endoreg-db 0.6.0__py3-none-any.whl → 0.6.2__py3-none-any.whl

endoreg_db/management/commands/load_examination_data.py

@@ -0,0 +1,75 @@
+from django.conf import settings
+from django.core.management.base import BaseCommand
+from ...models import (
+    Examination,
+    ExaminationType,  # Replace 'your_app_name' with the actual app name
+    ExaminationTime,
+    ExaminationTimeType,
+)
+import os
+from ...utils import load_model_data_from_yaml
+from ...data import EXAMINATION_DATA_DIR
+
+SOURCE_DIR = EXAMINATION_DATA_DIR 
+
+IMPORT_MODELS = [ # string as model key, serves as key in IMPORT_METADATA
+    "ExaminationType",
+    "Examination",
+    "ExaminationTimeType",
+    "ExaminationTime"
+]
+
+IMPORT_METADATA = {
+    # "": { # same as model name in "import models", e.g. "Intervention"
+    #     "subdir": os.path.join(SOURCE_DIR,""), # e.g. "interventions"
+    #     "model": None, # e.g. Intervention
+    #     "foreign_keys": [], # e.g. ["intervention_types"]
+    #     "foreign_key_models": [] # e.g. [InterventionType]
+    # },
+    "ExaminationType": {
+        "dir": os.path.join(SOURCE_DIR,"type"), # e.g. "interventions"
+        "model": ExaminationType, # e.g. Intervention
+        "foreign_keys": [], # e.g. ["intervention_types"]
+        "foreign_key_models": [] # e.g. [InterventionType]
+    },
+    "Examination": {
+        "dir": os.path.join(SOURCE_DIR,"examinations"), # e.g. "interventions"
+        "model": Examination, # e.g. Intervention
+        "foreign_keys": ["examination_types"], # e.g. ["intervention_types"]
+        "foreign_key_models": [ExaminationType] # e.g. [InterventionType]
+    },
+    "ExaminationTimeType": {
+        "dir": os.path.join(SOURCE_DIR,"time-type"), # e.g. "interventions"
+        "model": ExaminationTimeType, # e.g. Intervention
+        "foreign_keys": ["examinations"], # e.g. ["intervention_types"]
+        "foreign_key_models": [Examination] # e.g. [InterventionType]
+    },
+    "ExaminationTime": {
+        "dir": os.path.join(SOURCE_DIR,"time"), # e.g. "interventions"
+        "model": ExaminationTime, # e.g. Intervention
+        "foreign_keys": ["time_types"], # e.g. ["intervention_types"]
+        "foreign_key_models": [ExaminationTimeType] # e.g. [InterventionType]
+    },
+}
+
+class Command(BaseCommand):
+    help = """Load all .yaml files in the data/intervention directory
+    into the Intervention and InterventionType model"""
+
+    def add_arguments(self, parser):
+        parser.add_argument(
+            '--verbose',
+            action='store_true',
+            help='Display verbose output',
+        )
+
+    def handle(self, *args, **options):
+        verbose = options['verbose']
+        for model_name in IMPORT_MODELS:
+            _metadata = IMPORT_METADATA[model_name]
+            load_model_data_from_yaml(
+                self,
+                model_name,
+                _metadata,
+                verbose
+            )

