endoreg-db 0.3.5__py3-none-any.whl → 0.3.6__py3-none-any.whl

endoreg_db/models/other/distribution.py

@@ -1,215 +1,215 @@
-from django.db import models
-import numpy as np
-from scipy.stats import skewnorm
-
-class BaseValueDistribution(models.Model):
-    """
-    Abstract base class for value distributions.
-    """
-    name = models.CharField(max_length=100)
-
-    class Meta:
-        abstract = True
-
-    def generate_value(self):
-        """
-        Generate a value based on the distribution rules.
-        Must be implemented by subclasses.
-        """
-        raise NotImplementedError("Subclasses must implement this method")
-    
-    def natural_key(self):
-        return (self.name,)
-
-class NumericValueDistributionManager(models.Manager):
-    def get_by_natural_key(self, name):
-        return self.get(name=name)
-
-class NumericValueDistribution(BaseValueDistribution):
-    """
-    Numeric value distribution model.
-    Supports uniform, normal, and skewed normal distributions with hard limits.
-    """
-    objects = NumericValueDistributionManager()
-    DISTRIBUTION_CHOICES = [
-        ('uniform', 'Uniform'),
-        ('normal', 'Normal'),
-        ('skewed_normal', 'Skewed Normal'),
-    ]
-
-    distribution_type = models.CharField(max_length=20, choices=DISTRIBUTION_CHOICES)
-    min_value = models.FloatField()
-    max_value = models.FloatField()
-    mean = models.FloatField(null=True, blank=True)
-    std_dev = models.FloatField(null=True, blank=True)
-    skewness = models.FloatField(null=True, blank=True)
-
-    def generate_value(self):
-        if self.distribution_type == 'uniform':
-            return np.random.uniform(self.min_value, self.max_value)
-        elif self.distribution_type == 'normal':
-            value = np.random.normal(self.mean, self.std_dev)
-            return np.clip(value, self.min_value, self.max_value)
-        elif self.distribution_type == 'skewed_normal':
-            value = skewnorm.rvs(a=self.skewness, loc=self.mean, scale=self.std_dev)
-            return np.clip(value, self.min_value, self.max_value)
-        else:
-            raise ValueError("Unsupported distribution type")
-        
-    
-class SingleCategoricalValueDistributionManager(models.Manager):
-    def get_by_natural_key(self, name):
-        return self.get(name=name)
-
-class SingleCategoricalValueDistribution(BaseValueDistribution):
-    """
-    Single categorical value distribution model.
-    Assigns a single value based on specified probabilities.
-    """
-    objects = SingleCategoricalValueDistributionManager()
-    categories = models.JSONField()  # { "category": "probability", ... }
-
-    def generate_value(self):
-        categories, probabilities = zip(*self.categories.items())
-        return np.random.choice(categories, p=probabilities)
-    
-
-class MultipleCategoricalValueDistributionManager(models.Manager):
-    def get_by_natural_key(self, name):
-        return self.get(name=name)
-
-class MultipleCategoricalValueDistribution(BaseValueDistribution):
-    """
-    Multiple categorical value distribution model.
-    Assigns a specific number or varying number of values based on probabilities.
-    """
-    objects = MultipleCategoricalValueDistributionManager()
-    categories = models.JSONField()  # { "category": "probability", ... }
-    min_count = models.IntegerField()
-    max_count = models.IntegerField()
-    count_distribution_type = models.CharField(max_length=20, choices=[('uniform', 'Uniform'), ('normal', 'Normal')])
-    count_mean = models.FloatField(null=True, blank=True)
-    count_std_dev = models.FloatField(null=True, blank=True)
-
-    def generate_value(self):
-        if self.count_distribution_type == 'uniform':
-            count = np.random.randint(self.min_count, self.max_count + 1)
-        elif self.count_distribution_type == 'normal':
-            count = int(np.random.normal(self.count_mean, self.count_std_dev))
-            count = np.clip(count, self.min_count, self.max_count)
-        else:
-            raise ValueError("Unsupported count distribution type")
-
-        categories, probabilities = zip(*self.categories.items())
-        return list(np.random.choice(categories, size=count, p=probabilities))
-
-
-class DateValueDistributionManager(models.Manager):
