/medication/medication_intake_time.py +44 -0
  354. endoreg_db/models/medical/medication/medication_schedule.py +45 -0
  355. endoreg_db/models/medical/organ/__init__.py +35 -0
  356. endoreg_db/models/medical/patient/__init__.py +56 -0
  357. endoreg_db/models/medical/patient/medication_examples.py +38 -0
  358. endoreg_db/models/medical/patient/patient_disease.py +63 -0
  359. endoreg_db/models/medical/patient/patient_event.py +75 -0
  360. endoreg_db/models/medical/patient/patient_examination.py +249 -0
  361. endoreg_db/models/medical/patient/patient_examination_indication.py +44 -0
  362. endoreg_db/models/medical/patient/patient_finding.py +357 -0
  363. endoreg_db/models/medical/patient/patient_finding_classification.py +207 -0
  364. endoreg_db/models/medical/patient/patient_finding_intervention.py +40 -0
  365. endoreg_db/models/medical/patient/patient_lab_sample.py +148 -0
  366. endoreg_db/models/{persons → medical}/patient/patient_lab_value.py +68 -22
  367. endoreg_db/models/medical/patient/patient_medication.py +104 -0
  368. endoreg_db/models/medical/patient/patient_medication_schedule.py +136 -0
  369. endoreg_db/models/medical/risk/__init__.py +7 -0
  370. endoreg_db/models/medical/risk/risk.py +72 -0
  371. endoreg_db/models/medical/risk/risk_type.py +51 -0
  372. endoreg_db/models/metadata/__init__.py +19 -0
  373. endoreg_db/models/metadata/frame_ocr_result.py +0 -0
  374. endoreg_db/models/metadata/model_meta.py +206 -0
  375. endoreg_db/models/metadata/model_meta_logic.py +343 -0
  376. endoreg_db/models/{data_file/metadata → metadata}/pdf_meta.py +32 -13
  377. endoreg_db/models/metadata/sensitive_meta.py +288 -0
  378. endoreg_db/models/metadata/sensitive_meta_logic.py +1048 -0
  379. endoreg_db/models/metadata/video_meta.py +332 -0
  380. endoreg_db/models/metadata/video_prediction_logic.py +190 -0
  381. endoreg_db/models/metadata/video_prediction_meta.py +270 -0
  382. endoreg_db/models/other/__init__.py +36 -1
  383. endoreg_db/models/other/distribution/__init__.py +44 -0
  384. endoreg_db/models/other/distribution/base_value_distribution.py +20 -0
  385. endoreg_db/models/other/distribution/date_value_distribution.py +89 -0
  386. endoreg_db/models/other/distribution/multiple_categorical_value_distribution.py +32 -0
  387. endoreg_db/models/other/distribution/numeric_value_distribution.py +125 -0
  388. endoreg_db/models/other/distribution/single_categorical_value_distribution.py +22 -0
  389. endoreg_db/models/other/emission/__init__.py +5 -0
  390. endoreg_db/models/other/emission/emission_factor.py +94 -0
  391. endoreg_db/models/{persons → other}/gender.py +8 -3
  392. endoreg_db/models/other/information_source.py +159 -0
  393. endoreg_db/models/other/material.py +14 -2
  394. endoreg_db/models/other/resource.py +6 -2
  395. endoreg_db/models/other/tag.py +27 -0
  396. endoreg_db/models/other/transport_route.py +15 -3
  397. endoreg_db/models/{unit.py → other/unit.py} +16 -6
  398. endoreg_db/models/other/waste.py +10 -3
  399. endoreg_db/models/requirement/__init__.py +11 -0
  400. endoreg_db/models/requirement/requirement.py +767 -0
  401. endoreg_db/models/requirement/requirement_evaluation/__init__.py +6 -0
  402. endoreg_db/models/requirement/requirement_evaluation/get_values.py +40 -0
  403. endoreg_db/models/requirement/requirement_evaluation/operator_evaluation_models.py +9 -0
  404. endoreg_db/models/requirement/requirement_evaluation/requirement_type_parser.py +95 -0
  405. endoreg_db/models/requirement/requirement_operator.py +176 -0
  406. endoreg_db/models/requirement/requirement_set.py +287 -0
  407. endoreg_db/models/rule/__init__.py +13 -0
  408. endoreg_db/models/{rules → rule}/rule.py +6 -3
  409. endoreg_db/models/{rules → rule}/rule_attribute_dtype.py +0 -2
  410. endoreg_db/models/{rules → rule}/rule_type.py +0 -2
  411. endoreg_db/models/{rules → rule}/ruleset.py +0 -2
  412. endoreg_db/models/state/__init__.py +12 -0
  413. endoreg_db/models/state/abstract.py +11 -0
  414. endoreg_db/models/state/audit_ledger.py +150 -0
  415. endoreg_db/models/state/label_video_segment.py +22 -0
  416. endoreg_db/models/state/raw_pdf.py +187 -0
  417. endoreg_db/models/state/sensitive_meta.py +46 -0
  418. endoreg_db/models/state/video.py +232 -0
  419. endoreg_db/models/upload_job.py +99 -0
  420. endoreg_db/models/utils.py +135 -0
  421. endoreg_db/renames.yml +8 -0
  422. endoreg_db/root_urls.py +9 -0
  423. endoreg_db/schemas/__init__.py +0 -0
  424. endoreg_db/schemas/examination_evaluation.py +27 -0
  425. endoreg_db/serializers/Frames_NICE_and_PARIS_classifications.py +775 -0
  426. endoreg_db/serializers/__init__.py +118 -10
  427. endoreg_db/serializers/_old/raw_pdf_meta_validation.py +223 -0
  428. endoreg_db/serializers/_old/raw_video_meta_validation.py +179 -0
  429. endoreg_db/serializers/_old/video.py +71 -0
  430. endoreg_db/serializers/administration/__init__.py +14 -0
  431. endoreg_db/serializers/administration/ai/__init__.py +10 -0
  432. endoreg_db/serializers/administration/ai/active_model.py +10 -0
  433. endoreg_db/serializers/administration/ai/ai_model.py +18 -0
  434. endoreg_db/serializers/administration/ai/model_type.py +10 -0
  435. endoreg_db/serializers/administration/center.py +9 -0
  436. endoreg_db/serializers/administration/gender.py +9 -0
  437. endoreg_db/serializers/anonymization.py +69 -0
  438. endoreg_db/serializers/evaluation/examination_evaluation.py +1 -0
  439. endoreg_db/serializers/examination/__init__.py +10 -0
  440. endoreg_db/serializers/examination/base.py +46 -0
  441. endoreg_db/serializers/examination/dropdown.py +21 -0
  442. endoreg_db/serializers/examination_serializer.py +12 -0
  443. endoreg_db/serializers/finding/__init__.py +5 -0
  444. endoreg_db/serializers/finding/finding.py +54 -0
  445. endoreg_db/serializers/finding_classification/__init__.py +7 -0
  446. endoreg_db/serializers/finding_classification/choice.py +19 -0
  447. endoreg_db/serializers/finding_classification/classification.py +13 -0
  448. endoreg_db/serializers/label/__init__.py +7 -0
  449. endoreg_db/serializers/label/image_classification_annotation.py +62 -0
  450. endoreg_db/serializers/label/label.py +15 -0
  451. endoreg_db/serializers/label_video_segment/__init__.py +7 -0
  452. endoreg_db/serializers/label_video_segment/_lvs_create.py +149 -0
  453. endoreg_db/serializers/label_video_segment/_lvs_update.py +138 -0
  454. endoreg_db/serializers/label_video_segment/_lvs_validate.py +149 -0
  455. endoreg_db/serializers/label_video_segment/label_video_segment.py +344 -0
  456. endoreg_db/serializers/label_video_segment/label_video_segment_annotation.py +99 -0
  457. endoreg_db/serializers/label_video_segment/label_video_segment_update.py +163 -0
  458. endoreg_db/serializers/meta/__init__.py +19 -0
  459. endoreg_db/serializers/meta/pdf_file_meta_extraction.py +115 -0
  460. endoreg_db/serializers/meta/report_meta.py +53 -0
  461. endoreg_db/serializers/meta/sensitive_meta_detail.py +162 -0
  462. endoreg_db/serializers/meta/sensitive_meta_update.py +148 -0
  463. endoreg_db/serializers/meta/sensitive_meta_verification.py +59 -0
  464. endoreg_db/serializers/meta/video_meta.py +39 -0
  465. endoreg_db/serializers/misc/__init__.py +14 -0
  466. endoreg_db/serializers/misc/file_overview.py +182 -0
  467. endoreg_db/serializers/misc/sensitive_patient_data.py +120 -0
  468. endoreg_db/serializers/misc/stats.py +33 -0
  469. endoreg_db/serializers/misc/translatable_field_mix_in.py +44 -0
  470. endoreg_db/serializers/misc/upload_job.py +71 -0
  471. endoreg_db/serializers/patient/__init__.py +11 -0
  472. endoreg_db/serializers/patient/patient.py +86 -0
  473. endoreg_db/serializers/patient/patient_dropdown.py +27 -0
  474. endoreg_db/serializers/patient_examination/__init__.py +7 -0
  475. endoreg_db/serializers/patient_examination/patient_examination.py +141 -0
  476. endoreg_db/serializers/patient_finding/__init__.py +15 -0
  477. endoreg_db/serializers/patient_finding/patient_finding.py +31 -0
  478. endoreg_db/serializers/patient_finding/patient_finding_classification.py +39 -0
  479. endoreg_db/serializers/patient_finding/patient_finding_detail.py +53 -0
  480. endoreg_db/serializers/patient_finding/patient_finding_intervention.py +26 -0
  481. endoreg_db/serializers/patient_finding/patient_finding_list.py +41 -0
  482. endoreg_db/serializers/patient_finding/patient_finding_write.py +126 -0
  483. endoreg_db/serializers/pdf/__init__.py +5 -0
  484. endoreg_db/serializers/pdf/anony_text_validation.py +85 -0
  485. endoreg_db/serializers/report/__init__.py +9 -0
  486. endoreg_db/serializers/report/mixins.py +45 -0
  487. endoreg_db/serializers/report/report.py +105 -0
  488. endoreg_db/serializers/report/report_list.py +22 -0
  489. endoreg_db/serializers/report/secure_file_url.py +26 -0
  490. endoreg_db/serializers/requirements/requirement_schema.py +25 -0
  491. endoreg_db/serializers/requirements/requirement_sets.py +29 -0
  492. endoreg_db/serializers/sensitive_meta_serializer.py +282 -0
  493. endoreg_db/serializers/video/__init__.py +7 -0
  494. endoreg_db/serializers/video/segmentation.py +263 -0
  495. endoreg_db/serializers/video/video_file_brief.py +10 -0
  496. endoreg_db/serializers/video/video_file_detail.py +83 -0
  497. endoreg_db/serializers/video/video_file_list.py +67 -0
  498. endoreg_db/serializers/video/video_metadata.py +105 -0
  499. endoreg_db/serializers/video/video_processing_history.py +153 -0
  500. endoreg_db/serializers/video_examination.py +198 -0
  501. endoreg_db/services/__init__.py +5 -0
  502. endoreg_db/services/anonymization.py +223 -0
  503. endoreg_db/services/examination_evaluation.py +149 -0
  504. endoreg_db/services/finding_description_service.py +0 -0
  505. endoreg_db/services/lookup_service.py +411 -0
  506. endoreg_db/services/lookup_store.py +266 -0
  507. endoreg_db/services/pdf_import.py +1382 -0
  508. endoreg_db/services/polling_coordinator.py +288 -0
  509. endoreg_db/services/pseudonym_service.py +89 -0
  510. endoreg_db/services/requirements_object.py +147 -0