endoreg_db/management/commands/load_examination_indication_data.py

@@ -0,0 +1,65 @@
+from django.conf import settings
+from django.core.management.base import BaseCommand
+from ...models import (
+    ExaminationIndicationClassification,
+    ExaminationIndication,  # Replace 'your_app_name' with the actual app name
+    ExaminationIndicationClassificationChoice,
+    Examination,
+)
+import os
+from ...utils import load_model_data_from_yaml
+from ...data import (
+    EXAMINATION_INDICATION_CLASSIFICATION_CHOICE_DATA_DIR,
+    EXAMINATION_INDICATION_CLASSIFICATION_DATA_DIR,
+    EXAMINATION_INDICATION_DATA_DIR,
+)
+
+
+IMPORT_MODELS = [ # string as model key, serves as key in IMPORT_METADATA
+    ExaminationIndicationClassification.__name__,
+    ExaminationIndication.__name__,
+    ExaminationIndicationClassificationChoice.__name__,
+]
+
+IMPORT_METADATA = {
+    ExaminationIndicationClassification.__name__: {
+        "dir": EXAMINATION_INDICATION_CLASSIFICATION_DATA_DIR, # e.g. "interventions"
+        "model": ExaminationIndicationClassification, # e.g. Intervention
+        "foreign_keys": [], # e.g. ["intervention_types"]
+        "foreign_key_models": [] # e.g. [InterventionType]
+    },
+    ExaminationIndication.__name__: {
+        "dir": EXAMINATION_INDICATION_DATA_DIR, # e.g. "interventions"
+        "model": ExaminationIndication, # e.g. Intervention
+        "foreign_keys": ["classification", "examination"], # e.g. ["intervention_types"]
+        "foreign_key_models": [ExaminationIndicationClassification, Examination] # e.g. [InterventionType]
+    },
+    ExaminationIndicationClassificationChoice.__name__: {
+        "dir": EXAMINATION_INDICATION_CLASSIFICATION_CHOICE_DATA_DIR, # e.g. "interventions"
+        "model": ExaminationIndicationClassificationChoice, # e.g. Intervention
+        "foreign_keys": ["classification"], # e.g. ["intervention_types"]
+        "foreign_key_models": [ExaminationIndicationClassification] # e.g. [InterventionType]
+    },
+}
+
+class Command(BaseCommand):
+    help = """Load all .yaml files in the data/intervention directory
+    into the Intervention and InterventionType model"""
+
+    def add_arguments(self, parser):
+        parser.add_argument(
+            '--verbose',
+            action='store_true',
+            help='Display verbose output',
+        )
+
+    def handle(self, *args, **options):
+        verbose = options['verbose']
+        for model_name in IMPORT_MODELS:
+            _metadata = IMPORT_METADATA[model_name]
+            load_model_data_from_yaml(
+                self,
+                model_name,
+                _metadata,
+                verbose
+            )

