FHIR to OMOP FHIR IG
2.0.0-ballot - STU 1 Ballot
FHIR to OMOP FHIR IG
2.0.0-ballot - STU 1 Ballot
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 2.0.0-ballot 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: Trial-use | Maturity Level: 2 |
<StructureMap xmlns="http://hl7.org/fhir">
<id value="ConditionMap"/>
<language value="en"/>
<text>
<status value="generated"/>
<div xmlns="http://www.w3.org/1999/xhtml"><p class="res-header-id"><b>Generated Narrative: StructureMap ConditionMap</b></p><a name="ConditionMap"> </a><a name="hcConditionMap"> </a><pre class="fml">
<span style="color: #cc00cc">/// <b>url</b> = </span><span style="color: blue">'http://hl7.org/fhir/uv/omop/StructureMap/ConditionMap'</span>
<span style="color: #cc00cc">/// <b>name</b> = </span><span style="color: blue">'ConditionMap'</span>
<span style="color: #cc00cc">/// <b>title</b> = </span><span style="color: blue">'Mapping Condition resource to Condition Occurrence OMOP Domain'</span>
<span style="color: #cc00cc">/// <b>status</b> = </span><span style="color: blue">'active'</span>
<span style="color: #cc00cc">/// <b>description</b> = </span><span style="color: blue">'This mapping maps FHIR Condition instances to OMOP Condition Occurence Table objects.'</span>
<b>uses</b><span style="color: navy"> "</span><a href="http://hl7.org/fhir/R5/condition.html" title="Condition">http://hl7.org/fhir/StructureDefinition/Condition</a><span style="color: navy">" </span><b>alias </b>Condition <b>as </b><b>source</b>
<b>uses</b><span style="color: navy"> "</span><a href="StructureDefinition-ConditionOccurrence.html" title="Condition Occurrence OMOP Table">http://hl7.org/fhir/uv/omop/StructureDefinition/ConditionOccurrence</a><span style="color: navy">" </span><b>alias </b>ConOccTable <b>as </b><b>target</b>
<b>group </b>ConditionOccurrence<span style="color: navy">(</span><b>source</b> <span style="color: maroon">src</span><span style="color: navy"> : </span>Condition, <b>target</b> <span style="color: maroon">tgt</span><span style="color: navy"> : </span>ConOccTable<span style="color: navy">)</span><span style="color: navy"> {
</span> src<b> where </b><span style="color: navy">(</span>src.recordedDate.empty().not()<span style="color: navy">)</span><b> then</b><span style="color: navy"> {
</span> <span style="color: navy">// </span><span style="color: green">OMOP Condition ID would be a map from FHIR ID to an external key</span>
src<b> as </b><span style="color: maroon">s</span><span style="color: navy"><b> -> </b></span>tgt<b> then</b><span style="color: navy"> {
</span> s.id<b> as </b><span style="color: maroon">id</span><span style="color: navy"><b> -> </b></span>tgt.condition_occurrence_id = <b>cast</b><span style="color: navy">(</span><span style="color: maroon">id</span><span style="color: navy">, </span><span style="color: blue">'integer'</span><span style="color: navy">)</span><span style="color: navy">;</span>
<span style="color: navy">}</span> <i>"conditionID"</i><span style="color: navy">;</span>
<span style="color: navy">// </span><span style="color: green">OMOP Person ID would be a map from the FHIR Condition subject reference to an external key</span>
src.subject<b> as </b><span style="color: maroon">subject</span><span style="color: navy"><b> -> </b></span>tgt<b> then</b><span style="color: navy"> {
</span> subject.reference<b> as </b><span style="color: maroon">s</span><span style="color: navy"><b> -> </b></span>tgt.person_id = <span style="color: navy">(</span>%s.substring(%s.indexOf('/') + 1)<span style="color: navy">)</span><span style="color: navy">;</span>
<span style="color: navy">}</span><span style="color: navy">;</span>
src.code<b> as </b><span style="color: maroon">s</span><span style="color: navy"><b> -> </b></span>tgt<b> then</b><span style="color: navy"> {
</span> s.coding<b> as </b><span style="color: maroon">sc</span><span style="color: navy"><b> -> </b></span>tgt<b> then</b><span style="color: navy"> {
</span> sc.code<b> as </b><span style="color: maroon">a</span><span style="color: navy"><b> -> </b></span>tgt.condition_concept_id = <b>translate</b><span style="color: navy">(</span><span style="color: maroon">a</span><span style="color: navy">, </span><span style="color: blue">'http://hl7.org/fhir/uv/omop/ConceptMap/ConditionConcepts'</span><span style="color: navy">, </span><span style="color: blue">'code'</span><span style="color: navy">)</span><span style="color: navy">;</span>
sc.display<b> as </b><span style="color: maroon">d</span><span style="color: navy"><b> -> </b></span>tgt.condition_source_value = <span style="color: maroon">d</span><span style="color: navy">;</span>