  511. endoreg_db/services/segment_sync.py +155 -0
  512. endoreg_db/services/storage_aware_video_processor.py +344 -0
  513. endoreg_db/services/video_import.py +1259 -0
  514. endoreg_db/tasks/upload_tasks.py +207 -0
  515. endoreg_db/tasks/video_ingest.py +157 -0
  516. endoreg_db/tasks/video_processing_tasks.py +327 -0
  517. endoreg_db/templates/admin/patient_finding_intervention.html +253 -0
  518. endoreg_db/templates/admin/start_examination.html +12 -0
  519. endoreg_db/templates/timeline.html +176 -0
  520. endoreg_db/urls/__init__.py +83 -0
  521. endoreg_db/urls/anonymization.py +32 -0
  522. endoreg_db/urls/auth.py +16 -0
  523. endoreg_db/urls/classification.py +39 -0
  524. endoreg_db/urls/examination.py +54 -0
  525. endoreg_db/urls/files.py +6 -0
  526. endoreg_db/urls/label_video_segment_validate.py +33 -0
  527. endoreg_db/urls/label_video_segments.py +46 -0
  528. endoreg_db/urls/media.py +227 -0
  529. endoreg_db/urls/patient.py +19 -0
  530. endoreg_db/urls/report.py +48 -0
  531. endoreg_db/urls/requirements.py +13 -0
  532. endoreg_db/urls/sensitive_meta.py +0 -0
  533. endoreg_db/urls/stats.py +46 -0
  534. endoreg_db/urls/upload.py +20 -0
  535. endoreg_db/urls/video.py +61 -0
  536. endoreg_db/urls.py +9 -0
  537. endoreg_db/utils/__init__.py +88 -1
  538. endoreg_db/utils/ai/__init__.py +9 -0
  539. endoreg_db/{models/ai_model/utils.py → utils/ai/get.py} +1 -4
  540. endoreg_db/utils/ai/inference_dataset.py +52 -0
  541. endoreg_db/utils/ai/multilabel_classification_net.py +159 -0
  542. endoreg_db/utils/ai/postprocess.py +63 -0
  543. endoreg_db/utils/ai/predict.py +291 -0
  544. endoreg_db/utils/ai/preprocess.py +68 -0
  545. endoreg_db/utils/calc_duration_seconds.py +24 -0
  546. endoreg_db/utils/case_generator/__init__.py +0 -0
  547. endoreg_db/utils/case_generator/case_generator.py +159 -0
  548. endoreg_db/utils/case_generator/lab_sample_factory.py +33 -0
  549. endoreg_db/utils/case_generator/utils.py +30 -0
  550. endoreg_db/utils/check_video_files.py +148 -0
  551. endoreg_db/utils/dataloader.py +118 -35
  552. endoreg_db/utils/dates.py +60 -0
  553. endoreg_db/utils/env.py +33 -0
  554. endoreg_db/utils/extract_specific_frames.py +72 -0
  555. endoreg_db/utils/file_operations.py +29 -1
  556. endoreg_db/utils/fix_video_path_direct.py +141 -0
  557. endoreg_db/utils/frame_anonymization_utils.py +463 -0
  558. endoreg_db/utils/hashs.py +123 -4
  559. endoreg_db/utils/links/__init__.py +0 -0
  560. endoreg_db/utils/links/requirement_link.py +193 -0
  561. endoreg_db/utils/mime_types.py +0 -0
  562. endoreg_db/utils/names.py +76 -0
  563. endoreg_db/utils/parse_and_generate_yaml.py +46 -0
  564. endoreg_db/utils/paths.py +95 -0
  565. endoreg_db/utils/permissions.py +143 -0
  566. endoreg_db/utils/pipelines/Readme.md +235 -0
  567. endoreg_db/utils/pipelines/__init__.py +0 -0
  568. endoreg_db/utils/pipelines/process_video_dir.py +120 -0
  569. endoreg_db/utils/product/__init__.py +0 -0
  570. endoreg_db/utils/product/sum_emissions.py +20 -0
  571. endoreg_db/utils/product/sum_weights.py +18 -0
  572. endoreg_db/utils/pydantic_models/__init__.py +6 -0
  573. endoreg_db/utils/pydantic_models/db_config.py +57 -0
  574. endoreg_db/utils/requirement_helpers.py +0 -0
  575. endoreg_db/utils/requirement_operator_logic/__init__.py +0 -0
  576. endoreg_db/utils/requirement_operator_logic/lab_value_operators.py +578 -0
  577. endoreg_db/utils/requirement_operator_logic/model_evaluators.py +368 -0
  578. endoreg_db/utils/setup_config.py +177 -0
  579. endoreg_db/utils/translation.py +27 -0
  580. endoreg_db/utils/validate_endo_roi.py +19 -0
  581. endoreg_db/utils/validate_subcategory_dict.py +91 -0
  582. endoreg_db/utils/validate_video_detailed.py +357 -0
  583. endoreg_db/utils/video/__init__.py +26 -0
  584. endoreg_db/utils/video/extract_frames.py +88 -0
  585. endoreg_db/utils/video/ffmpeg_wrapper.py +835 -0
  586. endoreg_db/utils/video/names.py +42 -0
  587. endoreg_db/utils/video/streaming_processor.py +312 -0
  588. endoreg_db/utils/video/video_splitter.py +94 -0
  589. endoreg_db/views/Frames_NICE_and_PARIS_classifications_views.py +238 -0
  590. endoreg_db/views/__init__.py +274 -0
  591. endoreg_db/views/anonymization/__init__.py +27 -0
  592. endoreg_db/views/anonymization/media_management.py +454 -0
  593. endoreg_db/views/anonymization/overview.py +216 -0
  594. endoreg_db/views/anonymization/validate.py +107 -0
  595. endoreg_db/views/auth/__init__.py +13 -0
  596. endoreg_db/views/auth/keycloak.py +113 -0
  597. endoreg_db/views/examination/__init__.py +33 -0
  598. endoreg_db/views/examination/examination.py +37 -0
  599. endoreg_db/views/examination/examination_manifest_cache.py +26 -0
  600. endoreg_db/views/examination/get_finding_classification_choices.py +59 -0
  601. endoreg_db/views/examination/get_finding_classifications.py +36 -0
  602. endoreg_db/views/examination/get_findings.py +41 -0
  603. endoreg_db/views/examination/get_instruments.py +18 -0
  604. endoreg_db/views/examination/get_interventions.py +14 -0
  605. endoreg_db/views/finding/__init__.py +9 -0
  606. endoreg_db/views/finding/finding.py +112 -0
  607. endoreg_db/views/finding/get_classifications.py +14 -0
  608. endoreg_db/views/finding/get_interventions.py +17 -0
  609. endoreg_db/views/finding_classification/__init__.py +13 -0
  610. endoreg_db/views/finding_classification/base.py +0 -0
  611. endoreg_db/views/finding_classification/finding_classification.py +42 -0
  612. endoreg_db/views/finding_classification/get_classification_choices.py +55 -0
  613. endoreg_db/views/label/__init__.py +5 -0
  614. endoreg_db/views/label/label.py +15 -0
  615. endoreg_db/views/label_video_segment/__init__.py +16 -0
  616. endoreg_db/views/label_video_segment/create_lvs_from_annotation.py +44 -0
  617. endoreg_db/views/label_video_segment/get_lvs_by_name_and_video.py +50 -0
  618. endoreg_db/views/label_video_segment/label_video_segment.py +77 -0
  619. endoreg_db/views/label_video_segment/label_video_segment_by_label.py +174 -0
  620. endoreg_db/views/label_video_segment/label_video_segment_detail.py +73 -0
  621. endoreg_db/views/label_video_segment/update_lvs_from_annotation.py +46 -0
  622. endoreg_db/views/label_video_segment/validate.py +226 -0
  623. endoreg_db/views/media/__init__.py +45 -0
  624. endoreg_db/views/media/pdf_media.py +388 -0
  625. endoreg_db/views/media/segments.py +71 -0
  626. endoreg_db/views/media/sensitive_metadata.py +314 -0
  627. endoreg_db/views/media/video_media.py +272 -0
  628. endoreg_db/views/media/video_segments.py +524 -0
  629. endoreg_db/views/meta/__init__.py +15 -0
  630. endoreg_db/views/meta/available_files_list.py +146 -0
  631. endoreg_db/views/meta/report_meta.py +53 -0
  632. endoreg_db/views/meta/sensitive_meta_detail.py +148 -0
  633. endoreg_db/views/meta/sensitive_meta_list.py +104 -0
  634. endoreg_db/views/meta/sensitive_meta_verification.py +71 -0
  635. endoreg_db/views/misc/__init__.py +63 -0
  636. endoreg_db/views/misc/center.py +13 -0
  637. endoreg_db/views/misc/csrf.py +7 -0
  638. endoreg_db/views/misc/gender.py +14 -0
  639. endoreg_db/views/misc/secure_file_serving_view.py +80 -0
  640. endoreg_db/views/misc/secure_file_url_view.py +84 -0
  641. endoreg_db/views/misc/secure_url_validate.py +79 -0
  642. endoreg_db/views/misc/stats.py +220 -0
  643. endoreg_db/views/misc/translation.py +182 -0
  644. endoreg_db/views/misc/upload_views.py +240 -0
  645. endoreg_db/views/patient/__init__.py +5 -0
  646. endoreg_db/views/patient/patient.py +210 -0
  647. endoreg_db/views/patient_examination/DEPRECATED_video_backup.py +164 -0
  648. endoreg_db/views/patient_examination/__init__.py +11 -0
  649. endoreg_db/views/patient_examination/patient_examination.py +140 -0
  650. endoreg_db/views/patient_examination/patient_examination_create.py +63 -0
  651. endoreg_db/views/patient_examination/patient_examination_detail.py +66 -0
  652. endoreg_db/views/patient_examination/patient_examination_list.py +68 -0
  653. endoreg_db/views/patient_examination/video.py +194 -0
  654. endoreg_db/views/patient_finding/__init__.py +7 -0
  655. endoreg_db/views/patient_finding/base.py +0 -0
  656. endoreg_db/views/patient_finding/patient_finding.py +64 -0
  657. endoreg_db/views/patient_finding/patient_finding_optimized.py +259 -0
  658. endoreg_db/views/patient_finding_classification/__init__.py +5 -0
  659. endoreg_db/views/patient_finding_classification/pfc_create.py +67 -0
  660. endoreg_db/views/patient_finding_location/__init__.py +5 -0
  661. endoreg_db/views/patient_finding_location/pfl_create.py +70 -0
  662. endoreg_db/views/patient_finding_morphology/__init__.py +5 -0
  663. endoreg_db/views/patient_finding_morphology/pfm_create.py +70 -0
  664. endoreg_db/views/pdf/__init__.py +8 -0
  665. endoreg_db/views/pdf/pdf_stream.py +187 -0
  666. endoreg_db/views/pdf/reimport.py +177 -0
  667. endoreg_db/views/report/__init__.py +9 -0
  668. endoreg_db/views/report/report_list.py +112 -0
  669. endoreg_db/views/report/report_with_secure_url.py +28 -0
  670. endoreg_db/views/report/start_examination.py +7 -0
  671. endoreg_db/views/requirement/__init__.py +10 -0
  672. endoreg_db/views/requirement/evaluate.py +279 -0
  673. endoreg_db/views/requirement/lookup.py +367 -0
  674. endoreg_db/views/requirement/lookup_store.py +252 -0
  675. endoreg_db/views/requirement_lookup/lookup.py +0 -0
  676. endoreg_db/views/requirement_lookup/lookup_store.py +0 -0
  677. endoreg_db/views/stats/__init__.py +13 -0
  678. endoreg_db/views/stats/stats_views.py +229 -0
  679. endoreg_db/views/video/__init__.py +59 -0
  680. endoreg_db/views/video/correction.py +530 -0
  681. endoreg_db/views/video/reimport.py +195 -0
  682. endoreg_db/views/video/segmentation.py +274 -0
  683. endoreg_db/views/video/task_status.py +49 -0
  684. endoreg_db/views/video/timeline.py +46 -0
  685. endoreg_db/views/video/video_analyze.py +52 -0
  686. endoreg_db/views/video/video_apply_mask.py +48 -0
  687. endoreg_db/views/video/video_correction.py +21 -0
