endoreg-db 0.8.6.4__py3-none-any.whl

endoreg_db/data/unit/concentration.yaml

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+# g / l and equivalents; ascending by gram, then ascending by liter
+- model: endoreg_db.unit
+  fields: 
+    name: "picogram per mililiter"
+    name_de: "Pikogramm pro Mililiter"
+    name_en: "picogram per mililiter"
+    abbreviation: "pg/ml"
+
+# gram per liter
+- model: endoreg_db.unit
+  fields:
+    name: "gram per liter"
+    name_de: "Gramm pro Liter"
+    name_en: "gram per liter"
+    abbreviation: "g/L"
+
+# micromole per liter: 
+- model: endoreg_db.unit
+  fields:
+    name: "micromole per liter"
+    name_de: "Mikromol pro Liter"
+    name_en: "micromole per liter"
+    abbreviation: "µmol/L"
+
+- model: endoreg_db.unit
+  fields:
+    name: "nanogram per mililiter"
+    name_de: "Nanogramm pro Mililiter"
+    name_en: "nanogram per mililiter"
+    abbreviation: "ng/ml"
+
+- model: endoreg_db.unit
+  fields:
+    name: "nanogram per deciliter"
+    name_de: "Nanogramm pro Deziliter"
+    name_en: "nanogram per deciliter"
+
+- model: endoreg_db.unit
+  fields:
+    name: "microgram per mililiter"
+    name_de: "Microgramm pro Mililiter"
+    name_en: "microgram per mililiter"
+    abbreviation: "µg/ml"
+
+- model: endoreg_db.Unit
+  fields:
+    name: "microgram per deciliter"
+    abbreviation: "µg/dL"
+    name_de: "Mikrogramm pro Deziliter"
+    name_en: "microgram per deciliter"
+    description: "Micrograms per deciliter, a unit of measurement for concentration."
+
+- model: endoreg_db.unit
+  fields:
+    name: "gram per deciliter"
+    name_de: "Gramm pro Deziliter"
+    name_en: "gram per deciliter"
+  
+
+# mol / l
+- model: endoreg_db.Unit
+  fields:
+    name: "milimole per liter"
+    abbreviation: "mmol/L"
+    name_de: "milimol pro Liter"
+    name_en: "milimole per liter"
+    description: "milimoles per liter, a unit of measurement for concentration in blood."
+
+- model: endoreg_db.Unit
+  fields:
+    name: "miliequivalent per liter"
+    abbreviation: "mEq/L"
+    name_de: "miliäquivalent pro Liter"
+    name_en: "miliequivalent per liter"
+    description: "miliequivalents per liter, used for electrolytes concentration."
+
+- model: endoreg_db.Unit
+  fields:
+    name: "miligram per deciliter"
+    abbreviation: "mg/dL"
+    name_de: "miligramm pro Deziliter"
+    name_en: "miligram per deciliter"
+    description: "miligrams per deciliter, commonly used for various blood measurements."
+
+- model: endoreg_db.Unit
+  fields:
+    name: "miligram per liter"
+    abbreviation: "mg/L"
+    name_de: "miligramm pro Liter"
+    name_en: "miligram per liter"
+    description: "miligrams per liter, a unit of measurement for concentration in blood."
+
+# x 10^9 per liter
+- model: endoreg_db.Unit
+  fields:
+    name: "x 10^9 per liter"
+    abbreviation: "x 10^9/L"
+    name_de: "x 10^9 pro Liter"
+    name_en: "x 10^9 per liter"
+    description: "Number of cells per liter, often used for blood cell counts."
+
+# U / l
+- model: endoreg_db.unit
+  fields:
+    name: "units per liter"
+    name_de: "Units pro Liter"
+    name_en: "units per liter"
+    abbreviation: "U/l"
+
+- model: endoreg_db.unit
+  fields:
+    name: "microinternational units per mililiter"
+    name_de: "Mikro-Internationale Einheiten pro Mililiter"
+    name_en: "micro-international units per mililiter"
+    abbreviation: "µU/ml"