endoreg_db/management/commands/load_finding_data.py

@@ -0,0 +1,171 @@
+from django.core.management.base import BaseCommand
+from endoreg_db.models import (
+    Finding, FindingType, Examination,
+    FindingLocationClassification, FindingLocationClassificationChoice,
+    Organ,
+    FindingMorphologyClassificationType, FindingMorphologyClassification,
+    FindingMorphologyClassificationChoice,
+    FindingIntervention, FindingInterventionType, LabValue, Contraindication
+
+)
+from ...utils import load_model_data_from_yaml
+from ...data import (
+    FINDING_DATA_DIR, FINDING_TYPE_DATA_DIR,
+    FINDING_LOCATION_CLASSIFICATION_DATA_DIR, 
+    FINDING_LOCATION_CLASSIFICATION_CHOICE_DATA_DIR,
+    FINDING_MORPHOLOGY_CLASSIFICATION_CHOICE_DATA_DIR, 
+    FINDING_MORPHOLOGY_CLASSIFICATION_DATA_DIR,
+    FINDING_MORPGOLOGY_CLASSIFICATION_TYPE_DATA_DIR,
+    FINDING_INTERVETION_DATA_DIR,
+    FINIDNG_INTERVENTION_TYPE_DATA_DIR
+)
+
+MODEL_0 = FindingType
+MODEL_1 = Finding
+MODEL_2 = FindingLocationClassificationChoice
+MODEL_3 = FindingLocationClassification
+MODEL_4 = FindingMorphologyClassificationType
+MODEL_5 = FindingMorphologyClassification
+MODEL_6 = FindingMorphologyClassificationChoice
+MODEL_7 = FindingInterventionType
+MODEL_8 = FindingIntervention
+
+IMPORT_MODELS = [ # string as model key, serves as key in IMPORT_METADATA
+    MODEL_7.__name__,
+    MODEL_8.__name__,
+    MODEL_0.__name__,
+    MODEL_1.__name__,
+    MODEL_2.__name__,
+    MODEL_3.__name__,
+    MODEL_4.__name__,
+    MODEL_5.__name__,
+    MODEL_6.__name__,
+]
+
+IMPORT_METADATA = {
+    MODEL_0.__name__: {
+        "dir": FINDING_TYPE_DATA_DIR, # e.g. "interventions"
+        "model": MODEL_0, # e.g. Intervention
+        "foreign_keys": [], # e.g. ["intervention_types"]
+        "foreign_key_models": [] # e.g. [InterventionType]
+    },
+    Finding.__name__: {
+        "dir": FINDING_DATA_DIR, # e.g. "interventions"
+        "model": MODEL_1, # e.g. Intervention
+        "foreign_keys": [
+            "finding_types",
+            "examinations",
+            "finding_interventions",
+            "causing_finding_interventions",
+            "opt_causing_finding_interventions",
+        ], # e.g. ["intervention_types"]
+        "foreign_key_models": [
+            FindingType,
+            Examination,
+            FindingIntervention,
+            FindingIntervention,
+            FindingIntervention,
+        ] # e.g. [InterventionType]
+    },
+    MODEL_2.__name__: {
+        "dir": FINDING_LOCATION_CLASSIFICATION_CHOICE_DATA_DIR, # e.g. "interventions"
+        "model": MODEL_2, # e.g. Intervention
+        "foreign_keys": [
+            "organs"
+        ], # e.g. ["intervention_types"]
+        "foreign_key_models": [
+            Organ
+        ] # e.g. [InterventionType]
+    },
+    MODEL_3.__name__: {
+        "dir": FINDING_LOCATION_CLASSIFICATION_DATA_DIR, # e.g. "interventions"
+        "model": MODEL_3, # e.g. Intervention
+        "foreign_keys": [
+            "examinations",
+            "finding_types",
+            "findings",
+            "choices"
+        ], # e.g. ["intervention_types"]
+        "foreign_key_models": [
+            Examination,
+            FindingType,
+            Finding,
+            FindingLocationClassificationChoice
+        ] # e.g. [InterventionType]
+    },
+    MODEL_4.__name__: {
+        "dir": FINDING_MORPGOLOGY_CLASSIFICATION_TYPE_DATA_DIR, # e.g. "interventions"
+        "model": MODEL_4, # e.g. Intervention
+        "foreign_keys": [
+            "required_by_findings",
+            "optional_for_findings"
+        ], # e.g. ["intervention_types"]
+        "foreign_key_models": [
+            Finding,
+            Finding
+        ] # e.g. [InterventionType]
+    },
+
+    MODEL_5.__name__: {
+        "dir": FINDING_MORPHOLOGY_CLASSIFICATION_DATA_DIR, # e.g. "interventions"
+        "model": MODEL_5, # e.g. Intervention
+        "foreign_keys": [
+            "classification_type",
+        ],
+        "foreign_key_models": [
+            FindingMorphologyClassificationType,
+        ] 
+    },
+    MODEL_6.__name__: {
+        "dir": FINDING_MORPHOLOGY_CLASSIFICATION_CHOICE_DATA_DIR, # e.g. "interventions"
+        "model": MODEL_6, # e.g. Intervention
+        "foreign_keys": [
+            "classification",
+        ],
+        "foreign_key_models": [
+            FindingMorphologyClassification,
+        ] 
+    },
+    FindingInterventionType.__name__: {
+        "dir": FINIDNG_INTERVENTION_TYPE_DATA_DIR, # e.g. "interventions"
+        "model": FindingInterventionType, # e.g. Intervention
+        "foreign_keys": [], # e.g. ["intervention_types"]
+        "foreign_key_models": [] # e.g. [InterventionType]
+    },
+    FindingIntervention.__name__: {
+        "dir": FINDING_INTERVETION_DATA_DIR, # e.g. "interventions"
+        "model": FindingIntervention, # e.g. Intervention
+        "foreign_keys": [
+            "intervention_types",
+            "required_lab_values",
+            "contraindications"
+        ], # e.g. ["intervention_types"]
+        "foreign_key_models": [
+            FindingInterventionType,
+            LabValue,
+            Contraindication
+        ] # e.g. [InterventionType]
+    },
+}
+
+class Command(BaseCommand):
+    help = """Load all .yaml files in the data/intervention directory
+    into the Intervention and InterventionType model"""
+
+    def add_arguments(self, parser):
+        parser.add_argument(
+            '--verbose',
+            action='store_true',
+            help='Display verbose output',
+        )
+
+    def handle(self, *args, **options):
+        verbose = options['verbose']
+        for model_name in IMPORT_MODELS:
+            _metadata = IMPORT_METADATA[model_name]
+            load_model_data_from_yaml(
+                self,
+                model_name,
+                _metadata,
+                verbose
+            )

