mets cols

Author: gkennos

CHANGELOG.md

@@ -69,4 +69,7 @@
 - simplified ep naming
 
 ## 0.2.15
-- fix label name
+- fix label name
+
+## 0.2.16
+- mets col adapt

pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "omop-constructs"
-version = "0.2.15"
+version = "0.2.16"
 description = "For building complex constructs on top of the omop-alchemy library."
 readme = "README.md"
 authors = [

src/omop_constructs/alchemy/modifiers/__init__.py

@@ -5,7 +5,8 @@
     GroupStageMV, 
     GradeModifierMV, 
     LateralityModifierMV, 
-    SizeModifierMV
+    SizeModifierMV,
+    MetastaticDiseaseModifierMV
 )
 from .condition_modifier_mv import ModifiedCondition
 
@@ -18,4 +19,5 @@
     "LateralityModifierMV",
     "SizeModifierMV",
     "ModifiedCondition",
+    "MetastaticDiseaseModifierMV"
 ]

src/omop_constructs/alchemy/modifiers/condition_modifier_join.py

@@ -13,6 +13,7 @@
     GradeModifierMV,
     SizeModifierMV,
     LateralityModifierMV,
+    MetastaticDiseaseModifierMV
 )
 
 condition_concept = so.aliased(Concept, name='condition_concept')
@@ -45,14 +46,20 @@
     	GroupStageMV.stage_label.label('group_stage_label'),
         GradeModifierMV.measurement_id.label('grade_id'),
     	GradeModifierMV.measurement_date.label('grade_date'),
+    	GradeModifierMV.measurement_concept_id.label('grade_concept_id'),
     	GradeModifierMV.concept_name.label('grade_concept'),
     	SizeModifierMV.measurement_id.label('size_id'),
     	SizeModifierMV.measurement_date.label('size_date'),
-    	SizeModifierMV.value_as_number.label('size_value'),
     	SizeModifierMV.concept_name.label('size_concept'),
+    	SizeModifierMV.value_as_number.label('size_value'),
+    	SizeModifierMV.unit_concept_id.label('unit_concept_id'),
     	LateralityModifierMV.measurement_id.label('laterality_id'),
     	LateralityModifierMV.measurement_date.label('laterality_date'),
     	LateralityModifierMV.concept_name.label('laterality_concept'),
+    	MetastaticDiseaseModifierMV.measurement_id.label('metastatic_disease_id'),
+    	MetastaticDiseaseModifierMV.measurement_date.label('metastatic_disease_date'),
+    	MetastaticDiseaseModifierMV.measurement_concept_id.label('metastatic_disease_concept_id'),
+    	MetastaticDiseaseModifierMV.concept_name.label('metastatic_disease_concept'),
     )
     .join(
         Episode_Event, 

src/omop_constructs/alchemy/modifiers/modifier_mappers.py

@@ -112,3 +112,4 @@ class MetastaticDiseaseModifierMV(MeasModCols, MaterializedViewMixin, Base):
     __deps__ = ()
     __tablename__ = __mv_name__
     value_as_concept_id = sa.Column(sa.Integer)
+    measurement_concept_id = sa.Column(sa.Integer)