refs/refs/fhir-omop-ig/input/maps/Measurement.fml

 1/// url = 'http://hl7.org/fhir/uv/omop/StructureMap/MeasurementMap'
 2/// name = 'MeasurementMap'
 3/// title = 'Mapping Observation resource to Measurement  OMOP Domain'
 4/// status = 'draft'
 5/// description = "This mapping maps FHIR Observation instances that are considered measurements to OMOP Measurement Table objects.  Currently, this is done by considering the category code and mapping 'vital-signs' and 'laboratory' Observations."
 6
 7uses "http://hl7.org/fhir/StructureDefinition/Observation" alias Observation as source
 8uses "http://hl7.org/fhir/uv/omop/StructureDefinition/Measurement" alias MeasureTable as target
 9
10group Measures(source src : Observation, target tgt : MeasureTable) {
11    src where ('vital-signs' | 'laboratory' ).supersetOf(Observation.category.coding.code) then { 
12        //src.id as id -> tgt.measurement_id = cast(id, "integer");
13        src.code as s -> tgt then {
14            s.coding as sc -> tgt then {
15                sc.code as a -> tgt.measurement_concept_id = a;
16            };
17        };
18        //src.subject as s -> tgt then {
19		//s.identifier as sid -> tgt then {
20		//	sid.value as a -> tgt.person_id = a;
21		//};
22		//};
23        //src.encounter as s -> tgt then {
24		//    s.identifier as sid -> tgt then {
25		//    	sid.value as b -> tgt.visit_occurrence_id = b;
26		//};
27		//};
28        src.effective : dateTime as edt -> tgt.measurement_datetime = edt, tgt.measurement_date = cast(edt, "date");
29        src.effective : instant as einst -> tgt.measurement_datetime = cast(einst, "dateTime"), tgt.measurement_date = cast(einst, "date");
30        src.effective : Period as s -> tgt then {
31            s.start as eps -> tgt.measurement_datetime = cast(eps, "dateTime"), tgt.measurement_date = cast(eps, "date");
32        };
33    src.issued  as s where (src.issued.toDate != src.effectiveDateTime) -> tgt.measurement_source_value = cast(s, "string");
34        
35    //src.performer as s -> tgt then {
36	//	s.identifier as sid -> tgt then {
37	//		sid.value as b -> tgt.provider_id = b;
38	//	};
39	//};
40    src.value : Quantity as s -> tgt then {
41        s.value as a -> tgt.value_as_number = a;
42        s.unit as b -> tgt.unit_concept_id = b;
43    };
44    src.value : CodeableConcept as s  -> tgt then {
45            s.coding as sc -> tgt then {
46                sc.code as a -> tgt.value_as_concept_id = a;
47            };
48        };
49    src.value : string as b -> tgt.value_source_value = b;
50    src.interpretation as c -> tgt.value_as_concept_id = c;
51    src.note  as d -> tgt.measurement_source_value = d; // complex notes should be in note table
52    } "OnlyMeasures";
53};
54