endoreg_db/management/commands/load_g_play_data.py

@@ -0,0 +1,113 @@
+from django.core.management.base import BaseCommand
+from endoreg_db.models import (
+    CaseTemplateRuleType,
+    CaseTemplateRuleValueType,
+    CaseTemplateRuleValue,
+    CaseTemplateRule,
+    CaseTemplateType,
+    CaseTemplate,
+    SingleCategoricalValueDistribution,
+    NumericValueDistribution,
+    MultipleCategoricalValueDistribution,
+    DateValueDistribution,
+
+    QuizQuestionType,
+    QuizAnswerType,
+    QuizQuestion,
+    QuizAnswer,
+
+    # Other models for ForeignKeys
+    Unit, Center
+)
+from collections import OrderedDict
+
+from ...utils import load_model_data_from_yaml
+from ...data import (
+    CASE_TEMPLATE_RULE_TYPE_DATA_DIR,
+    CASE_TEMPLATE_RULE_DATA_DIR,
+    CASE_TEMPLATE_RULE_VALUE_TYPE_DATA_DIR,
+    CASE_TEMPLATE_RULE_VALUE_DATA_DIR,
+    CASE_TEMPLATE_TYPE_DATA_DIR,
+    CASE_TEMPLATE_DATA_DIR,
+)
+
+IMPORT_METADATA = OrderedDict({
+    CaseTemplateRuleType.__name__: {
+        "dir": CASE_TEMPLATE_RULE_TYPE_DATA_DIR,
+        "model": CaseTemplateRuleType, 
+        "foreign_keys": [], 
+        "foreign_key_models": [] 
+    },
+    CaseTemplateRuleValueType.__name__: {
+        "dir": CASE_TEMPLATE_RULE_VALUE_TYPE_DATA_DIR,
+        "model": CaseTemplateRuleValueType, 
+        "foreign_keys": [], 
+        "foreign_key_models": [] 
+    },
+    CaseTemplateRuleValue.__name__: {
+        "dir": CASE_TEMPLATE_RULE_VALUE_DATA_DIR,
+        "model": CaseTemplateRuleValue, 
+        "foreign_keys": ["value_type"], 
+        "foreign_key_models": [CaseTemplateRuleValueType] 
+    },
+    CaseTemplateRule.__name__: {
+        "dir": CASE_TEMPLATE_RULE_DATA_DIR,
+        "model": CaseTemplateRule, 
+        "foreign_keys": [
+            "rule_type", 
+            # "rule_values",
+            "chained_rules", 
+            "value_type",
+            "single_categorical_value_distribution",
+            "numerical_value_distribution",
+            "multiple_categorical_value_distribution",
+            "date_value_distribution"
+        ], 
+        "foreign_key_models": [
+            CaseTemplateRuleType,
+            # CaseTemplateRuleValue,
+            CaseTemplateRule,
+            CaseTemplateRuleValueType,
+            SingleCategoricalValueDistribution,
+            NumericValueDistribution,
+            MultipleCategoricalValueDistribution,
+            DateValueDistribution
+
+        ] 
+    },
+    CaseTemplateType.__name__: {
+        "dir": CASE_TEMPLATE_TYPE_DATA_DIR,
+        "model": CaseTemplateType, 
+        "foreign_keys": [], 
+        "foreign_key_models": [] 
+    },
+    CaseTemplate.__name__: {
+        "dir": CASE_TEMPLATE_DATA_DIR,
+        "model": CaseTemplate, 
+        "foreign_keys": ["template_type", "rules"], 
+        "foreign_key_models": [CaseTemplateType, CaseTemplateRule] 
+    },
+    
+})
+
+class Command(BaseCommand):
+    help = """Load all .yaml files in the data/intervention directory
+    into the Intervention and InterventionType model"""
+
+    def add_arguments(self, parser):
+        parser.add_argument(
+            '--verbose',
+            action='store_true',
+            help='Display verbose output',
+        )
+
+    def handle(self, *args, **options):
+        verbose = options['verbose']
+        for model_name in IMPORT_METADATA.keys():
+            _metadata = IMPORT_METADATA[model_name]
+            load_model_data_from_yaml(
+                self,
+                model_name,
+                _metadata,
+                verbose
+            )

