FHIR IG analytics| Package | hl7.fhir.uv.omop |
| Resource Type | StructureMap |
| Id | StructureMap-AllergyMap.json |
| FHIR Version | R5 |
| Source | https://build.fhir.org/ig/HL7/fhir-omop-ig/StructureMap-AllergyMap.html |
| URL | http://hl7.org/fhir/uv/omop/StructureMap/AllergyMap |
| Version | 1.0.0 |
| Status | draft |
| Date | 2026-04-02T22:51:15+00:00 |
| Name | AllergyMap |
| Title | Mapping Allergy resource to Observation OMOP Domain |
| Realm | uv |
| Authority | hl7 |
| Description | This mapping maps FHIR AllergyIntolerance instances to OMOP Observation Table objects. |
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Note: links and images are rebased to the (stated) source
Generated Narrative: StructureMap AllergyMap
Language: en
/// url = 'http://hl7.org/fhir/uv/omop/StructureMap/AllergyMap' /// name = 'AllergyMap' /// title = 'Mapping Allergy resource to Observation OMOP Domain' /// status = 'draft' uses "http://hl7.org/fhir/StructureDefinition/AllergyIntolerance" alias Allergy as source uses "http://hl7.org/fhir/uv/omop/StructureDefinition/Observation" alias ObservationTable as target group Observation(source src : Allergy, target tgt : ObservationTable) { src.id -> tgt.observation_id = '1'; // OMOP Observation ID would be a map from FHIR ID to an external key src.patient -> tgt.person_id = '1'; // OMOP Person ID would be a map from the FHIR Allergy Patient reference to an external key src.encounter -> tgt.visit_occurrence_id = '1'; // OMOP Visit Occurrence ID would be a map from the FHIR Allergy Encounter reference to an external key src.type as s -> tgt then { s.coding as sc -> tgt then { sc.code as code where (code = 'allergy') then { src.category as category -> tgt.observation_concept_id = translate(category, 'http://hl7.org/fhir/uv/omop/ConceptMap/AllergyType', 'code'); }; src.code as code where (code = 'intolerance') then { src.category as category -> tgt.observation_concept_id = translate(category, 'http://hl7.org/fhir/uv/omop/ConceptMap/IntoleranceType', 'code'); }; }; }; src.code as s -> tgt then { s.coding as sc -> tgt then { sc.code as code -> tgt.value_as_concept_id = translate(code, 'http://hl7.org/fhir/uv/omop/ConceptMap/AllergySubstanceType', 'code'), tgt.value_source_value = code; }; }; src.recordedDate : dateTime as osd -> tgt.observation_date = (src.recordedDate.toString().substring(0, 10)), tgt.observation_datetime = osd; }
FHIR
FHIRsmith{
"resourceType": "StructureMap",
"id": "AllergyMap",
"language": "en",
"text": {
"status": "generated",
"div": "<!-- snip (see above) -->"
},
"extension": [
{
"url": "http://hl7.org/fhir/StructureDefinition/structuredefinition-wg",
"valueCode": "brr"
},
{
"url": "http://hl7.org/fhir/StructureDefinition/structuredefinition-fmm",
"valueInteger": 1,
"_valueInteger": {
"extension": [
{
"url": "http://hl7.org/fhir/StructureDefinition/structuredefinition-conformance-derivedFrom",
"valueCanonical": "http://hl7.org/fhir/uv/omop/ImplementationGuide/hl7.fhir.uv.omop"
}
]
}
},
{
"url": "http://hl7.org/fhir/StructureDefinition/structuredefinition-standards-status",
"valueCode": "informative",
"_valueCode": {
"extension": [
{
"url": "http://hl7.org/fhir/StructureDefinition/structuredefinition-conformance-derivedFrom",
"valueCanonical": "http://hl7.org/fhir/uv/omop/ImplementationGuide/hl7.fhir.uv.omop"
}
]
}
}
],
"url": "http://hl7.org/fhir/uv/omop/StructureMap/AllergyMap",
"version": "1.0.0",
"name": "AllergyMap",
"title": "Mapping Allergy resource to Observation OMOP Domain",
"status": "draft",
"date": "2026-04-02T22:51:15+00:00",
"publisher": "HL7 International / Biomedical Research and Regulation",
"contact": [
{
"name": "HL7 International / Biomedical Research and Regulation",
"telecom": [
{
"system": "url",
"value": "http://www.hl7.org/Special/committees/rcrim"
}
]
}
],
"description": "This mapping maps FHIR AllergyIntolerance instances to OMOP Observation Table objects.",
"jurisdiction": [
{
"coding": [
{
"system": "http://unstats.un.org/unsd/methods/m49/m49.htm",
"code": "001",