<span style="color: navy">}</span><span style="color: navy">;</span>
<span style="color: navy">}</span><span style="color: navy">;</span>
src.recordedDate<b> as </b><span style="color: maroon">rd</span><span style="color: navy"><b> -> </b></span> tgt.condition_start_datetime = <b>cast</b><span style="color: navy">(</span><span style="color: maroon">rd</span><span style="color: navy">, </span><span style="color: blue">'dateTime'</span><span style="color: navy">)</span><span style="color: navy">, </span> tgt.condition_start_date = <b>cast</b><span style="color: navy">(</span><span style="color: maroon">rd</span><span style="color: navy">, </span><span style="color: blue">'date'</span><span style="color: navy">)</span><span style="color: navy">;</span>
src.onset<span style="color: navy"> : </span>dateTime<b> as </b><span style="color: maroon">osd</span><span style="color: navy"><b> -> </b></span> tgt.condition_start_datetime = <span style="color: maroon">osd</span><span style="color: navy">, </span> tgt.condition_start_date = <b>cast</b><span style="color: navy">(</span><span style="color: maroon">osd</span><span style="color: navy">, </span><span style="color: blue">'date'</span><span style="color: navy">)</span><span style="color: navy">;</span>
src.abatement<span style="color: navy"> : </span>dateTime<b> as </b><span style="color: maroon">abdt</span><span style="color: navy"><b> -> </b></span> tgt.condition_end_datetime = <span style="color: maroon">abdt</span><span style="color: navy">, </span> tgt.condition_end_date = <b>cast</b><span style="color: navy">(</span><span style="color: maroon">abdt</span><span style="color: navy">, </span><span style="color: blue">'date'</span><span style="color: navy">)</span><span style="color: navy">;</span>
src.clinicalStatus<b> as </b><span style="color: maroon">s</span><span style="color: navy"><b> -> </b></span>tgt<b> then</b><span style="color: navy"> {
</span> s.coding<b> as </b><span style="color: maroon">sc</span><span style="color: navy"><b> -> </b></span>tgt<b> then</b><span style="color: navy"> {
</span> sc.code<b> as </b><span style="color: maroon">a</span><span style="color: navy"><b> -> </b></span> tgt.condition_status_concept_id = <b>translate</b><span style="color: navy">(</span><span style="color: maroon">a</span><span style="color: navy">, </span><span style="color: blue">'http://hl7.org/fhir/uv/omop/ConceptMap/ConditionStatusConcepts'</span><span style="color: navy">, </span><span style="color: blue">'code'</span><span style="color: navy">)</span><span style="color: navy">, </span> tgt.condition_status_source_value = <span style="color: maroon">a</span><span style="color: navy">;</span>
<span style="color: navy">}</span><span style="color: navy">;</span>
<span style="color: navy">}</span><span style="color: navy">;</span>
src.encounter<b> as </b><span style="color: maroon">encounter</span><span style="color: navy"><b> -> </b></span>tgt<b> then</b><span style="color: navy"> {
</span> encounter.reference<b> as </b><span style="color: maroon">e</span><span style="color: navy"><b> -> </b></span>tgt.visit_occurrence_id = <span style="color: navy">(</span>%e.substring(%e.indexOf('/') + 1)<span style="color: navy">)</span><span style="color: navy">;</span>
<span style="color: navy">}</span><span style="color: navy">;</span>
src.category<span style="color: navy"><b> -> </b></span>tgt.condition_type_concept_id = <span style="color: blue">32817</span> <i>"default"</i><span style="color: navy">;</span>
<span style="color: navy">}</span> <i>"conditionMapping"</i><span style="color: navy">;</span>
<span style="color: navy">}
</span></pre></div>
</text>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-wg">
<valueCode value="brr"/>
</extension>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-fmm">
<valueInteger value="2">
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-conformance-derivedFrom">
<valueCanonical
value="http://hl7.org/fhir/uv/omop/ImplementationGuide/hl7.fhir.uv.omop"/>
</extension>
</valueInteger>
</extension>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-standards-status">
<valueCode value="trial-use">
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-conformance-derivedFrom">
<valueCanonical
value="http://hl7.org/fhir/uv/omop/ImplementationGuide/hl7.fhir.uv.omop"/>
</extension>
</valueCode>
</extension>
<url value="http://hl7.org/fhir/uv/omop/StructureMap/ConditionMap"/>
<identifier>
<system value="urn:ietf:rfc:3986"/>