  688. endoreg_db/views/video/video_download_processed.py +58 -0
  689. endoreg_db/views/video/video_examination_viewset.py +242 -0
  690. endoreg_db/views/video/video_meta.py +29 -0
  691. endoreg_db/views/video/video_processing_history.py +24 -0
  692. endoreg_db/views/video/video_remove_frames.py +48 -0
  693. endoreg_db/views/video/video_stream.py +306 -0
  694. endoreg_db/views.py +0 -3
  695. endoreg_db-0.8.6.3.dist-info/METADATA +383 -0
  696. endoreg_db-0.8.6.3.dist-info/RECORD +793 -0
  697. {endoreg_db-0.4.5.dist-info → endoreg_db-0.8.6.3.dist-info}/WHEEL +1 -1
  698. endoreg_db/data/active_model/data.yaml +0 -3
  699. endoreg_db/data/agl_service/data.yaml +0 -19
  700. endoreg_db/data/label/label-set/data.yaml +0 -18
  701. endoreg_db/management/commands/_load_model_template.py +0 -41
  702. endoreg_db/management/commands/delete_all.py +0 -18
  703. endoreg_db/management/commands/delete_legacy_images.py +0 -19
  704. endoreg_db/management/commands/delete_legacy_videos.py +0 -17
  705. endoreg_db/management/commands/extract_legacy_video_frames.py +0 -18
  706. endoreg_db/management/commands/fetch_legacy_image_dataset.py +0 -32
  707. endoreg_db/management/commands/fix_auth_permission.py +0 -20
  708. endoreg_db/management/commands/import_legacy_images.py +0 -94
  709. endoreg_db/management/commands/import_legacy_videos.py +0 -76
  710. endoreg_db/management/commands/load_active_model_data.py +0 -45
  711. endoreg_db/management/commands/load_endoscopy_processor_data.py +0 -45
  712. endoreg_db/management/commands/load_g_play_data.py +0 -113
  713. endoreg_db/management/commands/load_label_data.py +0 -67
  714. endoreg_db/management/commands/load_medication_indication_data.py +0 -63
  715. endoreg_db/management/commands/load_medication_indication_type_data.py +0 -41
  716. endoreg_db/management/commands/load_medication_schedule_data.py +0 -55
  717. endoreg_db/management/commands/load_network_data.py +0 -57
  718. endoreg_db/migrations/0002_anonymizedimagelabel_anonymousimageannotation_and_more.py +0 -55
  719. endoreg_db/migrations/0003_anonymousimageannotation_original_image_url_and_more.py +0 -39
  720. endoreg_db/migrations/0004_alter_rawpdffile_file.py +0 -20
  721. endoreg_db/migrations/0005_uploadedfile_alter_rawpdffile_file_anonymizedfile.py +0 -40
  722. endoreg_db/migrations/0006_alter_rawpdffile_file.py +0 -20
  723. endoreg_db/migrations/0007_networkdevicelogentry_datetime_and_more.py +0 -43
  724. endoreg_db/models/ai_model/__init__.py +0 -3
  725. endoreg_db/models/ai_model/active_model.py +0 -9
  726. endoreg_db/models/ai_model/model_meta.py +0 -24
  727. endoreg_db/models/annotation/__init__.py +0 -3
  728. endoreg_db/models/annotation/anonymized_image_annotation.py +0 -60
  729. endoreg_db/models/annotation/binary_classification_annotation_task.py +0 -80
  730. endoreg_db/models/annotation/image_classification.py +0 -27
  731. endoreg_db/models/center/center.py +0 -25
  732. endoreg_db/models/center/center_product.py +0 -34
  733. endoreg_db/models/center/center_resource.py +0 -19
  734. endoreg_db/models/center/center_waste.py +0 -11
  735. endoreg_db/models/data_file/__init__.py +0 -6
  736. endoreg_db/models/data_file/base_classes/__init__.py +0 -2
  737. endoreg_db/models/data_file/base_classes/abstract_frame.py +0 -51
  738. endoreg_db/models/data_file/base_classes/abstract_video.py +0 -201
  739. endoreg_db/models/data_file/frame.py +0 -45
  740. endoreg_db/models/data_file/import_classes/__init__.py +0 -32
  741. endoreg_db/models/data_file/import_classes/processing_functions/__init__.py +0 -35
  742. endoreg_db/models/data_file/import_classes/processing_functions/pdf.py +0 -28
  743. endoreg_db/models/data_file/import_classes/processing_functions/video.py +0 -260
  744. endoreg_db/models/data_file/import_classes/raw_pdf.py +0 -188
  745. endoreg_db/models/data_file/import_classes/raw_video.py +0 -343
  746. endoreg_db/models/data_file/metadata/__init__.py +0 -3
  747. endoreg_db/models/data_file/metadata/sensitive_meta.py +0 -31
  748. endoreg_db/models/data_file/metadata/video_meta.py +0 -133
  749. endoreg_db/models/data_file/report_file.py +0 -89
  750. endoreg_db/models/data_file/video/__init__.py +0 -7
  751. endoreg_db/models/data_file/video/import_meta.py +0 -25
  752. endoreg_db/models/data_file/video/video.py +0 -25
  753. endoreg_db/models/data_file/video_segment.py +0 -107
  754. endoreg_db/models/disease.py +0 -56
  755. endoreg_db/models/emission/__init__.py +0 -1
  756. endoreg_db/models/emission/emission_factor.py +0 -20
  757. endoreg_db/models/event.py +0 -22
  758. endoreg_db/models/examination/__init__.py +0 -4
  759. endoreg_db/models/examination/examination.py +0 -26
  760. endoreg_db/models/examination/examination_time.py +0 -27
  761. endoreg_db/models/examination/examination_time_type.py +0 -24
  762. endoreg_db/models/examination/examination_type.py +0 -18
  763. endoreg_db/models/hardware/__init__.py +0 -2
  764. endoreg_db/models/hardware/endoscope.py +0 -44
  765. endoreg_db/models/information_source.py +0 -29
  766. endoreg_db/models/laboratory/__init__.py +0 -1
  767. endoreg_db/models/laboratory/lab_value.py +0 -102
  768. endoreg_db/models/legacy_data/__init__.py +0 -3
  769. endoreg_db/models/legacy_data/image.py +0 -34
  770. endoreg_db/models/logging/__init__.py +0 -4
  771. endoreg_db/models/logging/agl_service.py +0 -19
  772. endoreg_db/models/logging/base.py +0 -22
  773. endoreg_db/models/logging/log_type.py +0 -23
  774. endoreg_db/models/logging/network_device.py +0 -24
  775. endoreg_db/models/medication/__init__.py +0 -1
  776. endoreg_db/models/medication/medication.py +0 -148
  777. endoreg_db/models/network/__init__.py +0 -3
  778. endoreg_db/models/network/agl_service.py +0 -38
  779. endoreg_db/models/network/network_device.py +0 -53
  780. endoreg_db/models/network/network_device_type.py +0 -23
  781. endoreg_db/models/other/distribution.py +0 -215
  782. endoreg_db/models/patient_examination/__init__.py +0 -35
  783. endoreg_db/models/permissions/__init__.py +0 -44
  784. endoreg_db/models/persons/__init__.py +0 -7
  785. endoreg_db/models/persons/examiner/__init__.py +0 -2
  786. endoreg_db/models/persons/examiner/examiner.py +0 -16
  787. endoreg_db/models/persons/examiner/examiner_type.py +0 -2
  788. endoreg_db/models/persons/patient/__init__.py +0 -8
  789. endoreg_db/models/persons/patient/case/case.py +0 -30
  790. endoreg_db/models/persons/patient/patient.py +0 -216
  791. endoreg_db/models/persons/patient/patient_disease.py +0 -16
  792. endoreg_db/models/persons/patient/patient_event.py +0 -22
  793. endoreg_db/models/persons/patient/patient_lab_sample.py +0 -106
  794. endoreg_db/models/persons/patient/patient_medication.py +0 -44
  795. endoreg_db/models/persons/patient/patient_medication_schedule.py +0 -28
  796. endoreg_db/models/persons/portal_user_information.py +0 -27
  797. endoreg_db/models/prediction/__init__.py +0 -2
  798. endoreg_db/models/prediction/image_classification.py +0 -37
  799. endoreg_db/models/prediction/video_prediction_meta.py +0 -244
  800. endoreg_db/models/product/__init__.py +0 -5
  801. endoreg_db/models/product/product.py +0 -97
  802. endoreg_db/models/product/product_group.py +0 -19
  803. endoreg_db/models/product/product_material.py +0 -24
  804. endoreg_db/models/questionnaires/__init__.py +0 -114
  805. endoreg_db/models/quiz/__init__.py +0 -2
  806. endoreg_db/models/quiz/quiz_answer.py +0 -41
  807. endoreg_db/models/quiz/quiz_question.py +0 -54
  808. endoreg_db/models/report_reader/__init__.py +0 -2
  809. endoreg_db/models/report_reader/report_reader_config.py +0 -53
  810. endoreg_db/models/rules/__init__.py +0 -5
  811. endoreg_db/queries/get/__init__.py +0 -6
  812. endoreg_db/queries/get/center.py +0 -42
  813. endoreg_db/queries/get/model.py +0 -13
  814. endoreg_db/queries/get/patient.py +0 -14
  815. endoreg_db/queries/get/patient_examination.py +0 -20
  816. endoreg_db/queries/get/report_file.py +0 -33
  817. endoreg_db/queries/get/video.py +0 -31
  818. endoreg_db/serializers/ai_model.py +0 -19
  819. endoreg_db/serializers/annotation.py +0 -17
  820. endoreg_db/serializers/center.py +0 -11
  821. endoreg_db/serializers/examination.py +0 -33
  822. endoreg_db/serializers/frame.py +0 -13
  823. endoreg_db/serializers/hardware.py +0 -21
  824. endoreg_db/serializers/label.py +0 -22
  825. endoreg_db/serializers/patient.py +0 -10
  826. endoreg_db/serializers/prediction.py +0 -15
  827. endoreg_db/serializers/report_file.py +0 -7
  828. endoreg_db/serializers/video.py +0 -27
  829. endoreg_db/tests.py +0 -3
  830. endoreg_db/utils/legacy_ocr.py +0 -201
  831. endoreg_db/utils/video_metadata.py +0 -87
  832. endoreg_db-0.4.5.dist-info/METADATA +0 -34
  833. endoreg_db-0.4.5.dist-info/RECORD +0 -316
  834. /endoreg_db/{data/distribution/numeric/.init → api/serializers/finding_descriptions.py} +0 -0
  835. /endoreg_db/{models/persons/patient/case/__init__.py → api/views/finding_descriptions.py} +0 -0
  836. /endoreg_db/{queries/get/annotation.py → config/__init__.py} +0 -0
  837. /endoreg_db/data/{label → ai_model_label}/label-type/data.yaml +0 -0
  838. /endoreg_db/data/{model_type → ai_model_type}/data.yaml +0 -0
  839. /endoreg_db/{queries/get/prediction.py → data/shift/m2.yaml} +0 -0
  840. /endoreg_db/{queries/get/video_import_meta.py → factories/__init__.py} +0 -0
  841. /endoreg_db/{queries/get/video_prediction_meta.py → helpers/__init__.py} +0 -0
  842. /endoreg_db/management/commands/{load_report_reader_flag.py → load_report_reader_flag_data.py} +0 -0
  843. /endoreg_db/models/{persons → administration/person}/person.py +0 -0
  844. /endoreg_db/models/{report_reader → media/pdf/report_reader}/report_reader_flag.py +0 -0
  845. /endoreg_db/models/{rules → rule}/rule_applicator.py +0 -0
  846. {endoreg_db-0.4.5.dist-info → endoreg_db-0.8.6.3.dist-info/licenses}/LICENSE +0 -0
@@ -20,6 +20,7 @@
20
20
  "max": 170
21
21
  }
22
22
  }
23
+ default_numerical_value_distribution: "uniform_default"
23
24
 