endoreg_db/data/unit/data.yaml

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+- model: endoreg_db.Unit
+  fields:
+    name: "liters-per-minute"
+    abbreviation: "l/min"
+    name_de: "Liter pro Minute"
+    name_en: "Liters per Minute"
+    description: "liters per minute"
+
+
+# kilowatt-hours
+- model: endoreg_db.Unit
+  fields:
+    name: "kilowatt-hours"
+    abbreviation: "kWh"
+    name_de: "Kilowattstunden"
+    name_en: "Kilowatt-hours"
+    description: "kilowatt-hours"

endoreg_db/data/unit/length.yaml

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+- model: endoreg_db.Unit
+  fields:
+    name: "milimeter"
+    abbreviation: "mm"
+    name_de: "milimeter"
+    name_en: "milimeter"
+    description: "milimeters"
+
+- model: endoreg_db.Unit
+  fields:
+    name: "centimeter"
+    abbreviation: "cm"
+    name_de: "Zentimeter"
+    name_en: "Centimeter"
+    description: "centimeters"
+
+- model: endoreg_db.Unit
+  fields:
+    name: "meter"
+    abbreviation: "m"
+    name_de: "Meter"
+    name_en: "Meter"
+    description: "meters"
+
+- model: endoreg_db.Unit
+  fields:
+    name: "kilometer"
+    abbreviation: "km"
+    name_de: "Kilometer"
+    name_en: "Kilometer"
+    description: "kilometers"

endoreg_db/data/unit/misc.yaml

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+- model: endoreg_db.unit
+  fields:
+    name: "percent"
+    abbreviation: "%"
+    name_de: "Prozent"
+    name_en: "percent"
+
+- model: endoreg_db.unit
+  fields:
+    name: "ratio"
+    abbreviation: ""
+    name_de: "Ratio"
+    name_en: "ratio"
+
+- model: endoreg_db.unit
+  fields:
+    name: "dose"
+    name_de: "Dosierung(en)"
+    name_en: "dose(s)"
+    abbreviation: ""

endoreg_db/data/unit/rate.yaml

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+- model: endoreg_db.unit
+  fields:
+    name: "mililiter per minute per 1.73m^2"
+    name_de: "ml/min/1.73m²"
+    name_en: "ml/min/1.73m²"
+    abbreviation: "ml/min/1.73m²"

endoreg_db/data/unit/time.yaml

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+- model: endoreg_db.unit
+  fields:
+    name: "seconds"
+    abbreviation: "s"
+    name_de: "Sekunden"
+    name_en: "Sekunden"
+
+- model: endoreg_db.unit
+  fields:
+    name: "minutes"
+    abbreviation: "min"
+    name_de: "Minuten"
+    name_en: "Minutes"
+
+- model: endoreg_db.unit
+  fields:
+    name: "hours"
+    abbreviation: "h"
+    name_de: "Stunden"
+    name_en: "Hours"
+
+- model: endoreg_db.unit
+  fields:
+    name: "days"
+    abbreviation: "d"
+    name_de: "Tage"
+    name_en: "Days"
+
+- model: endoreg_db.unit
+  fields:
+    name: "weeks"
+    abbreviation: "w"
+    name_de: "Wochen"
+    name_en: "Weeks"
+
+- model: endoreg_db.unit
+  fields:
+    name: "months"
+    abbreviation: "mo"
+    name_de: "Monate"
+    name_en: "Months"
+
+- model: endoreg_db.unit
+  fields:
+    name: "years"
+    abbreviation: "y"
+    name_de: "Jahre"
+    name_en: "Years"

endoreg_db/data/unit/volume.yaml

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+# Units/data.yaml
+
+# femptolitre
+- model: endoreg_db.Unit
+  fields:
+    name: "femtoliter"
+    abbreviation: "fl"
+    name_de: "Femtoliter"
+    name_en: "Femtolitre"
+    description: "femtoliters"
+
+- model: endoreg_db.Unit
+  fields:
+    name: "mililiter"
+    abbreviation: "ml"
+    name_de: "mililiter"
+    name_en: "mililiter"
+    description: "mililiters"
+
+- model: endoreg_db.Unit
+  fields:
+    name: "liter"
+    abbreviation: "l"
+    name_de: "Liter"
+    name_en: "Liter"
+    description: "liters"
+
+# cubic_meter
+- model: endoreg_db.Unit
+  fields:
+    name: "cubic_meter"
+    abbreviation: "m³"
+    name_de: "Kubikmeter"
+    name_en: "Cubic Meter"
+    description: "cubic meters"

