endoreg-db 0.1.0__py3-none-any.whl → 0.2.0__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 (121) hide show
  1. endoreg_db/data/__init__.py +14 -0
  2. endoreg_db/data/active_model/data.yaml +3 -0
  3. endoreg_db/data/center/data.yaml +7 -0
  4. endoreg_db/data/endoscope_type/data.yaml +11 -0
  5. endoreg_db/data/endoscopy_processor/data.yaml +45 -0
  6. endoreg_db/data/examination/examinations/data.yaml +17 -0
  7. endoreg_db/data/examination/time/data.yaml +48 -0
  8. endoreg_db/data/examination/time-type/data.yaml +8 -0
  9. endoreg_db/data/examination/type/data.yaml +5 -0
  10. endoreg_db/data/information_source/data.yaml +30 -0
  11. endoreg_db/data/label/label/data.yaml +62 -0
  12. endoreg_db/data/label/label-set/data.yaml +18 -0
  13. endoreg_db/data/label/label-type/data.yaml +7 -0
  14. endoreg_db/data/model_type/data.yaml +7 -0
  15. endoreg_db/data/profession/data.yaml +70 -0
  16. endoreg_db/data/unit/data.yaml +17 -0
  17. endoreg_db/data/unit/length.yaml +31 -0
  18. endoreg_db/data/unit/volume.yaml +26 -0
  19. endoreg_db/data/unit/weight.yaml +31 -0
  20. endoreg_db/forms/__init__.py +2 -0
  21. endoreg_db/forms/settings/__init__.py +8 -0
  22. endoreg_db/forms/unit.py +6 -0
  23. endoreg_db/management/commands/_load_model_template.py +41 -0
  24. endoreg_db/management/commands/delete_legacy_images.py +19 -0
  25. endoreg_db/management/commands/delete_legacy_videos.py +17 -0
  26. endoreg_db/management/commands/extract_legacy_video_frames.py +18 -0
  27. endoreg_db/management/commands/fetch_legacy_image_dataset.py +32 -0
  28. endoreg_db/management/commands/import_legacy_images.py +94 -0
  29. endoreg_db/management/commands/import_legacy_videos.py +76 -0
  30. endoreg_db/management/commands/load_active_model_data.py +45 -0
  31. endoreg_db/management/commands/load_ai_model_data.py +45 -0
  32. endoreg_db/management/commands/load_base_db_data.py +62 -0
  33. endoreg_db/management/commands/load_center_data.py +43 -0
  34. endoreg_db/management/commands/load_endoscope_type_data.py +45 -0
  35. endoreg_db/management/commands/load_endoscopy_processor_data.py +45 -0
  36. endoreg_db/management/commands/load_examination_data.py +75 -0
  37. endoreg_db/management/commands/load_information_source.py +45 -0
  38. endoreg_db/management/commands/load_label_data.py +67 -0
  39. endoreg_db/management/commands/load_profession_data.py +44 -0
  40. endoreg_db/management/commands/load_unit_data.py +46 -0
  41. endoreg_db/management/commands/load_user_groups.py +67 -0
  42. endoreg_db/management/commands/register_ai_model.py +65 -0
  43. endoreg_db/migrations/0001_initial.py +582 -0
  44. endoreg_db/models/__init__.py +53 -0
  45. endoreg_db/models/ai_model/__init__.py +3 -0
  46. endoreg_db/models/ai_model/active_model.py +9 -0
  47. endoreg_db/models/ai_model/model_meta.py +24 -0
  48. endoreg_db/models/ai_model/model_type.py +26 -0
  49. endoreg_db/models/ai_model/utils.py +8 -0
  50. endoreg_db/models/annotation/__init__.py +2 -0
  51. endoreg_db/models/annotation/binary_classification_annotation_task.py +80 -0
  52. endoreg_db/models/annotation/image_classification.py +27 -0
  53. endoreg_db/models/center.py +19 -0
  54. endoreg_db/models/data_file/__init__.py +4 -0
  55. endoreg_db/models/data_file/base_classes/__init__.py +3 -0
  56. endoreg_db/models/data_file/base_classes/abstract_frame.py +51 -0
  57. endoreg_db/models/data_file/base_classes/abstract_video.py +200 -0
  58. endoreg_db/models/data_file/frame.py +45 -0
  59. endoreg_db/models/data_file/report_file.py +88 -0
  60. endoreg_db/models/data_file/video/__init__.py +7 -0
  61. endoreg_db/models/data_file/video/import_meta.py +25 -0
  62. endoreg_db/models/data_file/video/video.py +25 -0
  63. endoreg_db/models/data_file/video_segment.py +107 -0
  64. endoreg_db/models/examination/__init__.py +4 -0
  65. endoreg_db/models/examination/examination.py +26 -0
  66. endoreg_db/models/examination/examination_time.py +27 -0
  67. endoreg_db/models/examination/examination_time_type.py +24 -0
  68. endoreg_db/models/examination/examination_type.py +18 -0
  69. endoreg_db/models/hardware/__init__.py +2 -0
  70. endoreg_db/models/hardware/endoscope.py +44 -0
  71. endoreg_db/models/hardware/endoscopy_processor.py +143 -0
  72. endoreg_db/models/information_source.py +22 -0
  73. endoreg_db/models/label/__init__.py +1 -0
  74. endoreg_db/models/label/label.py +84 -0
  75. endoreg_db/models/legacy_data/__init__.py +3 -0
  76. endoreg_db/models/legacy_data/image.py +34 -0
  77. endoreg_db/models/patient_examination/__init__.py +35 -0
  78. endoreg_db/models/persons/__init__.py +4 -0
  79. endoreg_db/models/persons/examiner/__init__.py +2 -0
  80. endoreg_db/models/persons/examiner/examiner.py +16 -0
  81. endoreg_db/models/persons/examiner/examiner_type.py +2 -0
  82. endoreg_db/models/persons/patient.py +58 -0
  83. endoreg_db/models/persons/person.py +34 -0
  84. endoreg_db/models/persons/portal_user_information.py +29 -0
  85. endoreg_db/models/prediction/__init__.py +2 -0
  86. endoreg_db/models/prediction/image_classification.py +37 -0
  87. endoreg_db/models/prediction/video_prediction_meta.py +244 -0
  88. endoreg_db/models/unit.py +20 -0
  89. endoreg_db/queries/__init__.py +5 -0
  90. endoreg_db/queries/annotations/__init__.py +3 -0