24
25
  - model: endoreg_db.lab_value
25
26
  fields:
@@ -28,4 +29,9 @@
28
29
  name_en: "Creatine Kinase MB"
29
30
  abbreviation: "CKMB%"
30
31
  default_unit: "percent"
31
- default_normal_range: {"max": 5}
32
+ default_normal_range: {
33
+ "min": 0.01,
34
+ "max": 5
35
+ }
36
+ default_numerical_value_distribution: "uniform_default"
37
+
@@ -7,6 +7,7 @@
7
7
  abbreviation: "PTT"
8
8
  default_unit: "seconds"
9
9
  default_normal_range: {"min": 11, "max": 13}
10
+ default_numerical_value_distribution: "uniform_default"
10
11
 
11
12
  # International normalized ratio (INR): 0.9-1.2
12
13
  - model: endoreg_db.lab_value
@@ -17,6 +18,7 @@
17
18
  abbreviation: "INR"
18
19
  default_unit: "ratio"
19
20
  default_normal_range: {"min": 0.9, "max": 1.2}
21
+ default_numerical_value_distribution: "uniform_default"
20
22
 
21
23
  # Activated partial thromboplastin time (aPTT): 25–35 seconds
22
24
  - model: endoreg_db.lab_value
@@ -27,6 +29,7 @@
27
29
  abbreviation: "aPTT"
28
30
  default_unit: "seconds"
29
31
  default_normal_range: {"min": 25, "max": 35}
32
+ default_numerical_value_distribution: "uniform_default"
30
33
 
