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refactor: clean up code formatting and remove unnecessary newlines #204

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Feb 3, 2025
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refactor: clean up code formatting and remove unnecessary newlines #204

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82 changes: 41 additions & 41 deletions src/pyomop/cdm6_tables.py
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Original file line number Diff line number Diff line change
Expand Up @@ -26,7 +26,7 @@


class AttributeDefinition(Base):
__tablename__ = 'attribute_definition'
__tablename__ = "attribute_definition"

# _id = Column(Integer, primary_key=True)
attribute_definition_id = Column(Integer, primary_key=True)
Expand All @@ -37,7 +37,7 @@ class AttributeDefinition(Base):


class CareSite(Base):
__tablename__ = 'care_site'
__tablename__ = "care_site"

# _id = Column(Integer, primary_key=True)
care_site_id = Column(Integer, primary_key=True)
Expand All @@ -49,7 +49,7 @@ class CareSite(Base):


class CdmSource(Base):
__tablename__ = 'cdm_source'
__tablename__ = "cdm_source"

# _id = Column(Integer, primary_key=True)
cdm_source_name = Column(String(255), primary_key=True)
Expand All @@ -65,7 +65,7 @@ class CdmSource(Base):


class Cohort(Base):
__tablename__ = 'cohort'
__tablename__ = "cohort"

_id = Column(Integer, primary_key=True)
cohort_definition_id = Column(Integer, nullable=False)
Expand All @@ -75,7 +75,7 @@ class Cohort(Base):


class CohortAttribute(Base):
__tablename__ = 'cohort_attribute'
__tablename__ = "cohort_attribute"

_id = Column(Integer, primary_key=True)
cohort_definition_id = Column(Integer, nullable=False)
Expand All @@ -88,7 +88,7 @@ class CohortAttribute(Base):


class CohortDefinition(Base):
__tablename__ = 'cohort_definition'
__tablename__ = "cohort_definition"

# _id = Column(Integer, primary_key=True)
cohort_definition_id = Column(Integer, primary_key=True)
Expand All @@ -101,7 +101,7 @@ class CohortDefinition(Base):


class Concept(Base):
__tablename__ = 'concept'
__tablename__ = "concept"

# _id = Column(Integer, primary_key=True)
concept_id = Column(Integer, primary_key=True)
Expand All @@ -117,7 +117,7 @@ class Concept(Base):


class ConceptAncestor(Base):
__tablename__ = 'concept_ancestor'
__tablename__ = "concept_ancestor"

_id = Column(Integer, primary_key=True)
ancestor_concept_id = Column(Integer, nullable=False)
Expand All @@ -127,7 +127,7 @@ class ConceptAncestor(Base):


class ConceptClass(Base):
__tablename__ = 'concept_class'
__tablename__ = "concept_class"

# _id = Column(Integer, primary_key=True)
concept_class_id = Column(String(20), primary_key=True)
Expand All @@ -136,7 +136,7 @@ class ConceptClass(Base):


class ConceptRelationship(Base):
__tablename__ = 'concept_relationship'
__tablename__ = "concept_relationship"

_id = Column(Integer, primary_key=True)
concept_id_1 = Column(Integer, nullable=False)
Expand All @@ -148,7 +148,7 @@ class ConceptRelationship(Base):


class ConceptSynonym(Base):
__tablename__ = 'concept_synonym'
__tablename__ = "concept_synonym"

_id = Column(Integer, primary_key=True)
concept_id = Column(Integer, nullable=False)
Expand All @@ -157,7 +157,7 @@ class ConceptSynonym(Base):


class ConditionEra(Base):
__tablename__ = 'condition_era'
__tablename__ = "condition_era"

# _id = Column(Integer, primary_key=True)
condition_era_id = Column(Integer, primary_key=True)
Expand All @@ -169,7 +169,7 @@ class ConditionEra(Base):


class ConditionOccurrence(Base):
__tablename__ = 'condition_occurrence'
__tablename__ = "condition_occurrence"