endoreg_db/data/unit/weight.yaml

@@ -0,0 +1,38 @@
+- model: endoreg_db.unit
+  fields:
+    name: "picogram"
+    abbreviation: "pg"
+    name_de: "Picogramm"
+    name_en: "Picogram"
+
+- model: endoreg_db.Unit
+  fields:
+    name: "microgram"
+    abbreviation: "µg"
+    name_de: "Mikrogramm"
+    name_en: "Microgram"
+    description: "micrograms"
+
+- model: endoreg_db.Unit
+  fields:
+    name: "miligram"
+    abbreviation: "mg"
+    name_de: "miligramm"
+    name_en: "miligram"
+    description: "miligrams"
+
+- model: endoreg_db.Unit
+  fields:
+    name: "gram"
+    abbreviation: "g"
+    name_de: "Gramm"
+    name_en: "Gram"
+    description: "grams"
+
+- model: endoreg_db.Unit
+  fields:
+    name: "kilogram"
+    abbreviation: "kg"
+    name_de: "Kilogramm"
+    name_en: "Kilogram"
+    description: "kilograms"

endoreg_db/data/waste/data.yaml

@@ -0,0 +1,12 @@
+- model: endoreg_db.Waste
+  fields:
+    name: general_waste
+    name_de: Allgemeiner Abfall
+    name_en: General Waste
+
+- model: endoreg_db.Waste
+  fields:
+    name: medical_waste
+    name_de: Medizinischer Abfall
+    name_en: Medical Waste
+    

endoreg_db/exceptions.py

@@ -0,0 +1,19 @@
+
+
+class InsufficientStorageError(Exception):
+    """Raised when there's not enough disk space for an operation."""
+    
+    def __init__(self, message, required_space=None, available_space=None):
+        super().__init__(message)
+        self.required_space = required_space
+        self.available_space = available_space
+
+
+class TranscodingError(Exception):
+    """Raised when video transcoding fails."""
+    pass
+
+
+class VideoProcessingError(Exception):
+    """Base class for video processing errors."""
+    pass

endoreg_db/forms/__init__.py

@@ -0,0 +1,5 @@
+from .unit import Unit
+from .settings import ActiveModelForm
+from .questionnaires import *
+from .patient_form import PatientForm
+

endoreg_db/forms/examination_form.py

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+from django import forms
+from endoreg_db.models.examination.examination import Examination
+
+class ExaminationForm(forms.ModelForm):
+    class Meta:
+        model = Examination
+        fields = '__all__'
+        widgets = {
+            'date': forms.DateInput(attrs={'type': 'date', 'class': 'form-control'}),
+            'time': forms.TimeInput(attrs={'type': 'time', 'class': 'form-control'}),
+        }

endoreg_db/forms/patient_finding_intervention_form.py

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+from django import forms
+from endoreg_db.models import (
+    Patient, PatientExamination, Finding, 
+    FindingClassification, FindingClassificationChoice,
+    FindingIntervention, PatientFindingIntervention
+)
+
+class PatientFindingInterventionForm(forms.ModelForm):
+    patient = forms.ModelChoiceField(queryset=Patient.objects.all(), required=True)
+    examination = forms.ModelChoiceField(queryset=PatientExamination.objects.none(), required=True)
+    finding = forms.ModelChoiceField(queryset=Finding.objects.none(), required=True)
+    classification = forms.ModelChoiceField(queryset=FindingClassification.objects.none(), required=True)
+    classification_choice = forms.ModelChoiceField(queryset=FindingClassificationChoice.objects.none(), required=True)
+    interventions = forms.ModelMultipleChoiceField(queryset=FindingIntervention.objects.none(), widget=forms.CheckboxSelectMultiple, required=True)
+
+    class Meta:
+        model = PatientFindingIntervention
+        fields = ["patient", "examination", "finding", "classification", "classification_choice", "interventions"]