31
34
  # Fibrinogen: 150-350 mg/dL (1.5-3.5 g/L)
32
35
  - model: endoreg_db.lab_value
@@ -37,6 +40,7 @@
37
40
  abbreviation: "Fib"
38
41
  default_unit: "miligram per deciliter"
39
42
  default_normal_range: {"min": 150, "max": 350}
43
+ default_numerical_value_distribution: "uniform_default"
40
44
 
41
45
  # Bleeding time: <8 minutes
42
46
  - model: endoreg_db.lab_value
@@ -46,4 +50,5 @@
46
50
  name_en: "Bleeding time"
47
51
  abbreviation: "BT"
48
52
  default_unit: "minutes"
49
- default_normal_range: {"max": 8}
53
+ default_normal_range: {"min": 0.5, "max": 8}
54
+ default_numerical_value_distribution: "uniform_default"
@@ -7,6 +7,8 @@
7
7
  name_en: "Ammonia"
8
8
  default_unit: "microgram per deciliter"
9
9
  default_normal_range: {"min": 40, "max": 70}
10
+ default_numerical_value_distribution: "uniform_default"
11
+
10
12
 
11
13
  - model: endoreg_db.lab_value
12
14
  fields:
@@ -15,6 +17,8 @@
15
17
  name_en: "Ceruloplasmin"
16
18
  default_unit: "miligram per deciliter"
17
19
  default_normal_range: {"min": 25, "max": 43}
20
+ default_numerical_value_distribution: "uniform_default"
21
+
18
22
 
19
23
  - model: endoreg_db.lab_value
20
24
  fields:
@@ -23,6 +27,8 @@
23
27
  name_en: "Chloride"
24
28
  default_unit: "milimole per liter"
25
29
  default_normal_range: {"min": 95, "max": 105}
30
+ default_numerical_value_distribution: "uniform_default"
31
+
26
32
 
27
33
  - model: endoreg_db.lab_value
28
34
  fields:
@@ -31,6 +37,8 @@
31
37
  name_en: "Copper"
32
38
  default_unit: "microgram per deciliter"
33
39
  default_normal_range: {"min": 100, "max": 200}
40
+ default_numerical_value_distribution: "uniform_default"
41
+
34
42
 
35
43
  - model: endoreg_db.lab_value
36
44
  fields:
@@ -39,6 +47,8 @@
39
47
  name_en: "Creatinine"
40
48
  default_unit: "miligram per deciliter"
41
49
  default_normal_range: {"min": 0.8, "max": 1.3}
50
+ default_numerical_value_distribution: "uniform_default"
51
+
42
52
 
43
53
  - model: endoreg_db.lab_value
44
54
  fields:
@@ -47,6 +57,8 @@
47
57
  name_en: "Blood Urea Nitrogen"
48
58
  default_unit: "miligram per deciliter"
49
59
  default_normal_range: {"min": 8, "max": 20}
60
+ default_numerical_value_distribution: "uniform_default"
61
+
50
62
 
51
63
  - model: endoreg_db.lab_value
52
64
  fields:
@@ -55,6 +67,8 @@
55
67
  name_en: "Ferritin"
56
68
  default_unit: "nanogram per mililiter"
57
69
  default_normal_range: {"min": 24, "max": 336}
70
+ default_numerical_value_distribution: "uniform_default"
71
+
58
72
 
59
73
  # Glucose:70–99 mg/dL
60
74
  - model: endoreg_db.lab_value
@@ -64,6 +78,8 @@
64
78
  name_en: "Glucose"
65
79
  default_unit: "miligram per deciliter"
66
80
  default_normal_range: {"min": 70, "max": 99}
81
+ default_numerical_value_distribution: "uniform_default"
82
+
67
83
  # Inorganic phosphorous: 3-4.5 mg/dL
68
84
  - model: endoreg_db.lab_value
69
85
  fields:
@@ -72,6 +88,8 @@
72
88
  name_en: "Inorganic Phosphorous"
73
89
  default_unit: "miligram per deciliter"
74
90
  default_normal_range: {"min": 3, "max": 4.5}
91
+ default_numerical_value_distribution: "uniform_default"
92
+
75
93
 