  91. endoreg_db/queries/annotations/legacy.py +159 -0
  92. endoreg_db/queries/get/__init__.py +6 -0
  93. endoreg_db/queries/get/annotation.py +0 -0
  94. endoreg_db/queries/get/center.py +42 -0
  95. endoreg_db/queries/get/model.py +13 -0
  96. endoreg_db/queries/get/patient.py +14 -0
  97. endoreg_db/queries/get/patient_examination.py +20 -0
  98. endoreg_db/queries/get/prediction.py +0 -0
  99. endoreg_db/queries/get/report_file.py +33 -0
  100. endoreg_db/queries/get/video.py +31 -0
  101. endoreg_db/queries/get/video_import_meta.py +0 -0
  102. endoreg_db/queries/get/video_prediction_meta.py +0 -0
  103. endoreg_db/queries/sanity/__init_.py +0 -0
  104. endoreg_db/serializers/__init__.py +10 -0
  105. endoreg_db/serializers/ai_model.py +19 -0
  106. endoreg_db/serializers/annotation.py +17 -0
  107. endoreg_db/serializers/center.py +11 -0
  108. endoreg_db/serializers/examination.py +33 -0
  109. endoreg_db/serializers/frame.py +13 -0
  110. endoreg_db/serializers/hardware.py +21 -0
  111. endoreg_db/serializers/label.py +22 -0
  112. endoreg_db/serializers/patient.py +10 -0
  113. endoreg_db/serializers/prediction.py +15 -0
  114. endoreg_db/serializers/report_file.py +7 -0
  115. endoreg_db/serializers/video.py +27 -0
  116. endoreg_db-0.2.0.dist-info/LICENSE +674 -0
  117. endoreg_db-0.2.0.dist-info/METADATA +26 -0
  118. endoreg_db-0.2.0.dist-info/RECORD +126 -0
  119. endoreg_db-0.1.0.dist-info/METADATA +0 -19
  120. endoreg_db-0.1.0.dist-info/RECORD +0 -10
  121. {endoreg_db-0.1.0.dist-info → endoreg_db-0.2.0.dist-info}/WHEEL +0 -0
@@ -0,0 +1,582 @@
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+ # Generated by Django 4.2 on 2024-02-13 12:43
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+
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+ from django.conf import settings
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+ from django.db import migrations, models
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+ import django.db.models.deletion
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+
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+
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+ class Migration(migrations.Migration):
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+
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+ initial = True
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+
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+ dependencies = [
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+ migrations.swappable_dependency(settings.AUTH_USER_MODEL),
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+ ]
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+
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+ operations = [
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+ migrations.CreateModel(
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+ name='Center',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=255)),
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+ ('name_de', models.CharField(blank=True, max_length=255, null=True)),
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+ ('name_en', models.CharField(blank=True, max_length=255, null=True)),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='Endoscope',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=255)),
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+ ('sn', models.CharField(max_length=255)),
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+ ],
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+ options={
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+ 'verbose_name': 'Endoscope',
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+ 'verbose_name_plural': 'Endoscopes',
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+ 'ordering': ['name'],
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+ },
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+ ),
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+ migrations.CreateModel(
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+ name='EndoscopeType',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=255)),
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+ ('name_de', models.CharField(blank=True, max_length=255, null=True)),
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+ ('name_en', models.CharField(blank=True, max_length=255, null=True)),
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+ ],
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+ options={
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+ 'verbose_name': 'Endoscope Type',
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+ 'verbose_name_plural': 'Endoscope Types',
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+ 'ordering': ['name'],
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+ },
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+ ),
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+ migrations.CreateModel(
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+ name='EndoscopyProcessor',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=255)),
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+ ('image_width', models.IntegerField()),
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+ ('image_height', models.IntegerField()),
