FHIR to OMOP FHIR IG
0.1.0 - ci-build
FHIR to OMOP FHIR IG
0.1.0 - ci-build
FHIR to OMOP FHIR IG, published by HL7 International / Biomedical Research and Regulation. This guide is not an authorized publication; it is the continuous build for version 0.1.0 built by the FHIR (HL7® FHIR® Standard) CI Build. This version is based on the current content of https://github.com/HL7/fhir-omop-ig/ and changes regularly. See the Directory of published versions
| Page standards status: Draft | Maturity Level: 1 |
{
"resourceType" : "StructureMap",
"id" : "ImmunizationMap",
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><p class=\"res-header-id\"><b>Generated Narrative: StructureMap ImmunizationMap</b></p><a name=\"ImmunizationMap\"> </a><a name=\"hcImmunizationMap\"> </a><a name=\"ImmunizationMap-en-US\"> </a><pre class=\"fml\">\r\n<span style=\"color: #cc00cc\">/// <b>url</b> = </span><span style=\"color: blue\">'http://hl7.org/fhir/uv/omop/StructureMap/ImmunizationMap'</span>\r\n<span style=\"color: #cc00cc\">/// <b>name</b> = </span><span style=\"color: blue\">'ImmunizationMap'</span>\r\n<span style=\"color: #cc00cc\">/// <b>title</b> = </span><span style=\"color: blue\">'Mapping Immunization resource to Drug Exposure OMOP Domain'</span>\r\n<span style=\"color: #cc00cc\">/// <b>status</b> = </span><span style=\"color: blue\">'draft'</span>\r\n\r\n<b>uses</b><span style=\"color: navy\"> "</span><a href=\"http://hl7.org/fhir/R5/immunization.html\" title=\"Immunization\">http://hl7.org/fhir/StructureDefinition/Immunization</a><span style=\"color: navy\">" </span><b>alias </b>Immunization <b>as </b><b>source</b>\r\n<b>uses</b><span style=\"color: navy\"> "</span><a href=\"StructureDefinition-DrugExposure.html\" title=\"Drug Exposure OMOP Table\">http://hl7.org/fhir/uv/omop/StructureDefinition/DrugExposure</a><span style=\"color: navy\">" </span><b>alias </b>DrugExposureTable <b>as </b><b>target</b>\r\n\r\n<b>group </b>DrugExposure<span style=\"color: navy\">(</span><b>source</b> <span style=\"color: maroon\">src</span><span style=\"color: navy\"> : </span>Immunization, <b>target</b> <span style=\"color: maroon\">tgt</span><span style=\"color: navy\"> : </span>DrugExposureTable<span style=\"color: navy\">)</span><span style=\"color: navy\"> {\r\n</span> src.vaccineCode<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span><span style=\"color: maroon\">tgt</span><b> then</b><span style=\"color: navy\"> {\r\n</span> s.coding<b> as </b><span style=\"color: maroon\">sc</span><span style=\"color: navy\"><b> -> </b></span><span style=\"color: maroon\">tgt</span><b> then</b><span style=\"color: navy\"> {\r\n</span> sc.code<span style=\"color: navy\"><b> -> </b></span> tgt.drug_concept_id<span style=\"color: navy\">, </span> tgt.drug_source_value<span style=\"color: navy\">, </span> tgt.drug_source_concept_id<span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n src.patient<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span><span style=\"color: maroon\">tgt</span><b> then</b><span style=\"color: navy\"> {\r\n</span> s.reference<span style=\"color: navy\"><b> -> </b></span>tgt.person_id<span style=\"color: navy\">;</span>\r\n s.identifier<b> as </b><span style=\"color: maroon\">sid</span><span style=\"color: navy\"><b> -> </b></span><span style=\"color: maroon\">tgt</span><b> then</b><span style=\"color: navy\"> {\r\n</span> sid.value<span style=\"color: navy\"><b> -> </b></span>tgt.person_id<span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n src.doseQuantity<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span><span style=\"color: maroon\">tgt</span><b> then</b><span style=\"color: navy\"> {\r\n</span> s.value<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span>tgt.quantity = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">s</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'decimal'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n s.code<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span>tgt.dose_unit_source_value = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">s</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'string'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n src.route<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span><span style=\"color: maroon\">tgt</span><b> then</b><span style=\"color: navy\"> {\r\n</span> s.text<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span>tgt.route_source_value = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">s</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'string'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n s.coding<b> as </b><span style=\"color: maroon\">sc</span><span style=\"color: navy\"><b> -> </b></span><span style=\"color: maroon\">tgt</span><b> then</b><span style=\"color: navy\"> {\r\n</span> sc.code<span style=\"color: navy\"><b> -> </b></span> tgt.route_concept_id<span style=\"color: navy\">, </span> tgt.route_source_value<span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n src.occurrence<span style=\"color: navy\"> : </span>dateTime<span style=\"color: navy\"><b> -> </b></span> tgt.drug_exposure_start_date<span style=\"color: navy\">, </span> tgt.drug_exposure_start_datetime<span style=\"color: navy\">, </span> tgt.drug_exposure_end_date<span style=\"color: navy\">, </span> tgt.drug_exposure_end_datetime<span style=\"color: navy\">;</span>\r\n src.encounter<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span><span style=\"color: maroon\">tgt</span><b> then</b><span style=\"color: navy\"> {\r\n</span> s.reference<span style=\"color: navy\"><b> -> </b></span>tgt.visit_occurrence_id<span style=\"color: navy\">;</span>\r\n s.identifier<b> as </b><span style=\"color: maroon\">sid</span><span style=\"color: navy\"><b> -> </b></span><span style=\"color: maroon\">tgt</span><b> then</b><span style=\"color: navy\"> {\r\n</span> sid.value<span style=\"color: navy\"><b> -> </b></span>tgt.visit_occurrence_id<span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n src.lotNumber<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span>tgt.lot_number = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">s</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'string'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n<span style=\"color: navy\">}\r\n\r\n</span></pre></div>"
},
"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" : "draft",
"_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/ImmunizationMap",
"version" : "0.1.0",
"name" : "ImmunizationMap",
"title" : "Mapping Immunization resource to Drug Exposure OMOP Domain",
"status" : "draft",
"date" : "2024-08-21T19:54:58+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" : "MappingImmunizationresourcetoDrugExposureOMOPDomain",
"jurisdiction" : [
{
"coding" : [
{
"system" : "http://unstats.un.org/unsd/methods/m49/m49.htm",
"code" : "001",
"display" : "World"
}
]
}
],
"structure" : [
{
"url" : "http://hl7.org/fhir/StructureDefinition/Immunization",
"mode" : "source",
"alias" : "Immunization"
},
{
"url" : "http://hl7.org/fhir/uv/omop/StructureDefinition/DrugExposure",
"mode" : "target",
"alias" : "DrugExposureTable"
}
],
"group" : [
{
"name" : "DrugExposure",
"input" : [
{
"name" : "src",
"type" : "Immunization",
"mode" : "source"
},
{
"name" : "tgt",
"type" : "DrugExposureTable",
"mode" : "target"
}
],
"rule" : [
{
"name" : "vaccineCode",
"source" : [
{
"context" : "src",
"element" : "vaccineCode",
"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"
}
],
"target" : [
{
"context" : "tgt",
"element" : "drug_concept_id"
},
{
"context" : "tgt",
"element" : "drug_source_value"
},
{
"context" : "tgt",
"element" : "drug_source_concept_id"
}
]
}
]
}
]
},
{
"name" : "patient",
"source" : [
{
"context" : "src",
"element" : "patient",
"variable" : "s"
}
],
"target" : [
{
"transform" : "copy",
"parameter" : [
{
"valueId" : "tgt"
}
]
}
],
"rule" : [
{
"name" : "reference",
"source" : [
{
"context" : "s",
"element" : "reference",
"variable" : "vvv"
}
],
"target" : [
{
"context" : "tgt",
"element" : "person_id",
"variable" : "vvv",
"transform" : "create"
}
],
"dependent" : [
{
"name" : "DefaultMappingGroupAnonymousAlias",
"parameter" : [
{
"valueId" : "vvv"
},
{