# _id = Column(Integer, primary_key=True)
condition_occurrence_id = Column(Integer, primary_key=True)
Expand All @@ -186,7 +186,7 @@ class ConditionOccurrence(Base):


class Death(Base):
__tablename__ = 'death'
__tablename__ = "death"

_id = Column(Integer, primary_key=True)
person_id = Column(Integer, nullable=False)
Expand All @@ -198,7 +198,7 @@ class Death(Base):


class DeviceCost(Base):
__tablename__ = 'device_cost'
__tablename__ = "device_cost"

# _id = Column(Integer, primary_key=True)
device_cost_id = Column(Integer, primary_key=True)
Expand All @@ -215,7 +215,7 @@ class DeviceCost(Base):


class DeviceExposure(Base):
__tablename__ = 'device_exposure'
__tablename__ = "device_exposure"

# _id = Column(Integer, primary_key=True)
device_exposure_id = Column(Integer, primary_key=True)
Expand All @@ -233,7 +233,7 @@ class DeviceExposure(Base):


class Domain(Base):
__tablename__ = 'domain'
__tablename__ = "domain"

# _id = Column(Integer, primary_key=True, nullable=False)
domain_id = Column(String(20), primary_key=True)
Expand All @@ -242,7 +242,7 @@ class Domain(Base):


class DoseEra(Base):
__tablename__ = 'dose_era'
__tablename__ = "dose_era"

# _id = Column(Integer, primary_key=True)
dose_era_id = Column(Integer, primary_key=True)
Expand All @@ -255,7 +255,7 @@ class DoseEra(Base):


class DrugCost(Base):
__tablename__ = 'drug_cost'
__tablename__ = "drug_cost"

# _id = Column(Integer, primary_key=True)
drug_cost_id = Column(Integer, primary_key=True)
Expand All @@ -275,7 +275,7 @@ class DrugCost(Base):


class DrugEra(Base):
__tablename__ = 'drug_era'
__tablename__ = "drug_era"

# _id = Column(Integer, primary_key=True)
drug_era_id = Column(Integer, primary_key=True)
Expand All @@ -288,7 +288,7 @@ class DrugEra(Base):


class DrugExposure(Base):
__tablename__ = 'drug_exposure'
__tablename__ = "drug_exposure"

# _id = Column(Integer, primary_key=True)
drug_exposure_id = Column(Integer, primary_key=True)
Expand All @@ -315,7 +315,7 @@ class DrugExposure(Base):


class DrugStrength(Base):
__tablename__ = 'drug_strength'
__tablename__ = "drug_strength"

# TODO Check this
# _id = Column(Integer, primary_key=True)
Expand All @@ -335,7 +335,7 @@ class DrugStrength(Base):


class FactRelationship(Base):
__tablename__ = 'fact_relationship'
__tablename__ = "fact_relationship"

_id = Column(Integer, primary_key=True)
domain_concept_id_1 = Column(Integer, nullable=False)
Expand All @@ -346,7 +346,7 @@ class FactRelationship(Base):


class Location(Base):
__tablename__ = 'location'
__tablename__ = "location"

# _id = Column(Integer, primary_key=True)
location_id = Column(Integer, primary_key=True)
Expand All @@ -360,7 +360,7 @@ class Location(Base):


class Measurement(Base):
__tablename__ = 'measurement'
__tablename__ = "measurement"

# _id = Column(Integer, primary_key=True)
measurement_id = Column(Integer, primary_key=True)
Expand All @@ -384,7 +384,7 @@ class Measurement(Base):


class Note(Base):
__tablename__ = 'note'
__tablename__ = "note"

# _id = Column(Integer, primary_key=True)
note_id = Column(Integer, primary_key=True)
Expand All @@ -399,7 +399,7 @@ class Note(Base):


class Observation(Base):
__tablename__ = 'observation'
__tablename__ = "observation"