76
94
  # Ionized calcium: 1.12–1.23 mmol/L
77
95
  - model: endoreg_db.lab_value
@@ -81,6 +99,8 @@
81
99
  name_en: "Ionized Calcium"
82
100
  default_unit: "milimole per liter"
83
101
  default_normal_range: {"min": 1.12, "max": 1.23}
102
+ default_numerical_value_distribution: "uniform_default"
103
+
84
104
 
85
105
  # Magnesium: 1.6–2.6 mg/dL
86
106
  - model: endoreg_db.lab_value
@@ -90,6 +110,8 @@
90
110
  name_en: "Magnesium"
91
111
  default_unit: "miligram per deciliter"
92
112
  default_normal_range: {"min": 1.6, "max": 2.6}
113
+ default_numerical_value_distribution: "uniform_default"
114
+
93
115
 
94
116
  # Phosphate: 2.5 to 4.5 mg/dL (0.81 to 1.45 mmol/L)
95
117
  - model: endoreg_db.lab_value
@@ -99,6 +121,8 @@
99
121
  name_en: "Phosphate"
100
122
  default_unit: "miligram per deciliter"
101
123
  default_normal_range: {"min": 2.5, "max": 4.5}
124
+ default_numerical_value_distribution: "uniform_default"
125
+
102
126
 
103
127
  # Potassium: 3.5–5.0 mEq/L
104
128
  - model: endoreg_db.lab_value
@@ -108,6 +132,8 @@
108
132
  name_en: "Potassium"
109
133
  default_unit: "miliequivalent per liter"
110
134
  default_normal_range: {"min": 3.5, "max": 5.0}
135
+ default_numerical_value_distribution: "uniform_default"
136
+
111
137
 
112
138
  # Pyruvate: .08-0.16 mmol/L
113
139
  - model: endoreg_db.lab_value
@@ -117,6 +143,8 @@
117
143
  name_en: "Pyruvate"
118
144
  default_unit: "milimole per liter"
119
145
  default_normal_range: {"min": 0.08, "max": 0.16}
146
+ default_numerical_value_distribution: "uniform_default"
147
+
120
148
 
121
149
  # Sodium: 136–145 mEq/L
122
150
  - model: endoreg_db.lab_value
@@ -126,6 +154,8 @@
126
154
  name_en: "Sodium"
127
155
  default_unit: "miliequivalent per liter"
128
156
  default_normal_range: {"min": 136, "max": 145}
157
+ default_numerical_value_distribution: "uniform_default"
158
+
129
159
 
130
160
  # Total calcium: 2-2.6 mmol/L (9-10.5 mg/dL)
131
161
  - model: endoreg_db.lab_value
@@ -135,6 +165,8 @@
135
165
  name_en: "Total Calcium"
136
166
  default_unit: "milimole per liter"
137
167
  default_normal_range: {"min": 2, "max": 2.6}
168
+ default_numerical_value_distribution: "uniform_default"
169
+
138
170
 
139
171
  # Total iron-binding capacity: 250–310 μg/dL
140
172
  - model: endoreg_db.lab_value
@@ -144,6 +176,7 @@
144
176
  name_en: "Total Iron-binding Capacity"
145
177
  default_unit: "microgram per deciliter"
146
178
  default_normal_range: {"min": 250, "max": 310}
179
+ default_numerical_value_distribution: "uniform_default"
147
180
 
148
181
  # Total serum iron: 50–150 μg/dL
149
182
  - model: endoreg_db.lab_value
@@ -153,6 +186,7 @@
153
186
  name_en: "Total Serum Iron"
154
187
  default_unit: "microgram per deciliter"
155
188
  default_normal_range: {"min": 50, "max": 150}
189
+ default_numerical_value_distribution: "uniform_default"
156
190
 
157
191
 
158
192
  # Transferrin: 200–400 mg/dL
@@ -163,6 +197,7 @@
163
197
  name_en: "Transferrin"
164
198
  default_unit: "miligram per deciliter"
165
199
  default_normal_range: {"min": 200, "max": 400}
200
+ default_numerical_value_distribution: "uniform_default"
166
201
 
167
202
  # Urea: 1.2-3 mmol/L
168
203
  - model: endoreg_db.lab_value
@@ -172,6 +207,7 @@
172
207
  name_en: "Urea"
173
208
  default_unit: "milimole per liter"
174
209
  default_normal_range: {"min": 1.2, "max": 3 }
210
+ default_numerical_value_distribution: "uniform_default"
175
211
  # Uric acid: 0.18-0.48 mmol/L
176
212
  - model: endoreg_db.lab_value
177
213
  fields:
@@ -180,6 +216,7 @@
180
216
  name_en: "Uric Acid"
181
217
  default_unit: "milimole per liter"
182
218
  default_normal_range: {"min": 0.18, "max": 0.48}
219
+ default_numerical_value_distribution: "uniform_default"
183
220
  # Zinc: 75–140 μg/dL
184
221
  - model: endoreg_db.lab_value
185
222
  fields:
@@ -187,4 +224,5 @@
187
224
  name_de: "Zink"
188
225
  name_en: "Zinc"
189
226
  default_unit: "microgram per deciliter"
190
- default_normal_range: {"min": 75, "max": 140}
227
+ default_normal_range: {"min": 75, "max": 140}
228
+ default_numerical_value_distribution: "uniform_default"
@@ -7,6 +7,7 @@
7
7
  name_en: "Albumin"
8
8
  default_unit: "gram per deciliter"
9
9
  default_normal_range: {"min": 3.5, "max": 5.5}
10
+ default_numerical_value_distribution: "uniform_default"
10
11
 
11
12
  - model: endoreg_db.lab_value
12
13
  fields:
@@ -15,6 +16,7 @@
15
16
  name_en: "Alkaline Phosphatase"
16
17
  default_unit: "units per liter"
17
18
  default_normal_range: {"min": 30, "max": 120}
19
+ default_numerical_value_distribution: "uniform_default"
18
20
 
19
21
  # ALT and GPT are the same enzyme
20
22
  - model: endoreg_db.lab_value
@@ -25,6 +27,7 @@
25
27
  abbreviation: "ALT"
26
28
  default_unit: "units per liter"
27
29
  default_normal_range: {"min": 10, "max": 40}
30
+ default_numerical_value_distribution: "uniform_default"
28
31
 
29
32
  - model: endoreg_db.lab_value
30
33
  fields:
@@ -34,6 +37,7 @@
34
37
  abbreviation: "GPT"
35
38
  default_unit: "units per liter"
36
39
  default_normal_range: {"min": 10, "max": 40}
40
+ default_numerical_value_distribution: "uniform_default"
37
41
 
38
42
  - model: endoreg_db.lab_value
39
43
  fields:
@@ -42,6 +46,7 @@
42
46
  name_en: "Amylase"
43
47
  default_unit: "units per liter"
44
48
  default_normal_range: {"min": 25, "max": 125}
49
+ default_numerical_value_distribution: "uniform_default"
45
50
 
46
51
  # Aspartate aminotransferase (AST): 10–40 U/L
47
52
  - model: endoreg_db.lab_value
@@ -52,6 +57,7 @@
52
57
  abbreviation: "AST"
53
58
  default_unit: "units per liter"
54
59
  default_normal_range: {"min": 10, "max": 40}
60
+ default_numerical_value_distribution: "uniform_default"
55
61
 
56
62
  # AST and GOT are the same
57
63
  - model: endoreg_db.lab_value
@@ -62,6 +68,7 @@
62
68
  abbreviation: "GOT"
63
69
  default_unit: "units per liter"
64
70
  default_normal_range: {"min": 10, "max": 40}
71
+ default_numerical_value_distribution: "uniform_default"
65
72
 
66
73
 
67
74
  # Direct bilirubin: 0.1–0.3 mg/dL
@@ -72,6 +79,7 @@
72
79
  name_en: "Direct Bilirubin"
73
80
  default_unit: "miligram per deciliter"
74
81
  default_normal_range: {"min": 0.1, "max": 0.3}
82
+ default_numerical_value_distribution: "uniform_default"
75
83
 