endoreg_db/management/commands/load_gender_data.py

@@ -0,0 +1,44 @@
+from django.core.management.base import BaseCommand
+from endoreg_db.models import (
+    Gender,
+
+    # Other models for ForeignKeys
+    Unit, Center
+)
+from collections import OrderedDict
+
+from ...utils import load_model_data_from_yaml
+from ...data import (
+    GENDER_DATA_DIR,
+)
+
+IMPORT_METADATA = OrderedDict({
+    Gender.__name__: {
+        "dir": GENDER_DATA_DIR,
+        "model": Gender, 
+        "foreign_keys": [], 
+        "foreign_key_models": [] 
+    },    
+})
+
+class Command(BaseCommand):
+    help = """Load all .yaml files in the data/intervention directory
+    into the Intervention and InterventionType model"""
+
+    def add_arguments(self, parser):
+        parser.add_argument(
+            '--verbose',
+            action='store_true',
+            help='Display verbose output',
+        )
+
+    def handle(self, *args, **options):
+        verbose = options['verbose']
+        for model_name in IMPORT_METADATA.keys():
+            _metadata = IMPORT_METADATA[model_name]
+            load_model_data_from_yaml(
+                self,
+                model_name,
+                _metadata,
+                verbose
+            )

endoreg_db/management/commands/load_green_endoscopy_wuerzburg_data.py

@@ -0,0 +1,133 @@
+from django.core.management.base import BaseCommand
+from endoreg_db.models import (
+    EmissionFactor,
+    Resource,
+    Waste,
+    Material,
+    Product,
+    ProductGroup,
+    ReferenceProduct,
+    ProductGroup,
+    TransportRoute,
+    CenterWaste,
+    CenterResource,
+    ProductMaterial,
+    ProductWeight,
+
+    # Other models for ForeignKeys
+    Unit, Center
+)
+from collections import OrderedDict
+
+from ...utils import load_model_data_from_yaml
+from ...data import (
+    EMISSION_FACTOR_DATA_DIR,
+    RESOURCE_DATA_DIR,
+    WASTE_DATA_DIR,
+    MATERIAL_DATA_DIR,
+    PRODUCT_DATA_DIR,
+    PRODUCT_GROUP_DATA_DIR,
+    REFERENCE_PRODUCT_DATA_DIR,
+    TRANSPORT_ROUTE_DATA_DIR,
+    CENTER_WASTE_DATA_DIR,
+    CENTER_RESOURCE_DATA_DIR,
+    PRODUCT_MATERIAL_DATA_DIR,
+    PRODUCT_WEIGHT_DATA_DIR,
+)
+
+IMPORT_METADATA = OrderedDict({
+    EmissionFactor.__name__: {
+        "dir": EMISSION_FACTOR_DATA_DIR,
+        "model": EmissionFactor, 
+        "foreign_keys": ["unit"], 
+        "foreign_key_models": [Unit] 
+    },
+    Resource.__name__: {
+        "dir": RESOURCE_DATA_DIR,
+        "model": Resource,
+        "foreign_keys": [],
+        "foreign_key_models": []
+    },
+    Waste.__name__: {
+        "dir": WASTE_DATA_DIR,
+        "model": Waste,
+        "foreign_keys": [],
+        "foreign_key_models": []
+    },
+    Material.__name__: {
+        "dir": MATERIAL_DATA_DIR,
+        "model": Material,
+        "foreign_keys": ["emission_factor"],
+        "foreign_key_models": [EmissionFactor]
+    },
+    ProductGroup.__name__: {
+        "dir": PRODUCT_GROUP_DATA_DIR,
+        "model": ProductGroup,
+        "foreign_keys": [],
+        "foreign_key_models": []
+    },
+    TransportRoute.__name__: {
+        "dir": TRANSPORT_ROUTE_DATA_DIR,
+        "model": TransportRoute,
+        "foreign_keys": ["emission_factor", "unit"],
+        "foreign_key_models": [EmissionFactor, Unit]
+    },
+    Product.__name__: {
+        "dir": PRODUCT_DATA_DIR,
+        "model": Product,
+        "foreign_keys": ["product_group", "transport_route"],