# _id = Column(Integer, primary_key=True)
observation_id = Column(Integer, primary_key=True)
Expand All @@ -422,7 +422,7 @@ class Observation(Base):


class ObservationPeriod(Base):
__tablename__ = 'observation_period'
__tablename__ = "observation_period"

# _id = Column(Integer, primary_key=True)
observation_period_id = Column(Integer, primary_key=True)
Expand All @@ -433,7 +433,7 @@ class ObservationPeriod(Base):


class PayerPlanPeriod(Base):
__tablename__ = 'payer_plan_period'
__tablename__ = "payer_plan_period"

# _id = Column(Integer, primary_key=True)
payer_plan_period_id = Column(Integer, primary_key=True)
Expand All @@ -446,15 +446,15 @@ class PayerPlanPeriod(Base):


class Person(Base):
__tablename__ = 'person'
__tablename__ = "person"

#_id = Column(Integer, primary_key=True)
# _id = Column(Integer, primary_key=True)
person_id = Column(Integer, primary_key=True)
gender_concept_id = Column(Integer, nullable=False)
year_of_birth = Column(Integer, nullable=False)
month_of_birth = Column(Integer)
day_of_birth = Column(Integer)
#time_of_birth = Column(String(10))
# time_of_birth = Column(String(10))
birth_datetime = Column(String(10))
death_datetime = Column(String(10))
race_concept_id = Column(Integer, nullable=False)
Expand All @@ -472,7 +472,7 @@ class Person(Base):


class ProcedureCost(Base):
__tablename__ = 'procedure_cost'
__tablename__ = "procedure_cost"

# _id = Column(Integer, primary_key=True)
procedure_cost_id = Column(Integer, primary_key=True)
Expand All @@ -491,7 +491,7 @@ class ProcedureCost(Base):


class ProcedureOccurrence(Base):
__tablename__ = 'procedure_occurrence'
__tablename__ = "procedure_occurrence"

# _id = Column(Integer, primary_key=True)
procedure_occurrence_id = Column(Integer, primary_key=True)
Expand All @@ -509,7 +509,7 @@ class ProcedureOccurrence(Base):


class Provider(Base):
__tablename__ = 'provider'
__tablename__ = "provider"

# _id = Column(Integer, primary_key=True)
provider_id = Column(Integer, primary_key=True)
Expand All @@ -528,7 +528,7 @@ class Provider(Base):


class Relationship(Base):
__tablename__ = 'relationship'
__tablename__ = "relationship"

# _id = Column(Integer, primary_key=True)
relationship_id = Column(String(20), primary_key=True)
Expand All @@ -540,7 +540,7 @@ class Relationship(Base):


class SourceToConceptMap(Base):
__tablename__ = 'source_to_concept_map'
__tablename__ = "source_to_concept_map"

_id = Column(Integer, primary_key=True)
source_code = Column(String(50), nullable=False)
Expand All @@ -555,7 +555,7 @@ class SourceToConceptMap(Base):


class Speciman(Base):
__tablename__ = 'specimen'
__tablename__ = "specimen"

# _id = Column(Integer, primary_key=True)
specimen_id = Column(Integer, primary_key=True)
Expand All @@ -576,7 +576,7 @@ class Speciman(Base):


class VisitCost(Base):
__tablename__ = 'visit_cost'
__tablename__ = "visit_cost"

# _id = Column(Integer, primary_key=True)
visit_cost_id = Column(Integer, primary_key=True)
Expand All @@ -593,7 +593,7 @@ class VisitCost(Base):


class VisitOccurrence(Base):
__tablename__ = 'visit_occurrence'
__tablename__ = "visit_occurrence"

# _id = Column(Integer, primary_key=True)
visit_occurrence_id = Column(BigInteger, primary_key=True)
Expand All @@ -611,7 +611,7 @@ class VisitOccurrence(Base):


class Vocabulary(Base):
__tablename__ = 'vocabulary'
__tablename__ = "vocabulary"

# _id = Column(Integer, primary_key=True)
vocabulary_id = Column(String(20), primary_key=True)
Expand Down
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