76
84
  # Gamma glutamyl transferase: Female: 8–40 U/L; male: 9–50 U/L
77
85
  - model: endoreg_db.lab_value
@@ -82,6 +90,7 @@
82
90
  abbreviation: "GGT"
83
91
  default_unit: "units per liter"
84
92
  normal_range_gender_dependent: true
93
+ default_numerical_value_distribution: "uniform_default"
85
94
  default_normal_range: {
86
95
  "female": {
87
96
  "min": 8,
@@ -101,6 +110,7 @@
101
110
  name_en: "Lipase"
102
111
  default_unit: "units per liter"
103
112
  default_normal_range: {"min": 10, "max": 140}
113
+ default_numerical_value_distribution: "uniform_default"
104
114
 
105
115
  # Total bilirubin: 0.3–1.0 mg/dL
106
116
  - model: endoreg_db.lab_value
@@ -110,6 +120,7 @@
110
120
  name_en: "Total Bilirubin"
111
121
  default_unit: "miligram per deciliter"
112
122
  default_normal_range: {"min": 0.3, "max": 1.0}
123
+ default_numerical_value_distribution: "uniform_default"
113
124
 
114
125
  # Total protein: 5.5–9.0 g/dL
115
126
  - model: endoreg_db.lab_value
@@ -119,3 +130,4 @@
119
130
  name_en: "Total Protein"
120
131
  default_unit: "gram per deciliter"
121
132
  default_normal_range: {"min": 5.5, "max": 9.0}
133
+ default_numerical_value_distribution: "uniform_default"
@@ -16,6 +16,7 @@
16
16
  "min": 12, "max": 16
17
17
  }
18
18
  }
19
+ default_numerical_value_distribution: "uniform_default"
19
20
 
20
21
  # Hematocrit Female: 37%–47%; male: 42%–50%
21
22
  - model: endoreg_db.lab_value
@@ -34,6 +35,7 @@
34
35
  "min": 37, "max": 47
35
36
  }
36
37
  }
38
+ default_numerical_value_distribution: "uniform_default"
37
39
 
38
40
  # Glycosylated hemoglobin 4.0%–5.6%
39
41
  - model:
@@ -44,6 +46,7 @@
44
46
  abbreviation: "HbA1c"
45
47
  default_unit: "percent"
46
48
  default_normal_range: {"min": 4.0, "max": 5.6}
49
+ default_numerical_value_distribution: "uniform_default"
47
50
 
48
51
  # Mean corpuscular volume (MCV): 80–98 fL
49
52
  - model: endoreg_db.lab_value
@@ -54,6 +57,7 @@
54
57
  abbreviation: "MCV"
55
58
  default_unit: "femtoliter"
56
59
  default_normal_range: {"min": 80, "max": 98}
60
+ default_numerical_value_distribution: "uniform_default"
57
61
 
58
62
  # Red blood cell distribution width (RDW): 9.0%–14.5%
59
63
  - model: endoreg_db.lab_value
@@ -64,6 +68,7 @@
64
68
  abbreviation: "RDW"
65
69
  default_unit: "percent"
66
70
  default_normal_range: {"min": 9.0, "max": 14.5}
71
+ default_numerical_value_distribution: "uniform_default"
67
72
 
68
73
  # Mean corpuscular hemoglobin (MCH): 28–32 pg
69
74
  - model: endoreg_db.lab_value
@@ -74,6 +79,7 @@
74
79
  abbreviation: "MCH"
75
80
  default_unit: "picogram"
76
81
  default_normal_range: {"min": 28, "max": 32}
82
+ default_numerical_value_distribution: "uniform_default"
77
83
 
78
84
  # Mean corpuscular hemoglobin concentration (MCHC): 33–36 g/dL
79
85
  - model: endoreg_db.lab_value
@@ -84,6 +90,7 @@
84
90
  abbreviation: "MCHC"
85
91
  default_unit: "gram per deciliter"
86
92
  default_normal_range: {"min": 33, "max": 36}
93
+ default_numerical_value_distribution: "uniform_default"
87
94
 
88
95
 
89
96
  # Reticulocytes 0.5%–1.5% of red cells
@@ -95,6 +102,7 @@
95
102
  abbreviation: "Reti"
96
103
  default_unit: "percent"
97
104
  default_normal_range: {"min": 0.5, "max": 1.5}
105
+ default_numerical_value_distribution: "uniform_default"
98
106
 
99
107
  # White blood cells (WBC) 4-10 x 10^9/L
100
108
  - model: endoreg_db.lab_value
@@ -105,6 +113,7 @@
105
113
  abbreviation: "WBC"
106
114
  default_unit: "x 10^9 per liter"
107
115
  default_normal_range: {"min": 4, "max": 10}
116
+ default_numerical_value_distribution: "uniform_default"
108
117
 
109
118
  # Neutrophils: 2-8 x 109/L
110
119
  - model: endoreg_db.lab_value
@@ -115,6 +124,7 @@
115
124
  abbreviation: "Neu"
116
125
  default_unit: "x 10^9 per liter"
117
126
  default_normal_range: {"min": 2, "max": 8}
127
+ default_numerical_value_distribution: "uniform_default"
118
128
 
119
129
 
120
130
  # Bands: < 1 x 109/L
@@ -125,7 +135,8 @@
125
135
  name_en: "Bands"
126
136
  abbreviation: "Bands"
127
137
  default_unit: "x 10^9 per liter"
128
- default_normal_range: {"max": 1}
138
+ default_normal_range: {"min": 0.0001, "max": 1}
139
+ default_numerical_value_distribution: "uniform_default"
129
140
 
130
141
  # Lymphocytes: 1000 to 4800/mcL (1 to 4.8 × 109/L)
131
142
  - model: endoreg_db.lab_value
@@ -136,6 +147,7 @@
136
147
  abbreviation: "Lym"
137
148
  default_unit: "x 10^9 per liter"
138
149
  default_normal_range: {"min": 1, "max": 4.8}
150
+ default_numerical_value_distribution: "uniform_default"
139
151
 
140
152
 
141
153
  # Monocytes: 0.2-0.8 x 109/L
@@ -147,6 +159,7 @@
147
159
  abbreviation: "Mon"
148
160
  default_unit: "x 10^9 per liter"
149
161
  default_normal_range: {"min": 0.2, "max": 0.8}
162
+ default_numerical_value_distribution: "uniform_default"
150
163
 
151
164
  # Eosinophils: .000-0.600 th/uL (0-6%)
152
165
  - model: endoreg_db.lab_value
@@ -156,7 +169,8 @@
156
169
  name_en: "Eosinophils"
157
170
  abbreviation: "Eos"
158
171
  default_unit: "x 10^9 per liter"
159
- default_normal_range: {"max": 0.6}
172
+ default_normal_range: {"min": 0.01, "max": 0.6}
173
+ default_numerical_value_distribution: "uniform_default"
160
174
 
161
175
  # Platelets: 150,000-350,000/µL (150-350 x 109/L)
162
176
  - model: endoreg_db.lab_value
@@ -167,3 +181,4 @@
167
181
  abbreviation: "Plt"
168
182
  default_unit: "x 10^9 per liter"
169
183
  default_normal_range: {"min": 150, "max": 350}
184
+ default_numerical_value_distribution: "uniform_default"
@@ -6,6 +6,7 @@
6
6
  abbreviation: "TBG"
7
7
  default_unit: "microgram per mililiter"
8
8
  default_normal_range: {"min": 12, "max": 27}
9
+ default_numerical_value_distribution: "uniform_default"
9
10
 
10
11
  - model: endoreg_db.lab_value
11
12
  fields:
@@ -15,6 +16,7 @@
15
16
  abbreviation: "TSH"
16
17
  default_unit: "microinternational units per mililiter"
17
18
  default_normal_range: {"min": 0.5, "max": 4.0}
19
+ default_numerical_value_distribution: "uniform_default"
18
20
 
19
21
  - model: endoreg_db.lab_value
20
22
  fields:
@@ -24,6 +26,7 @@
24
26
  abbreviation: "T4"
25
27
  default_unit: "microgram per deciliter"
26
28
  default_normal_range: {"min": 5, "max": 12}
29
+ default_numerical_value_distribution: "uniform_default"
27
30
 