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+ ('endoscope_image_x', models.IntegerField()),
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+ ('endoscope_image_y', models.IntegerField()),
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+ ('endoscope_image_width', models.IntegerField()),
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+ ('endoscope_image_height', models.IntegerField()),
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+ ('examination_date_x', models.IntegerField()),
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+ ('examination_date_y', models.IntegerField()),
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+ ('examination_date_width', models.IntegerField()),
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+ ('examination_date_height', models.IntegerField()),
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+ ('examination_time_x', models.IntegerField(blank=True, null=True)),
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+ ('examination_time_y', models.IntegerField(blank=True, null=True)),
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+ ('examination_time_width', models.IntegerField(blank=True, null=True)),
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+ ('examination_time_height', models.IntegerField(blank=True, null=True)),
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+ ('patient_first_name_x', models.IntegerField()),
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+ ('patient_first_name_y', models.IntegerField()),
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+ ('patient_first_name_width', models.IntegerField()),
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+ ('patient_first_name_height', models.IntegerField()),
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+ ('patient_last_name_x', models.IntegerField()),
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+ ('patient_last_name_y', models.IntegerField()),
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+ ('patient_last_name_width', models.IntegerField()),
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+ ('patient_last_name_height', models.IntegerField()),
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+ ('patient_dob_x', models.IntegerField()),
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+ ('patient_dob_y', models.IntegerField()),
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+ ('patient_dob_width', models.IntegerField()),
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+ ('patient_dob_height', models.IntegerField()),
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+ ('endoscope_type_x', models.IntegerField(blank=True, null=True)),
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+ ('endoscope_type_y', models.IntegerField(blank=True, null=True)),
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+ ('endoscope_type_width', models.IntegerField(blank=True, null=True)),
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+ ('endoscope_type_height', models.IntegerField(blank=True, null=True)),
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+ ('endoscope_sn_x', models.IntegerField(blank=True, null=True)),
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+ ('endoscope_sn_y', models.IntegerField(blank=True, null=True)),
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+ ('endoscope_sn_width', models.IntegerField(blank=True, null=True)),
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+ ('endoscope_sn_height', models.IntegerField(blank=True, null=True)),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='Examination',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=100, unique=True)),
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+ ('name_de', models.CharField(blank=True, max_length=100, null=True)),
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+ ('name_en', models.CharField(blank=True, max_length=100, null=True)),
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+ ('date', models.DateField(blank=True, null=True)),
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+ ('time', models.TimeField(blank=True, null=True)),
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+ ],
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+ options={
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+ 'verbose_name': 'Examination',
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+ 'verbose_name_plural': 'Examinations',
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+ 'ordering': ['name'],
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+ },
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+ ),
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+ migrations.CreateModel(
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+ name='ExaminationType',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=100, unique=True)),
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+ ('name_de', models.CharField(blank=True, max_length=100, null=True)),
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+ ('name_en', models.CharField(blank=True, max_length=100, null=True)),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='Examiner',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('first_name', models.CharField(max_length=255)),