-    def get_by_natural_key(self, name):
-        return self.get(name=name)
-
-from datetime import date, timedelta
-class DateValueDistribution(BaseValueDistribution):
-    """
-    Assign date values based on specified distribution.
-    Expects distribution_type (uniform, normal) and mode (date, timedelta) and based on this either
-    date_min, date_max, date_mean, date_std_dev or
-    timedelta_days_min, timedelta_days_max, timedelta_days_mean, timedelta_days_std_dev
-    """
-    objects = DateValueDistributionManager()
-    name = models.CharField(max_length=100)
-    name_de = models.CharField(max_length=100, blank=True, null=True)
-    name_en = models.CharField(max_length=100, blank=True, null=True)
-    description = models.TextField(blank=True, null=True)
-    DISTRIBUTION_CHOICES = [
-        ('uniform', 'Uniform'),
-        ('normal', 'Normal'),
-    ]
-    MODE_CHOICES = [
-        ('date', 'Date'),
-        ('timedelta', 'Timedelta'),
-    ]
-
-    distribution_type = models.CharField(max_length=20, choices=DISTRIBUTION_CHOICES)
-    mode = models.CharField(max_length=20, choices=MODE_CHOICES)
-
-    # Date-related fields
-    date_min = models.DateField(blank=True, null=True)
-    date_max = models.DateField(blank=True, null=True)
-    date_mean = models.DateField(blank=True, null=True)
-    date_std_dev = models.IntegerField(blank=True, null=True)  # Standard deviation in days
-
-    # Timedelta-related fields
-    timedelta_days_min = models.IntegerField(blank=True, null=True)
-    timedelta_days_max = models.IntegerField(blank=True, null=True)
-    timedelta_days_mean = models.IntegerField(blank=True, null=True)
-    timedelta_days_std_dev = models.IntegerField(blank=True, null=True)
-
-    def generate_value(self):
-        if self.mode == 'date':
-            return self._generate_date_value()
-        elif self.mode == 'timedelta':
-            return self._generate_timedelta_value()
-        else:
-            raise ValueError("Unsupported mode")
-
-    def _generate_date_value(self):
-        #UNTESTED
-        if self.distribution_type == 'uniform':
-            start_date = self.date_min.toordinal()
-            end_date = self.date_max.toordinal()
-            random_ordinal = np.random.randint(start_date, end_date)
-            return date.fromordinal(random_ordinal)
-        elif self.distribution_type == 'normal':
-            mean_ordinal = self.date_mean.toordinal()
-            std_dev_days = self.date_std_dev
-            random_ordinal = int(np.random.normal(mean_ordinal, std_dev_days))
-            random_ordinal = np.clip(random_ordinal, self.date_min.toordinal(), self.date_max.toordinal())
-            return date.fromordinal(random_ordinal)
-        else:
-            raise ValueError("Unsupported distribution type")
-
-    def _generate_timedelta_value(self):
-        if self.distribution_type == 'uniform':
-            random_days = np.random.randint(self.timedelta_days_min, self.timedelta_days_max + 1)
-            
-            
-        elif self.distribution_type == 'normal':
-            random_days = int(np.random.normal(self.timedelta_days_mean, self.timedelta_days_std_dev))
-            random_days = np.clip(random_days, self.timedelta_days_min, self.timedelta_days_max)
-            
-        else:
-            raise ValueError("Unsupported distribution type")
-        
-        current_date = date.today()
-        generated_date = current_date - timedelta(days=random_days)
-        print(generated_date)
-        return(generated_date)
-        
-# Example Usage
-# Numeric distribution for age
-# age_distribution = NumericValueDistribution.objects.create(
-#     name='Age Distribution',
-#     distribution_type='normal',
-#     min_value=0,
-#     max_value=100,
-#     mean=50,
-#     std_dev=15
-# )
-
-# # Single categorical distribution for gender
-# gender_distribution = SingleCategoricalValueDistribution.objects.create(
-#     name='Gender Distribution',
-#     categories={'male': 0.5, 'female': 0.5}
-# )
-
-# # Multiple categorical distribution for symptoms
-# symptoms_distribution = MultipleCategoricalValueDistribution.objects.create(
-#     name='Symptoms Distribution',
-#     categories={'fever': 0.3, 'cough': 0.4, 'fatigue': 0.2, 'nausea': 0.1},
-#     min_count=1,
-#     max_count=3,
-#     count_distribution_type='normal',