endoreg_db/forms/patient_form.py

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+from django import forms
+from django.forms import ModelForm, Select
+from endoreg_db.models import (
+    Patient,
+    Gender,
+    Center
+)
+
+
+class PatientForm(ModelForm):
+    gender = forms.ModelChoiceField(
+        queryset=Gender.objects.all(),  
+        empty_label="Select Gender",  
+        widget=Select(attrs={'class': 'form-control'})
+    )
+    center = forms.ModelChoiceField(
+        queryset=Center.objects.all(),  
+        empty_label="Select Center",  
+        widget=Select(attrs={'class': 'form-control'})
+    )
+
+    class Meta:
+        model = Patient
+        fields = '__all__'
+        widgets = {
+            'dob': forms.DateInput(attrs={'type': 'date', 'class': 'form-control'}),
+        }

endoreg_db/forms/questionnaires/__init__.py

@@ -0,0 +1 @@
+# from .tto_questionnaire import TtoQuestionnaireForm, TtoQuestionnaireCreate

endoreg_db/forms/questionnaires/tto_questionnaire.py

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+# # Path: endoreg_db/forms/questionnaires/tto_questionnaire.py
+# from endoreg_db.models import TtoQuestionnaire
+# from django import forms
+
+# class TtoQuestionnaireForm(forms.ModelForm):
+#     class Meta:
+#         model = TtoQuestionnaire
+#         fields = '__all__'
+#         widgets = {
+#             # Specify Bootstrap classes for other fields as needed
+#             'patient_name': forms.TextInput(attrs={'class': 'form-control'}),
+#             'birth_date': forms.DateInput(attrs={'class': 'form-control', 'type': 'date'}),
+#             # You can continue to specify widgets for other fields
+#         }
+
+
+# from django.views.generic.edit import CreateView
+# from django.urls import reverse_lazy
+
+# class TtoQuestionnaireCreate(CreateView):
+#     model = TtoQuestionnaire
+#     form_class = TtoQuestionnaireForm
+#     success_url = reverse_lazy('questionnaire_success')  # Redirect to a success page after submission

endoreg_db/forms/settings/__init__.py

@@ -0,0 +1,8 @@
+# forms.py
+from django import forms
+from endoreg_db.models import ActiveModel
+
+class ActiveModelForm(forms.ModelForm):
+    class Meta:
+        model = ActiveModel
+        fields = ["model_meta"]  # Or list the specific fields you want to include in the form.

endoreg_db/forms/unit.py

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+from django import forms
+from ..models import Unit
+
+class UnitForm(forms.Form):
+    class Meta:
+        model = Unit

endoreg_db/helpers/count_db.py

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+# endoreg_db/helpers/count_db.py  
+from endoreg_db.models.state.audit_ledger import AuditLedger
+
+def _distinct(object_type: str, action: str):
+    """
+    Returns the count of distinct primary keys for records in AuditLedger filtered by object type and action.
+    
+    Args:
+        object_type: The type of object to filter by.
+        action: The action to filter by.
+    
+    Returns:
+        The number of unique object primary keys matching the specified type and action.
+    """
+    return (
+        AuditLedger.objects
+        .filter(object_type=object_type, action=action)
+        .values('object_pk')
+        .distinct()
+        .count()
+    )
+
+def collect_counters():
+    """
+    Returns a dictionary with statistical counts for cases, videos, annotations, anonymizations, images, and video statuses.
+    
+    The returned dictionary includes:
+    - "totalCases": Count of distinct created video files.
+    - "totalVideos": Count of distinct created video files.
+    - "totalAnnotations": Count of audit log entries where an annotation was added.
+    - "totalAnonymizations": Count of distinct video files that have been anonymized.
+    - "totalImages": Count of distinct created images.
+    - "videosCompleted": Count of distinct video files that have been validated.
+    - "videosAnonym": Count of distinct video files that have been anonymized.
+    """
+    return {
+        #TODO @maxhild can we remove the totalCases key?
+        # "totalCases":           _distinct("VideoFile", "created"),
+        "totalVideos":          _distinct("VideoFile", "created"),
+        "totalAnnotations":     AuditLedger.objects.filter(action="annotation_added").count(),
+        "totalAnonymizations":  _distinct("VideoFile", "anonymized"),
+        "totalImages":          _distinct("Image",     "created"),
+        "videosCompleted":      _distinct("VideoFile", "validated"),
+        "videosAnonym":         _distinct("VideoFile", "anonymized"),
+    }