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+ ('last_name', models.CharField(max_length=255)),
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+ ('dob', models.DateField(blank=True, null=True, verbose_name='Date of Birth')),
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+ ('gender', models.CharField(blank=True, choices=[('Male', 'Male'), ('Female', 'Female'), ('Other', 'Other')], max_length=10, null=True)),
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+ ('email', models.EmailField(blank=True, max_length=255, null=True)),
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+ ('phone', models.CharField(blank=True, max_length=255, null=True)),
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+ ('is_real_person', models.BooleanField(default=True)),
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+ ('center', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.center')),
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+ ],
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+ options={
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+ 'abstract': False,
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+ },
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+ ),
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+ migrations.CreateModel(
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+ name='Frame',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('frame_number', models.IntegerField()),
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+ ('image', models.ImageField(upload_to='frames')),
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+ ('suffix', models.CharField(max_length=255)),
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+ ],
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+ options={
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+ 'abstract': False,
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+ },
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+ ),
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+ migrations.CreateModel(
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+ name='InformationSource',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=100)),
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+ ('name_de', models.CharField(blank=True, max_length=100, null=True)),
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+ ('name_en', models.CharField(blank=True, max_length=100, null=True)),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='Label',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=255)),
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+ ('description', models.TextField(blank=True, null=True)),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='LabelSet',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=255)),
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+ ('description', models.TextField(blank=True, null=True)),
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+ ('version', models.IntegerField()),
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+ ('labels', models.ManyToManyField(related_name='labels', to='endoreg_db.label')),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='LabelType',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=255)),
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+ ('description', models.TextField(blank=True, null=True)),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='LegacyImage',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('image', models.ImageField(upload_to='legacy_images')),
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+ ('suffix', models.CharField(max_length=255)),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='LegacyVideo',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('video_hash', models.CharField(max_length=255, unique=True)),
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+ ('date', models.DateField(blank=True, null=True)),
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+ ('suffix', models.CharField(max_length=255)),
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+ ('fps', models.FloatField()),
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+ ('duration', models.FloatField()),
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+ ('width', models.IntegerField()),
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+ ('height', models.IntegerField()),
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+ ('endoscope_image_x', models.IntegerField(blank=True, null=True)),
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+ ('endoscope_image_y', models.IntegerField(blank=True, null=True)),
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+ ('endoscope_image_width', models.IntegerField(blank=True, null=True)),
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+ ('endoscope_image_height', models.IntegerField(blank=True, null=True)),
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+ ('frames_extracted', models.BooleanField(default=False)),
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+ ('meta', models.JSONField(blank=True, null=True)),
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+ ('file', models.FileField(blank=True, null=True, upload_to='legacy_videos')),