-#     count_mean=2,
-#     count_std_dev=0.5
-# )
+from django.db import models
+import numpy as np
+from scipy.stats import skewnorm
+
+class BaseValueDistribution(models.Model):
+    """
+    Abstract base class for value distributions.
+    """
+    name = models.CharField(max_length=100)
+
+    class Meta:
+        abstract = True
+
+    def generate_value(self):
+        """
+        Generate a value based on the distribution rules.
+        Must be implemented by subclasses.
+        """
+        raise NotImplementedError("Subclasses must implement this method")
+    
+    def natural_key(self):
+        return (self.name,)
+
+class NumericValueDistributionManager(models.Manager):
+    def get_by_natural_key(self, name):
+        return self.get(name=name)
+
+class NumericValueDistribution(BaseValueDistribution):
+    """
+    Numeric value distribution model.
+    Supports uniform, normal, and skewed normal distributions with hard limits.
+    """
+    objects = NumericValueDistributionManager()
+    DISTRIBUTION_CHOICES = [
+        ('uniform', 'Uniform'),
+        ('normal', 'Normal'),
+        ('skewed_normal', 'Skewed Normal'),
+    ]
+
+    distribution_type = models.CharField(max_length=20, choices=DISTRIBUTION_CHOICES)
+    min_value = models.FloatField()
+    max_value = models.FloatField()
+    mean = models.FloatField(null=True, blank=True)
+    std_dev = models.FloatField(null=True, blank=True)
+    skewness = models.FloatField(null=True, blank=True)
+
+    def generate_value(self):
+        if self.distribution_type == 'uniform':
+            return np.random.uniform(self.min_value, self.max_value)
+        elif self.distribution_type == 'normal':
+            value = np.random.normal(self.mean, self.std_dev)
+            return np.clip(value, self.min_value, self.max_value)
+        elif self.distribution_type == 'skewed_normal':
+            value = skewnorm.rvs(a=self.skewness, loc=self.mean, scale=self.std_dev)
+            return np.clip(value, self.min_value, self.max_value)
+        else:
+            raise ValueError("Unsupported distribution type")
+        
+    
+class SingleCategoricalValueDistributionManager(models.Manager):
+    def get_by_natural_key(self, name):
+        return self.get(name=name)
+
+class SingleCategoricalValueDistribution(BaseValueDistribution):
+    """
+    Single categorical value distribution model.
+    Assigns a single value based on specified probabilities.
+    """
+    objects = SingleCategoricalValueDistributionManager()
+    categories = models.JSONField()  # { "category": "probability", ... }
+
+    def generate_value(self):
+        categories, probabilities = zip(*self.categories.items())
+        return np.random.choice(categories, p=probabilities)
+    
+
+class MultipleCategoricalValueDistributionManager(models.Manager):
+    def get_by_natural_key(self, name):
+        return self.get(name=name)
+
+class MultipleCategoricalValueDistribution(BaseValueDistribution):
+    """
+    Multiple categorical value distribution model.
+    Assigns a specific number or varying number of values based on probabilities.
+    """
+    objects = MultipleCategoricalValueDistributionManager()
+    categories = models.JSONField()  # { "category": "probability", ... }
+    min_count = models.IntegerField()
+    max_count = models.IntegerField()
+    count_distribution_type = models.CharField(max_length=20, choices=[('uniform', 'Uniform'), ('normal', 'Normal')])
+    count_mean = models.FloatField(null=True, blank=True)
+    count_std_dev = models.FloatField(null=True, blank=True)
+
+    def generate_value(self):
+        if self.count_distribution_type == 'uniform':
+            count = np.random.randint(self.min_count, self.max_count + 1)
+        elif self.count_distribution_type == 'normal':
+            count = int(np.random.normal(self.count_mean, self.count_std_dev))
+            count = np.clip(count, self.min_count, self.max_count)
+        else:
+            raise ValueError("Unsupported count distribution type")
+
+        categories, probabilities = zip(*self.categories.items())
+        return list(np.random.choice(categories, size=count, p=probabilities))
+
+
+class DateValueDistributionManager(models.Manager):
+    def get_by_natural_key(self, name):
+        return self.get(name=name)