"display": "World"
}
]
}
],
"structure": [
{
"url": "http://hl7.org/fhir/StructureDefinition/AllergyIntolerance",
"mode": "source",
"alias": "Allergy"
},
{
"url": "http://hl7.org/fhir/uv/omop/StructureDefinition/Observation",
"mode": "target",
"alias": "ObservationTable"
}
],
"group": [
{
"name": "Observation",
"input": [
{
"name": "src",
"type": "Allergy",
"mode": "source"
},
{
"name": "tgt",
"type": "ObservationTable",
"mode": "target"
}
],
"rule": [
{
"name": "id",
"source": [
{
"context": "src",
"element": "id"
}
],
"target": [
{
"context": "tgt",
"element": "observation_id",
"transform": "copy",
"parameter": [
{
"valueString": "1"
}
]
}
],
"documentation": "OMOP Observation ID would be a map from FHIR ID to an external key"
},
{
"name": "patient",
"source": [
{
"context": "src",
"element": "patient"
}
],
"target": [
{
"context": "tgt",
"element": "person_id",
"transform": "copy",
"parameter": [
{
"valueString": "1"
}
]
}
],
"documentation": "OMOP Person ID would be a map from the FHIR Allergy Patient reference to an external key"
},
{
"name": "encounter",
"source": [
{
"context": "src",
"element": "encounter"
}
],
"target": [
{
"context": "tgt",
"element": "visit_occurrence_id",
"transform": "copy",
"parameter": [
{
"valueString": "1"
}
]
}
],
"documentation": "OMOP Visit Occurrence ID would be a map from the FHIR Allergy Encounter reference to an external key"
},
{
"name": "type",
"source": [
{
"context": "src",
"element": "type",
"variable": "s"
}
],
"target": [
{
"transform": "copy",
"parameter": [
{
"valueId": "tgt"
}
]
}
],
"rule": [
{
"name": "coding",
"source": [
{
"context": "s",
"element": "coding",
"variable": "sc"
}
],
"target": [
{
"transform": "copy",
"parameter": [
{
"valueId": "tgt"
}
]
}
],
"rule": [
{
"name": "code",
"source": [
{
"context": "sc",
"element": "code",
"variable": "code",
"condition": "(code = 'allergy')"
}
],
"rule": [
{
"name": "category",
"source": [
{
"context": "src",
"element": "category",
"variable": "category"
}
],
"target": [
{
"context": "tgt",
"element": "observation_concept_id",
"transform": "translate",
"parameter": [
{
"valueId": "category"
},
{
"valueString": "http://hl7.org/fhir/uv/omop/ConceptMap/AllergyType"
},
{
"valueString": "code"
}
]
}
]
}
]
},
{
"name": "code",
"source": [
{
"context": "src",
"element": "code",
"variable": "code",
"condition": "(code = 'intolerance')"
}
],
"rule": [
{
"name": "category",
"source": [
{
"context": "src",
"element": "category",
"variable": "category"
}
],
"target": [
{
"context": "tgt",
"element": "observation_concept_id",
"transform": "translate",
"parameter": [
{
"valueId": "category"
},
{
"valueString": "http://hl7.org/fhir/uv/omop/ConceptMap/IntoleranceType"
},
{
"valueString": "code"
}
]
}
]
}
]
}
]
}
]
},
{
"name": "code",
"source": [
{
"context": "src",
"element": "code",
"variable": "s"
}
],
"target": [
{
"transform": "copy",
"parameter": [
{
"valueId": "tgt"
}
]
}
],
"rule": [
{
"name": "coding",
"source": [
{
"context": "s",
"element": "coding",
"variable": "sc"
}
],
"target": [
{
"transform": "copy",
"parameter": [
{
"valueId": "tgt"
}
]
}
],
"rule": [
{
"name": "code",
"source": [
{
"context": "sc",
"element": "code",
"variable": "code"
}
],
"target": [
{
"context": "tgt",
"element": "value_as_concept_id",
"transform": "translate",
"parameter": [
{
"valueId": "code"
},
{
"valueString": "http://hl7.org/fhir/uv/omop/ConceptMap/AllergySubstanceType"
},
{
"valueString": "code"
}
]
},
{
"context": "tgt",
"element": "value_source_value",
"transform": "copy",
"parameter": [
{
"valueId": "code"
}
]
}
]
}
]
}
]
},
{
"name": "recordedDateDateTime",
"source": [
{
"context": "src",
"type": "dateTime",
"element": "recordedDate",
"variable": "osd"
}
],
"target": [
{
"context": "tgt",
"element": "observation_date",
"transform": "evaluate",
"parameter": [
{
"valueString": "src.recordedDate.toString().substring(0, 10)"
}
]
},
{
"context": "tgt",
"element": "observation_datetime",
"transform": "copy",
"parameter": [
{
"valueId": "osd"
}
]
}
]
}
]
}
]
}