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+ ('center', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.center')),
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+ ('endoscopy_processor', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.endoscopyprocessor')),
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+ ],
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+ options={
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+ 'abstract': False,
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+ },
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+ ),
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+ migrations.CreateModel(
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+ name='ModelMeta',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=255)),
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+ ('version', models.CharField(max_length=255)),
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+ ('weights', models.FileField(upload_to='weights/')),
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+ ('description', models.TextField(blank=True, null=True)),
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+ ('date_created', models.DateTimeField(auto_now_add=True)),
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+ ('labelset', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='models', to='endoreg_db.labelset')),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='ModelType',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=255)),
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+ ('description', models.TextField(blank=True, null=True)),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='Patient',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('first_name', models.CharField(max_length=255)),
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+ ('last_name', models.CharField(max_length=255)),
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+ ('dob', models.DateField(blank=True, null=True, verbose_name='Date of Birth')),
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+ ('gender', models.CharField(blank=True, choices=[('Male', 'Male'), ('Female', 'Female'), ('Other', 'Other')], max_length=10, null=True)),
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+ ('email', models.EmailField(blank=True, max_length=255, null=True)),
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+ ('phone', models.CharField(blank=True, max_length=255, null=True)),
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+ ('is_real_person', models.BooleanField(default=True)),
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+ ('center', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.center')),
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+ ],
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+ options={
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+ 'abstract': False,
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+ },
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+ ),
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+ migrations.CreateModel(
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+ name='Profession',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=100)),
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+ ('name_de', models.CharField(blank=True, max_length=100, null=True)),
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+ ('name_en', models.CharField(blank=True, max_length=100, null=True)),
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+ ('description', models.TextField(blank=True, null=True)),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='Unit',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('name', models.CharField(max_length=100)),
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+ ('name_de', models.CharField(blank=True, max_length=100, null=True)),
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+ ('name_en', models.CharField(blank=True, max_length=100, null=True)),
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+ ('description', models.CharField(blank=True, max_length=100, null=True)),
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+ ('abbreviation', models.CharField(blank=True, max_length=10, null=True)),
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+ ],
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+ ),
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+ migrations.CreateModel(
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+ name='Video',
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+ fields=[
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+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
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+ ('file', models.FileField(blank=True, null=True, upload_to='raw_videos')),
279
+ ('video_hash', models.CharField(max_length=255, unique=True)),
280
+ ('date', models.DateField(blank=True, null=True)),
281
+ ('suffix', models.CharField(max_length=255)),
282
+ ('fps', models.FloatField()),
283
+ ('duration', models.FloatField()),
284
+ ('width', models.IntegerField()),
285
+ ('height', models.IntegerField()),
286
+ ('endoscope_image_x', models.IntegerField(blank=True, null=True)),
287