+
+from datetime import date, timedelta
+class DateValueDistribution(BaseValueDistribution):
+    """
+    Assign date values based on specified distribution.
+    Expects distribution_type (uniform, normal) and mode (date, timedelta) and based on this either
+    date_min, date_max, date_mean, date_std_dev or
+    timedelta_days_min, timedelta_days_max, timedelta_days_mean, timedelta_days_std_dev
+    """
+    objects = DateValueDistributionManager()
+    name = models.CharField(max_length=100)
+    name_de = models.CharField(max_length=100, blank=True, null=True)
+    name_en = models.CharField(max_length=100, blank=True, null=True)
+    description = models.TextField(blank=True, null=True)
+    DISTRIBUTION_CHOICES = [
+        ('uniform', 'Uniform'),
+        ('normal', 'Normal'),
+    ]
+    MODE_CHOICES = [
+        ('date', 'Date'),
+        ('timedelta', 'Timedelta'),
+    ]
+
+    distribution_type = models.CharField(max_length=20, choices=DISTRIBUTION_CHOICES)
+    mode = models.CharField(max_length=20, choices=MODE_CHOICES)
+
+    # Date-related fields
+    date_min = models.DateField(blank=True, null=True)
+    date_max = models.DateField(blank=True, null=True)
+    date_mean = models.DateField(blank=True, null=True)
+    date_std_dev = models.IntegerField(blank=True, null=True)  # Standard deviation in days
+
+    # Timedelta-related fields
+    timedelta_days_min = models.IntegerField(blank=True, null=True)
+    timedelta_days_max = models.IntegerField(blank=True, null=True)
+    timedelta_days_mean = models.IntegerField(blank=True, null=True)
+    timedelta_days_std_dev = models.IntegerField(blank=True, null=True)
+
+    def generate_value(self):
+        if self.mode == 'date':
+            return self._generate_date_value()
+        elif self.mode == 'timedelta':
+            return self._generate_timedelta_value()
+        else:
+            raise ValueError("Unsupported mode")
+
+    def _generate_date_value(self):
+        #UNTESTED
+        if self.distribution_type == 'uniform':
+            start_date = self.date_min.toordinal()
+            end_date = self.date_max.toordinal()
+            random_ordinal = np.random.randint(start_date, end_date)
+            return date.fromordinal(random_ordinal)
+        elif self.distribution_type == 'normal':
+            mean_ordinal = self.date_mean.toordinal()
+            std_dev_days = self.date_std_dev
+            random_ordinal = int(np.random.normal(mean_ordinal, std_dev_days))
+            random_ordinal = np.clip(random_ordinal, self.date_min.toordinal(), self.date_max.toordinal())
+            return date.fromordinal(random_ordinal)
+        else:
+            raise ValueError("Unsupported distribution type")
+
+    def _generate_timedelta_value(self):
+        if self.distribution_type == 'uniform':
+            random_days = np.random.randint(self.timedelta_days_min, self.timedelta_days_max + 1)
+            
+            
+        elif self.distribution_type == 'normal':
+            random_days = int(np.random.normal(self.timedelta_days_mean, self.timedelta_days_std_dev))
+            random_days = np.clip(random_days, self.timedelta_days_min, self.timedelta_days_max)
+            
+        else:
+            raise ValueError("Unsupported distribution type")
+        
+        current_date = date.today()
+        generated_date = current_date - timedelta(days=random_days)
+        print(generated_date)
+        return(generated_date)
+        
+# Example Usage
+# Numeric distribution for age
+# age_distribution = NumericValueDistribution.objects.create(
+#     name='Age Distribution',
+#     distribution_type='normal',
+#     min_value=0,
+#     max_value=100,
+#     mean=50,
+#     std_dev=15
+# )
+
+# # Single categorical distribution for gender
+# gender_distribution = SingleCategoricalValueDistribution.objects.create(
+#     name='Gender Distribution',
+#     categories={'male': 0.5, 'female': 0.5}
+# )
+
+# # Multiple categorical distribution for symptoms
+# symptoms_distribution = MultipleCategoricalValueDistribution.objects.create(
+#     name='Symptoms Distribution',
+#     categories={'fever': 0.3, 'cough': 0.4, 'fatigue': 0.2, 'nausea': 0.1},
+#     min_count=1,
+#     max_count=3,
+#     count_distribution_type='normal',
+#     count_mean=2,
+#     count_std_dev=0.5
+# )