28
31
  - model: endoreg_db.lab_value
29
32
  fields:
@@ -33,6 +36,7 @@
33
36
  abbreviation: "T3"
34
37
  default_unit: "nanogram per deciliter"
35
38
  default_normal_range: {"min": 80, "max": 180}
39
+ default_numerical_value_distribution: "uniform_default"
36
40
 
37
41
  - model: endoreg_db.lab_value
38
42
  fields:
@@ -42,6 +46,7 @@
42
46
  abbreviation: "fT3"
43
47
  default_unit: "picogram per mililiter"
44
48
  default_normal_range: {"min": 2.3, "max": 4.2}
49
+ default_numerical_value_distribution: "uniform_default"
45
50
 
46
51
  - model: endoreg_db.lab_value
47
52
  fields:
@@ -51,3 +56,4 @@
51
56
  abbreviation: "fT4"
52
57
  default_unit: "nanogram per deciliter"
53
58
  default_normal_range: {"min": 0.8, "max": 2.8}
59
+ default_numerical_value_distribution: "uniform_default"
@@ -9,7 +9,11 @@
9
9
  name_de: "Triglyceride"
10
10
  name_en: "Triglycerides"
11
11
  default_unit: "miligram per deciliter"
12
- default_normal_range: {"max": 150}
12
+ default_normal_range: {
13
+ "min": 0,
14
+ "max": 150
15
+ }
16
+ default_numerical_value_distribution: "uniform_default"
13
17
 
14
18
  - model: endoreg_db.lab_value
15
19
  fields:
@@ -17,7 +21,8 @@
17
21
  name_de: "Gesamtcholesterin"
18
22
  name_en: "Total Cholesterol"
19
23
  default_unit: "miligram per deciliter"
20
- default_normal_range: {"max": 200}
24
+ default_normal_range: {"min": 0,"max": 200}
25
+ default_numerical_value_distribution: "uniform_default"
21
26
 
22
27
  - model: endoreg_db.lab_value
23
28
  fields:
@@ -28,12 +33,15 @@
28
33
  normal_range_gender_dependent: true
29
34
  default_normal_range: {
30
35
  "female": {
36
+ "min": 10,
31
37
  "max": 50
32
38
  },
33
39
  "male": {
40
+ "min": 10,
34
41
  "max": 40
35
42
  }
36
43
  }
44
+ default_numerical_value_distribution: "uniform_default"
37
45
 
38
46
  - model: endoreg_db.lab_value
39
47
  fields:
@@ -41,4 +49,5 @@
41
49
  name_de: "Low-Density-Lipoprotein"
42
50
  name_en: "Low-Density Lipoprotein"
43
51
  default_unit: "miligram per deciliter"
44
- default_normal_range: {"max": 100}
52
+ default_normal_range: {"min": 20, "max": 100}
53
+ default_numerical_value_distribution: "uniform_default"
@@ -9,7 +9,8 @@
9
9
  name_en: "C-reactive protein"
10
10
  abbreviation: "CRP"
11
11
  default_unit: "miligram per deciliter"
12
- default_normal_range: {"max": 0.5}
12
+ default_normal_range: {"min": 0, "max": 0.5}
13
+ default_numerical_value_distribution: "uniform_default"
13
14
 
14
15
  - model: endoreg_db.lab_value
15
16
  fields:
@@ -18,7 +19,8 @@
18
19
  name_en: "D-dimer"
19
20
  abbreviation: "D-Dimer"
20
21
  default_unit: "nanogram per mililiter"
21
- default_normal_range: {"max": 300}
22
+ default_normal_range: {"min": 50, "max": 300}
23
+ default_numerical_value_distribution: "uniform_default"
22
24
 
23
25
  - model: endoreg_db.lab_value
24
26
  fields:
@@ -28,3 +30,47 @@
28
30
  abbreviation: "LDH"
29
31
  default_unit: "units per liter"
30
32
  default_normal_range: {"min": 60, "max": 160}
33
+ default_numerical_value_distribution: "uniform_default"
34
+
35
+ # Categorical Lab Values
36
+ - model: endoreg_db.lab_value
37
+ fields:
38
+ name: "blood_group"
39
+ name_de: "Blutgruppe"
40
+ name_en: "Blood Group"
41
+ abbreviation: "BG"
42
+
43
+ - model: endoreg_db.lab_value
44
+ fields:
45
+ name: "urine_bacteria_culture"
46
+ name_de: "Urinbakterienkultur"
47
+ name_en: "Urine Bacteria Culture"
48
+ abbreviation: "UBC"
49
+
50
+ - model: endoreg_db.lab_value
51
+ fields:
52
+ name: "microbiology_pathogen_report"
53
+ name_de: "Mikrobiologie Erregerbericht"
54
+ name_en: "Microbiology Pathogen Report"
55
+ abbreviation: "MPR"
56
+
57
+ - model: endoreg_db.lab_value
58
+ fields:
59
+ name: "drug_screening_urine"
60
+ name_de: "Drogenscreening Urin"
61
+ name_en: "Drug Screening Urine"
62
+ abbreviation: "DSU"
63
+
64
+ - model: endoreg_db.lab_value
65
+ fields:
66
+ name: "antibiotic_resistance_report"
67
+ name_de: "Antibiotikaresistenzbericht"
68
+ name_en: "Antibiotic Resistance Report"
69
+ abbreviation: "ARR"
70
+
71
+ - model: endoreg_db.lab_value
72
+ fields:
73
+ name: "cytology_report"
74
+ name_de: "Zytologiebericht"
75
+ name_en: "Cytology Report"
76
+ abbreviation: "CR"
@@ -8,4 +8,5 @@
8
8
  default_normal_range: {
9
9
  "min": 60,
10
10
  "max": 120
11
- }
11
+ }
12
+ default_numerical_value_distribution: "uniform_default"
@@ -0,0 +1,54 @@
1
+ # Client Tags
2
+ - model: endoreg_db.lx_client_tag
3
+ fields:
4
+ name: "coloreg"
5
+ description: "Coloreg related clients"
6
+ permissions: [
7
+ "local_base_db_read",
8
+ "local_base_db_write",
9
+ ]
10
+
11
+ - model: endoreg_db.lx_client_tag
12
+ fields:
13
+ name: "client"
14
+ description: "General client"
15
+ permissions: [
16
+ "local_base_db_read",
17
+ "local_base_db_write",
18
+ ]
19
+
20
+ - model: endoreg_db.lx_client_tag
21
+ fields:
22
+ name: "server"
23
+ description: "General server"
24
+ permissions: [
25
+ "local_base_db_read",
26
+ "local_base_db_write",
27
+ ]
28
+
29
+ - model: endoreg_db.lx_client_tag
30
+ fields:
31
+ name: "production"
32
+ description: "Production environment"
33
+ permissions: [
34
+ "local_base_db_read",
35
+ "local_base_db_write",
36
+ ]
37
+
38
+ - model: endoreg_db.lx_client_tag
39
+ fields:
40
+ name: "development"
41
+ description: "Development environment"
42
+ permissions: [
43
+ "local_base_db_read",
44
+ "local_base_db_write",
45
+ ]
46
+
47
+ - model: endoreg_db.lx_client_tag
48
+ fields:
49
+ name: "test"
50
+ description: "Test environment"
51
+ permissions: [
52
+ "local_base_db_read",
53
+ "local_base_db_write",
54
+ ]
@@ -0,0 +1,30 @@
1
+ # Client Types
2
+ - model: endoreg_db.lx_clienttype
3
+ fields:
4
+ name: "base-client"
5
+ abbreviation: "c"
6
+
7
+ - model: endoreg_db.lx_clienttype
8
+ fields:
9
+ name: "gpu-client"
10
+ abbreviation: "gc"
11
+
12
+ - model: endoreg_db.lx_clienttype
13
+ fields:
14
+ name: "coloreg-client"
15
+ abbreviation: "cc"
16
+
17
+ - model: endoreg_db.lx_clienttype
18
+ fields:
19
+ name: "base-server"
20
+ abbreviation: "s"
21
+
22
+ - model: endoreg_db.lx_clienttype
23
+ fields:
24
+ name: "gpu-server"
25
+ abbreviation: "gs"
26
+
27
+ - model: endoreg_db.lx_clienttype
28
+ fields:
29
+ name: "storage-server"
30
+ abbreviation: "ss"