+ ('endoscope_image_y', models.IntegerField(blank=True, null=True)),
288
+ ('endoscope_image_width', models.IntegerField(blank=True, null=True)),
289
+ ('endoscope_image_height', models.IntegerField(blank=True, null=True)),
290
+ ('frames_extracted', models.BooleanField(default=False)),
291
+ ('meta', models.JSONField(blank=True, null=True)),
292
+ ('center', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.center')),
293
+ ('endoscopy_processor', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.endoscopyprocessor')),
294
+ ],
295
+ options={
296
+ 'abstract': False,
297
+ },
298
+ ),
299
+ migrations.CreateModel(
300
+ name='VideoPredictionMeta',
301
+ fields=[
302
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
303
+ ('date_created', models.DateTimeField(auto_now_add=True)),
304
+ ('date_modified', models.DateTimeField(auto_now=True)),
305
+ ('prediction_array', models.BinaryField(blank=True, null=True)),
306
+ ('model_meta', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.modelmeta')),
307
+ ('video', models.OneToOneField(on_delete=django.db.models.deletion.CASCADE, related_name='video_prediction_meta', to='endoreg_db.video')),
308
+ ],
309
+ options={
310
+ 'abstract': False,
311
+ 'unique_together': {('model_meta', 'video')},
312
+ },
313
+ ),
314
+ migrations.CreateModel(
315
+ name='VideoImportMeta',
316
+ fields=[
317
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
318
+ ('video_anonymized', models.BooleanField(default=False)),
319
+ ('video_patient_data_detected', models.BooleanField(default=False)),
320
+ ('outside_detected', models.BooleanField(default=False)),
321
+ ('patient_data_removed', models.BooleanField(default=False)),
322
+ ('outside_removed', models.BooleanField(default=False)),
323
+ ('center', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.center')),
324
+ ('endoscope', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.endoscope')),
325
+ ('processor', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.endoscopyprocessor')),
326
+ ],
327
+ ),
328
+ migrations.AddField(
329
+ model_name='video',
330
+ name='import_meta',
331
+ field=models.OneToOneField(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.videoimportmeta'),
332
+ ),
333
+ migrations.AddField(
334
+ model_name='video',
335
+ name='patient',
336
+ field=models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.patient'),
337
+ ),
338
+ migrations.CreateModel(
339
+ name='ReportFile',
340
+ fields=[
341
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
342
+ ('pdf', models.FileField(blank=True, null=True, upload_to='raw_report_pdfs')),
343
+ ('pdf_hash', models.CharField(max_length=255, unique=True)),
344
+ ('meta', models.JSONField(blank=True, null=True)),
345
+ ('text', models.TextField(blank=True, null=True)),
346
+ ('text_anonymized', models.TextField(blank=True, null=True)),
347
+ ('date', models.DateField(blank=True, null=True)),
348
+ ('time', models.TimeField(blank=True, null=True)),
349
+ ('center', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.center')),
350
+ ('examiner', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.examiner')),
351
+ ('patient', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.patient')),
352
+ ],
353
+ ),
354
+ migrations.CreateModel(
355
+ name='PortalUserInfo',
356
+ fields=[
357
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
358
+ ('works_in_endoscopy', models.BooleanField(blank=True, null=True)),
359
+ ('profession', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.profession')),
360
+ ('user', models.OneToOneField(on_delete=django.db.models.deletion.CASCADE, to=settings.AUTH_USER_MODEL)),
361
+ ],
362
+ ),
363
+ migrations.CreateModel(
364
+ name='PatientExamination',
365
+ fields=[
366
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
367
+ ('examination', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.examination')),
368
+ ('patient', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='patient_examinations', to='endoreg_db.patient')),
369
+ ('report_file', models.OneToOneField(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='patient_examination', to='endoreg_db.reportfile')),
370
+ ('video', models.OneToOneField(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='patient_examination', to='endoreg_db.video')),
371
+ ],
372
+ options={
373
+ 'verbose_name': 'Patient Examination',
374
+ 'verbose_name_plural': 'Patient Examinations',
375
+ 'ordering': ['patient', 'examination'],
376
+ },
377
+ ),
378
+ migrations.AddField(
379
+ model_name='modelmeta',
380
+ name='type',
381
+ field=models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='models', to='endoreg_db.modeltype'),
382
+ ),
383
+ migrations.CreateModel(
384
+ name='LegacyVideoPredictionMeta',
385
+ fields=[
386
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
387
+ ('date_created', models.DateTimeField(auto_now_add=True)),
388
+ ('date_modified', models.DateTimeField(auto_now=True)),
389
+ ('prediction_array', models.BinaryField(blank=True, null=True)),
390
+ ('model_meta', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.modelmeta')),
391
+ ('video', models.OneToOneField(on_delete=django.db.models.deletion.CASCADE, related_name='video_prediction_meta', to='endoreg_db.legacyvideo')),
392
+ ],
393
+ options={
394
+ 'abstract': False,
395