endoreg_db/models/other/material.py

@@ -1,16 +1,16 @@
-from django.db import models
-
-class MaterialManager(models.Manager):
-    def get_by_natural_key(self, name):
-        return self.get(name=name)
-
-class Material(models.Model):
-    objects = MaterialManager()
-
-    name = models.CharField(max_length=255)
-    name_de = models.CharField(max_length=255, null=True)
-    name_en = models.CharField(max_length=255, null=True)
-    emission_factor = models.ForeignKey("EmissionFactor", on_delete=models.SET_NULL, null=True)
-
-    def natural_key(self):
-        return (self.name,)
+from django.db import models
+
+class MaterialManager(models.Manager):
+    def get_by_natural_key(self, name):
+        return self.get(name=name)
+
+class Material(models.Model):
+    objects = MaterialManager()
+
+    name = models.CharField(max_length=255)
+    name_de = models.CharField(max_length=255, null=True)
+    name_en = models.CharField(max_length=255, null=True)
+    emission_factor = models.ForeignKey("EmissionFactor", on_delete=models.SET_NULL, null=True)
+
+    def natural_key(self):
+        return (self.name,)

endoreg_db/models/other/resource.py

@@ -1,18 +1,18 @@
-from django.db import models
-
-class ResourceManager(models.Manager):
-    def get_by_natural_key(self, name):
-        return self.get(name=name)
-    
-class Resource(models.Model):
-    objects = ResourceManager()
-
-    name = models.CharField(max_length=255)
-    name_de = models.CharField(max_length=255, null=True)
-    name_en = models.CharField(max_length=255, null=True)
-
-    def natural_key(self):
-        return (self.name,)
-    
-    def __str__(self):
+from django.db import models
+
+class ResourceManager(models.Manager):
+    def get_by_natural_key(self, name):
+        return self.get(name=name)
+    
+class Resource(models.Model):
+    objects = ResourceManager()
+
+    name = models.CharField(max_length=255)
+    name_de = models.CharField(max_length=255, null=True)
+    name_en = models.CharField(max_length=255, null=True)
+
+    def natural_key(self):
+        return (self.name,)
+    
+    def __str__(self):
         return self.name

endoreg_db/models/other/transport_route.py

@@ -1,21 +1,21 @@
-from django.db import models
-
-class TransportRouteManager(models.Manager):
-    def get_by_natural_key(self, name):
-        return self.get(name=name)
-    
-class TransportRoute(models.Model):
-    objects = TransportRouteManager()
-
-    distance = models.FloatField()
-    name = models.CharField(max_length=255)
-    name_de = models.CharField(max_length=255, null=True)
-    name_en = models.CharField(max_length=255, null=True)
-    emission_factor = models.ForeignKey("EmissionFactor", on_delete=models.SET_NULL, null=True)
-    unit = models.ForeignKey("Unit", on_delete=models.SET_NULL, null=True)
-
-    def natural_key(self):
-        return (self.name,)
-    
-    def __str__(self):
+from django.db import models
+
+class TransportRouteManager(models.Manager):
+    def get_by_natural_key(self, name):
+        return self.get(name=name)
+    
+class TransportRoute(models.Model):
+    objects = TransportRouteManager()
+
+    distance = models.FloatField()
+    name = models.CharField(max_length=255)
+    name_de = models.CharField(max_length=255, null=True)
+    name_en = models.CharField(max_length=255, null=True)
+    emission_factor = models.ForeignKey("EmissionFactor", on_delete=models.SET_NULL, null=True)
+    unit = models.ForeignKey("Unit", on_delete=models.SET_NULL, null=True)
+
+    def natural_key(self):
+        return (self.name,)
+    
+    def __str__(self):
         return self.name