+        "foreign_key_models": [ProductGroup, TransportRoute]
+    },
+    ReferenceProduct.__name__: {
+        "dir": REFERENCE_PRODUCT_DATA_DIR,
+        "model": ReferenceProduct,
+        "foreign_keys": ["product","product_group"],
+        "foreign_key_models": [Product,ProductGroup]
+    },
+    CenterWaste.__name__: {
+        "dir": CENTER_WASTE_DATA_DIR,
+        "model": CenterWaste,
+        "foreign_keys": ["waste", "center", "unit", "emission_factor"],
+        "foreign_key_models": [Waste, Center, Unit, EmissionFactor]
+    },
+    CenterResource.__name__: {
+        "dir": CENTER_RESOURCE_DATA_DIR,
+        "model": CenterResource,
+        "foreign_keys": ["center","resource", "unit", "transport_emission_factor", "use_emission_factor"],
+        "foreign_key_models": [Center,Resource, Unit, EmissionFactor, EmissionFactor]
+    },
+    ProductMaterial.__name__: {
+        "dir": PRODUCT_MATERIAL_DATA_DIR,
+        "model": ProductMaterial,
+        "foreign_keys": ["product", "material", "unit"],
+        "foreign_key_models": [Product, Material, Unit]
+    },
+    ProductWeight.__name__: {
+        "dir": PRODUCT_WEIGHT_DATA_DIR,
+        "model": ProductWeight,
+        "foreign_keys": ["product", "unit"],
+        "foreign_key_models": [Product, Unit]
+    }
+})
+
+class Command(BaseCommand):
+    help = """Load all .yaml files in the data/intervention directory
+    into the Intervention and InterventionType model"""
+
+    def add_arguments(self, parser):
+        parser.add_argument(
+            '--verbose',
+            action='store_true',
+            help='Display verbose output',
+        )
+
+    def handle(self, *args, **options):
+        verbose = options['verbose']
+        for model_name in IMPORT_METADATA.keys():
+            _metadata = IMPORT_METADATA[model_name]
+            load_model_data_from_yaml(
+                self,
+                model_name,
+                _metadata,
+                verbose
+            )

endoreg_db/management/commands/load_information_source.py

@@ -0,0 +1,45 @@
+from django.conf import settings
+import os
+from django.core.management.base import BaseCommand
+from ...models import InformationSource
+from ...utils import load_model_data_from_yaml
+from ...data import INFORMATION_DATA_DIR
+
+SOURCE_DIR = INFORMATION_DATA_DIR # e.g. settings.DATA_DIR_INTERVENTION
+
+MODEL_0 = InformationSource
+
+IMPORT_MODELS = [ # string as model key, serves as key in IMPORT_METADATA
+    MODEL_0.__name__,
+]
+
+IMPORT_METADATA = {
+    MODEL_0.__name__: {
+        "dir": SOURCE_DIR, # e.g. "interventions"
+        "model": MODEL_0, # e.g. Intervention
+        "foreign_keys": [], # e.g. ["intervention_types"]
+        "foreign_key_models": [] # e.g. [InterventionType]
+    }
+}
+
+class Command(BaseCommand):
+    help = """Load all .yaml files in the data/intervention directory
+    into the Intervention and InterventionType model"""
+
+    def add_arguments(self, parser):
+        parser.add_argument(
+            '--verbose',
+            action='store_true',
+            help='Display verbose output',
+        )
+
+    def handle(self, *args, **options):
+        verbose = options['verbose']
+        for model_name in IMPORT_MODELS:
+            _metadata = IMPORT_METADATA[model_name]
+            load_model_data_from_yaml(
+                self,
+                model_name,
+                _metadata,
+                verbose
+            )