+ 'unique_together': {('model_meta', 'video')},
396
+ },
397
+ ),
398
+ migrations.AddField(
399
+ model_name='legacyvideo',
400
+ name='patient',
401
+ field=models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.patient'),
402
+ ),
403
+ migrations.CreateModel(
404
+ name='LegacyLabelVideoSegment',
405
+ fields=[
406
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
407
+ ('start_frame_number', models.IntegerField()),
408
+ ('end_frame_number', models.IntegerField()),
409
+ ('label', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.label')),
410
+ ('prediction_meta', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='video_segments', to='endoreg_db.legacyvideopredictionmeta')),
411
+ ('source', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.informationsource')),
412
+ ('video', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.legacyvideo')),
413
+ ],
414
+ options={
415
+ 'abstract': False,
416
+ },
417
+ ),
418
+ migrations.CreateModel(
419
+ name='LegacyFrame',
420
+ fields=[
421
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
422
+ ('frame_number', models.IntegerField()),
423
+ ('image', models.ImageField(blank=True, null=True, upload_to='legacy_frames')),
424
+ ('suffix', models.CharField(max_length=255)),
425
+ ('video', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='frames', to='endoreg_db.legacyvideo')),
426
+ ],
427
+ ),
428
+ migrations.CreateModel(
429
+ name='LegacyBinaryClassificationAnnotationTask',
430
+ fields=[
431
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
432
+ ('is_finished', models.BooleanField(default=False)),
433
+ ('date_created', models.DateTimeField(auto_now_add=True)),
434
+ ('date_finished', models.DateTimeField(blank=True, null=True)),
435
+ ('image_path', models.CharField(blank=True, max_length=255, null=True)),
436
+ ('labelstudio_project_id', models.IntegerField(blank=True, null=True)),
437
+ ('labelstudio_task_id', models.IntegerField(blank=True, null=True)),
438
+ ('image_type', models.CharField(default='legacy', max_length=255)),
439
+ ('frame', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='binary_classification_annotation_tasks', to='endoreg_db.legacyframe')),
440
+ ('label', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.label')),
441
+ ],
442
+ options={
443
+ 'abstract': False,
444
+ },
445
+ ),
446
+ migrations.CreateModel(
447
+ name='LabelVideoSegment',
448
+ fields=[
449
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
450
+ ('start_frame_number', models.IntegerField()),
451
+ ('end_frame_number', models.IntegerField()),
452
+ ('label', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.label')),
453
+ ('prediction_meta', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='video_segments', to='endoreg_db.videopredictionmeta')),
454
+ ('source', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.informationsource')),
455
+ ('video', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.video')),
456
+ ],
457
+ options={
458
+ 'abstract': False,
459
+ },
460
+ ),
461
+ migrations.AddField(
462
+ model_name='label',
463
+ name='label_type',
464
+ field=models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='labels', to='endoreg_db.labeltype'),
465
+ ),
466
+ migrations.CreateModel(
467
+ name='ImageClassificationPrediction',
468
+ fields=[
469
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
470
+ ('value', models.BooleanField()),
471
+ ('confidence', models.FloatField()),
472
+ ('date_created', models.DateTimeField(auto_now_add=True)),
473
+ ('frame', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='image_classification_predictions', to='endoreg_db.frame')),
474
+ ('label', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='image_classification_predictions', to='endoreg_db.label')),
475
+ ('legacy_frame', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='image_classification_predictions', to='endoreg_db.legacyframe')),
476
+ ('legacy_image', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='image_classification_predictions', to='endoreg_db.legacyimage')),
477
+ ('model_meta', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='image_classification_predictions', to='endoreg_db.modelmeta')),
478
+ ],
479
+ ),
480
+ migrations.CreateModel(
481
+ name='ImageClassificationAnnotation',
482
+ fields=[
483
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
484
+ ('value', models.BooleanField()),
485
+ ('annotator', models.CharField(max_length=255)),
486
+ ('date_created', models.DateTimeField(auto_now_add=True)),
487
+ ('date_modified', models.DateTimeField(auto_now=True)),
488
+ ('frame', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='image_classification_annotations', to='endoreg_db.frame')),
489
+ ('label', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='image_classification_annotations', to='endoreg_db.label')),
490
+ ('legacy_frame', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='image_classification_annotations', to='endoreg_db.legacyframe')),
491
+ ('legacy_image', models.ForeignKey(blank=True, null=True, on_delete=django.db.models.deletion.CASCADE, related_name='image_classification_annotations', to='endoreg_db.legacyimage')),
492
+ ],
493
+ ),
494
+ migrations.AddField(
495
+ model_name='frame',
496
+ name='video',
497