endoreg_db/models/other/waste.py

@@ -1,20 +1,20 @@
-from django.db import models
-
-class WasteManager(models.Manager):
-    def get_by_natural_key(self, name):
-        return self.get(name=name)
-    
-class Waste(models.Model):
-    objects = WasteManager()
-
-    name = models.CharField(max_length=255)
-    name_de = models.CharField(max_length=255, null=True)
-    name_en = models.CharField(max_length=255, null=True)
-    # emission_factor = models.ForeignKey("EmissionFactor", on_delete=models.SET_NULL, null=True)
-    
-    def natural_key(self):
-        return (self.name,)
-    
-    def __str__(self):
-        return self.name
-    
+from django.db import models
+
+class WasteManager(models.Manager):
+    def get_by_natural_key(self, name):
+        return self.get(name=name)
+    
+class Waste(models.Model):
+    objects = WasteManager()
+
+    name = models.CharField(max_length=255)
+    name_de = models.CharField(max_length=255, null=True)
+    name_en = models.CharField(max_length=255, null=True)
+    # emission_factor = models.ForeignKey("EmissionFactor", on_delete=models.SET_NULL, null=True)
+    
+    def natural_key(self):
+        return (self.name,)
+    
+    def __str__(self):
+        return self.name
+    

endoreg_db/models/patient_examination/__init__.py

@@ -1,35 +1,35 @@
-from django.db import models
-
-# Serializer located in serializers/examination.py
-class PatientExamination(models.Model):
-    patient = models.ForeignKey('Patient', on_delete=models.CASCADE, related_name='patient_examinations')
-    examination = models.ForeignKey('Examination', on_delete=models.CASCADE, null = True, blank = True)
-    video = models.OneToOneField('Video', on_delete=models.CASCADE, null = True, blank = True, related_name='patient_examination')
-    report_file = models.OneToOneField('ReportFile', on_delete=models.CASCADE, null = True, blank = True, related_name='patient_examination')
-
-    class Meta:
-        verbose_name = 'Patient Examination'
-        verbose_name_plural = 'Patient Examinations'
-        ordering = ['patient', 'examination']
-
-    def __str__(self):
-        return f"{self.patient} - {self.report_file}"
-    
-    def find_matching_video_from_patient(self):
-        """
-        Finds a video for this patient examination based on the patient's videos.
-        For this, the videos date must be the same as the report file's date.
-        #TODO add more criteria for matching: Examination type
-        """
-        videos = self.patient.video_set.filter(date=self.report_file.date, patient_examination__isnull=True)
-        if videos:
-            if len(videos) > 1:
-                print(f"Warning: Found more than one video for patient {self.patient} on date {self.report_file.date}. Choosing the first one.")
-            return videos[0]
-        else:
-            videos = self.patient.video_set.filter(patient_examination__isnull=True)
-            if len(videos)==1:
-                return videos[0]
-            
-        return None
-
+from django.db import models
+
+# Serializer located in serializers/examination.py
+class PatientExamination(models.Model):
+    patient = models.ForeignKey('Patient', on_delete=models.CASCADE, related_name='patient_examinations')
+    examination = models.ForeignKey('Examination', on_delete=models.CASCADE, null = True, blank = True)
+    video = models.OneToOneField('Video', on_delete=models.CASCADE, null = True, blank = True, related_name='patient_examination')
+    report_file = models.OneToOneField('ReportFile', on_delete=models.CASCADE, null = True, blank = True, related_name='patient_examination')
+
+    class Meta:
+        verbose_name = 'Patient Examination'
+        verbose_name_plural = 'Patient Examinations'
+        ordering = ['patient', 'examination']
+
+    def __str__(self):
+        return f"{self.patient} - {self.report_file}"
+    
+    def find_matching_video_from_patient(self):
+        """
+        Finds a video for this patient examination based on the patient's videos.
+        For this, the videos date must be the same as the report file's date.
+        #TODO add more criteria for matching: Examination type
+        """
+        videos = self.patient.video_set.filter(date=self.report_file.date, patient_examination__isnull=True)
+        if videos:
+            if len(videos) > 1:
+                print(f"Warning: Found more than one video for patient {self.patient} on date {self.report_file.date}. Choosing the first one.")
+            return videos[0]
+        else:
+            videos = self.patient.video_set.filter(patient_examination__isnull=True)
+            if len(videos)==1:
+                return videos[0]
+            
+        return None
+