"valueId" : "vvv"
}
]
}
]
},
{
"name" : "identifier",
"source" : [
{
"context" : "s",
"element" : "identifier",
"variable" : "sid"
}
],
"target" : [
{
"transform" : "copy",
"parameter" : [
{
"valueId" : "tgt"
}
]
}
],
"rule" : [
{
"name" : "value",
"source" : [
{
"context" : "sid",
"element" : "value",
"variable" : "vvv"
}
],
"target" : [
{
"context" : "tgt",
"element" : "person_id",
"variable" : "vvv",
"transform" : "create"
}
],
"dependent" : [
{
"name" : "DefaultMappingGroupAnonymousAlias",
"parameter" : [
{
"valueId" : "vvv"
},
{
"valueId" : "vvv"
}
]
}
]
}
]
}
]
},
{
"name" : "doseQuantity",
"source" : [
{
"context" : "src",
"element" : "doseQuantity",
"variable" : "s"
}
],
"target" : [
{
"transform" : "copy",
"parameter" : [
{
"valueId" : "tgt"
}
]
}
],
"rule" : [
{
"name" : "value",
"source" : [
{
"context" : "s",
"element" : "value",
"variable" : "s"
}
],
"target" : [
{
"context" : "tgt",
"element" : "quantity",
"transform" : "cast",
"parameter" : [
{
"valueId" : "s"
},
{
"valueString" : "decimal"
}
]
}
]
},
{
"name" : "code",
"source" : [
{
"context" : "s",
"element" : "code",
"variable" : "s"
}
],
"target" : [
{
"context" : "tgt",
"element" : "dose_unit_source_value",
"transform" : "cast",
"parameter" : [
{
"valueId" : "s"
},
{
"valueString" : "string"
}
]
}
]
}
]
},
{
"name" : "route",
"source" : [
{
"context" : "src",
"element" : "route",
"variable" : "s"
}
],
"target" : [
{
"transform" : "copy",
"parameter" : [
{
"valueId" : "tgt"
}
]
}
],
"rule" : [
{
"name" : "text",
"source" : [
{
"context" : "s",
"element" : "text",
"variable" : "s"
}
],
"target" : [
{
"context" : "tgt",
"element" : "route_source_value",
"transform" : "cast",
"parameter" : [
{
"valueId" : "s"
},
{
"valueString" : "string"
}
]
}
]
},
{
"name" : "coding",
"source" : [
{
"context" : "s",
"element" : "coding",
"variable" : "sc"
}
],
"target" : [
{
"transform" : "copy",
"parameter" : [
{
"valueId" : "tgt"
}
]
}
],
"rule" : [
{
"name" : "code",
"source" : [
{
"context" : "sc",
"element" : "code"
}
],
"target" : [
{
"context" : "tgt",
"element" : "route_concept_id"
},
{
"context" : "tgt",
"element" : "route_source_value"
}
]
}
]
}
]
},
{
"name" : "occurrenceDateTime",
"source" : [
{
"context" : "src",
"type" : "dateTime",
"element" : "occurrence"
}
],
"target" : [
{
"context" : "tgt",
"element" : "drug_exposure_start_date"
},
{
"context" : "tgt",
"element" : "drug_exposure_start_datetime"
},
{
"context" : "tgt",
"element" : "drug_exposure_end_date"
},
{
"context" : "tgt",
"element" : "drug_exposure_end_datetime"
}
]
},
{
"name" : "encounter",
"source" : [
{
"context" : "src",
"element" : "encounter",
"variable" : "s"
}
],
"target" : [
{
"transform" : "copy",
"parameter" : [
{
"valueId" : "tgt"
}
]
}
],
"rule" : [
{
"name" : "reference",
"source" : [
{
"context" : "s",
"element" : "reference",
"variable" : "vvv"
}
],
"target" : [
{
"context" : "tgt",
"element" : "visit_occurrence_id",
"variable" : "vvv",
"transform" : "create"
}
],
"dependent" : [
{
"name" : "DefaultMappingGroupAnonymousAlias",
"parameter" : [
{
"valueId" : "vvv"
},
{
"valueId" : "vvv"
}
]
}
]
},
{
"name" : "identifier",
"source" : [
{
"context" : "s",
"element" : "identifier",
"variable" : "sid"
}
],
"target" : [
{
"transform" : "copy",
"parameter" : [
{
"valueId" : "tgt"
}
]
}
],
"rule" : [
{
"name" : "value",
"source" : [
{
"context" : "sid",
"element" : "value",
"variable" : "vvv"
}
],
"target" : [
{
"context" : "tgt",
"element" : "visit_occurrence_id",
"variable" : "vvv",
"transform" : "create"
}
],
"dependent" : [
{
"name" : "DefaultMappingGroupAnonymousAlias",
"parameter" : [
{
"valueId" : "vvv"
},
{
"valueId" : "vvv"
}
]
}
]
}
]
}
]
},
{
"name" : "lotNumber",
"source" : [
{
"context" : "src",
"element" : "lotNumber",
"variable" : "s"
}
],
"target" : [
{
"context" : "tgt",
"element" : "lot_number",
"transform" : "cast",
"parameter" : [
{
"valueId" : "s"
},
{
"valueString" : "string"
}
]
}
]
}
]
}
]
}
IG © 2023+ HL7 International / Biomedical Research and Regulation. Package hl7.fhir.uv.omop#0.1.0 based on FHIR 5.0.0. Generated 2024-08-21
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