+ field=models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='frames', to='endoreg_db.video'),
498
+ ),
499
+ migrations.CreateModel(
500
+ name='ExaminationTimeType',
501
+ fields=[
502
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
503
+ ('name', models.CharField(max_length=100, unique=True)),
504
+ ('name_de', models.CharField(blank=True, max_length=100, null=True)),
505
+ ('name_en', models.CharField(blank=True, max_length=100, null=True)),
506
+ ('examinations', models.ManyToManyField(blank=True, to='endoreg_db.examination')),
507
+ ],
508
+ options={
509
+ 'verbose_name': 'Examination Time Type',
510
+ 'verbose_name_plural': 'Examination Time Types',
511
+ 'ordering': ['name'],
512
+ },
513
+ ),
514
+ migrations.CreateModel(
515
+ name='ExaminationTime',
516
+ fields=[
517
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
518
+ ('name', models.CharField(max_length=100, unique=True)),
519
+ ('name_de', models.CharField(blank=True, max_length=100, null=True)),
520
+ ('name_en', models.CharField(blank=True, max_length=100, null=True)),
521
+ ('start_time', models.TimeField(blank=True, null=True)),
522
+ ('end_time', models.TimeField(blank=True, null=True)),
523
+ ('time_types', models.ManyToManyField(blank=True, to='endoreg_db.examinationtimetype')),
524
+ ],
525
+ options={
526
+ 'verbose_name': 'Examination Time',
527
+ 'verbose_name_plural': 'Examination Times',
528
+ 'ordering': ['name'],
529
+ },
530
+ ),
531
+ migrations.AddField(
532
+ model_name='examination',
533
+ name='examination_types',
534
+ field=models.ManyToManyField(blank=True, to='endoreg_db.examinationtype'),
535
+ ),
536
+ migrations.CreateModel(
537
+ name='BinaryClassificationAnnotationTask',
538
+ fields=[
539
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
540
+ ('is_finished', models.BooleanField(default=False)),
541
+ ('date_created', models.DateTimeField(auto_now_add=True)),
542
+ ('date_finished', models.DateTimeField(blank=True, null=True)),
543
+ ('image_path', models.CharField(blank=True, max_length=255, null=True)),
544
+ ('labelstudio_project_id', models.IntegerField(blank=True, null=True)),
545
+ ('labelstudio_task_id', models.IntegerField(blank=True, null=True)),
546
+ ('image_type', models.CharField(default='frame', max_length=255)),
547
+ ('frame', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='binary_classification_annotation_tasks', to='endoreg_db.frame')),
548
+ ('label', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, to='endoreg_db.label')),
549
+ ],
550
+ options={
551
+ 'abstract': False,
552
+ },
553
+ ),
554
+ migrations.CreateModel(
555
+ name='ActiveModel',
556
+ fields=[
557
+ ('id', models.BigAutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
558
+ ('name', models.CharField(max_length=255, unique=True)),
559
+ ('model_meta', models.OneToOneField(blank=True, null=True, on_delete=django.db.models.deletion.SET_NULL, to='endoreg_db.modelmeta')),
560
+ ],
561
+ ),
562
+ migrations.AddIndex(
563
+ model_name='legacyframe',
564
+ index=models.Index(fields=['video', 'frame_number'], name='endoreg_db__video_i_e10f1c_idx'),
565
+ ),
566
+ migrations.AlterUniqueTogether(
567
+ name='legacyframe',
568
+ unique_together={('video', 'frame_number')},
569
+ ),
570
+ migrations.AlterUniqueTogether(
571
+ name='imageclassificationprediction',
572
+ unique_together={('label', 'frame', 'model_meta')},
573
+ ),
574
+ migrations.AddIndex(
575
+ model_name='frame',
576
+ index=models.Index(fields=['video', 'frame_number'], name='endoreg_db__video_i_56cc44_idx'),
577
+ ),
578
+ migrations.AlterUniqueTogether(
579
+ name='frame',
580
+ unique_together={('video', 'frame_number')},
581
+ ),
582
+ ]
@@ -0,0 +1,53 @@
1
+ from .unit import Unit
2
+ from .information_source import InformationSource
3
+ from .center import Center
4
+ from .persons import (
5
+ Person,
6
+ Patient,
7
+ PatientForm,
8
+ Examiner,
9
+ ExaminerSerializer,
10
+ PortalUserInfo,
11
+ Profession,
12
+ )
13
+
14
+ from .examination import (
15
+ Examination,
16
+ ExaminationType,
17
+ ExaminationTime,
18
+ ExaminationTimeType,
19
+ )
20
+
21
+ from .data_file import *
22
+
23
+ from .patient_examination import PatientExamination
24
+
25
+ from .label import Label, LabelType, LabelSet
26
+
27
+ from .annotation import (
28
+ ImageClassificationAnnotation,
29
+ LegacyBinaryClassificationAnnotationTask,
30
+ BinaryClassificationAnnotationTask,
31
+ )
32
+
33
+ from .legacy_data import (
34
+ LegacyImage,
35
+ )
36
+
37
+ from .ai_model import (
38
+ ModelMeta,
39
+ ModelType,
40
+ ActiveModel,
41
+ )
42
+
43
+ from .prediction import (
44
+ ImageClassificationPrediction,
45
+ LegacyVideoPredictionMeta,
46
+ VideoPredictionMeta,
47
+ )
48
+
49
+ from .hardware import (
50
+ EndoscopyProcessor,
51
+ Endoscope,
52
+ EndoscopeType,
53
+ )
@@ -0,0 +1,3 @@
1
+ from .model_meta import ModelMeta
2
+ from .model_type import ModelType
3
+ from .active_model import ActiveModel
@@ -0,0 +1,9 @@
1
+ from django.db import models
2
+
3
+ class ActiveModelManager(models.Manager):
4
+ def get_by_natural_key(self, name):
5
+ return self.get(name=name)
6
+
7
+ class ActiveModel(models.Model):
8
+ name = models.CharField(max_length=255, unique=True)
9
+ model_meta = models.OneToOneField('ModelMeta', on_delete=models.SET_NULL, blank=True, null=True)