<value value="urn:oid:2.16.840.1.113883.4.642.40.77.43.3"/>
</identifier>
<version value="2.0.0-ballot"/>
<name value="ConditionMap"/>
<title
value="Mapping Condition resource to Condition Occurrence OMOP Domain"/>
<status value="active"/>
<date value="2026-08-14T16:09:20+00:00"/>
<publisher value="HL7 International / Biomedical Research and Regulation"/>
<contact>
<name value="HL7 International / Biomedical Research and Regulation"/>
<telecom>
<system value="url"/>
<value value="http://www.hl7.org/Special/committees/rcrim"/>
</telecom>
</contact>
<description
value="This mapping maps FHIR Condition instances to OMOP Condition Occurence Table objects."/>
<jurisdiction>
<coding>
<system value="http://unstats.un.org/unsd/methods/m49/m49.htm"/>
<code value="001"/>
<display value="World"/>
</coding>
</jurisdiction>
<structure>
<url value="http://hl7.org/fhir/StructureDefinition/Condition"/>
<mode value="source"/>
<alias value="Condition"/>
</structure>
<structure>
<url
value="http://hl7.org/fhir/uv/omop/StructureDefinition/ConditionOccurrence"/>
<mode value="target"/>
<alias value="ConOccTable"/>
</structure>
<group>
<name value="ConditionOccurrence"/>
<input>
<name value="src"/>
<type value="Condition"/>
<mode value="source"/>
</input>
<input>
<name value="tgt"/>
<type value="ConOccTable"/>
<mode value="target"/>
</input>
<rule>
<name value="conditionMapping"/>
<source>
<context value="src"/>
<condition value="src.recordedDate.empty().not()"/>
</source>
<rule>
<name value="conditionID"/>
<source>
<context value="src"/>
<variable value="s"/>
</source>
<target>
<context value="tgt"/>
</target>
<rule>
<name value="id"/>
<source>
<context value="s"/>
<element value="id"/>
<variable value="id"/>
</source>
<target>
<context value="tgt"/>
<element value="condition_occurrence_id"/>
<transform value="cast"/>
<parameter>
<valueId value="id"/>
</parameter>
<parameter>
<valueString value="integer"/>
</parameter>
</target>
</rule>
<documentation
value="OMOP Condition ID would be a map from FHIR ID to an external key"/>
</rule>
<rule>
<name value="subject"/>
<source>
<context value="src"/>
<element value="subject"/>
<variable value="subject"/>
</source>
<target>
<context value="tgt"/>
</target>
<rule>
<name value="reference"/>
<source>
<context value="subject"/>
<element value="reference"/>
<variable value="s"/>
</source>
<target>
<context value="tgt"/>
<element value="person_id"/>
<transform value="evaluate"/>
<parameter>
<valueString value="%s.substring(%s.indexOf('/') + 1)"/>
</parameter>
</target>
</rule>
<documentation
value="OMOP Person ID would be a map from the FHIR Condition subject reference to an external key"/>
</rule>
<rule>
<name value="code"/>
<source>
<context value="src"/>
<element value="code"/>
<variable value="s"/>
</source>
<target>
<context value="tgt"/>
</target>
<rule>
<name value="coding"/>
<source>
<context value="s"/>
<element value="coding"/>
<variable value="sc"/>
</source>
<target>
<context value="tgt"/>
</target>
<rule>
<name value="code"/>
<source>
<context value="sc"/>
<element value="code"/>
<variable value="a"/>
</source>
<target>
<context value="tgt"/>
<element value="condition_concept_id"/>
<transform value="translate"/>
<parameter>
<valueId value="a"/>
</parameter>
<parameter>
<valueString
value="http://hl7.org/fhir/uv/omop/ConceptMap/ConditionConcepts"/>
</parameter>
<parameter>
<valueString value="code"/>
</parameter>
</target>
</rule>
<rule>
<name value="display"/>
<source>
<context value="sc"/>
<element value="display"/>
<variable value="d"/>
</source>
<target>
<context value="tgt"/>
<element value="condition_source_value"/>
<transform value="copy"/>
<parameter>
<valueId value="d"/>
</parameter>
</target>
</rule>
</rule>
</rule>
<rule>
<name value="recordedDate"/>
<source>
<context value="src"/>
<element value="recordedDate"/>
<variable value="rd"/>
</source>
<target>
<context value="tgt"/>
<element value="condition_start_datetime"/>
<transform value="cast"/>
<parameter>
<valueId value="rd"/>
</parameter>
<parameter>
<valueString value="dateTime"/>
</parameter>
</target>
<target>
<context value="tgt"/>
<element value="condition_start_date"/>
<transform value="cast"/>
<parameter>
<valueId value="rd"/>
</parameter>
<parameter>
<valueString value="date"/>
</parameter>
</target>
</rule>
<rule>
<name value="onsetDateTime"/>
<source>
<context value="src"/>
<type value="dateTime"/>
<element value="onset"/>
<variable value="osd"/>
</source>
<target>
<context value="tgt"/>
<element value="condition_start_datetime"/>
<transform value="copy"/>
<parameter>
<valueId value="osd"/>
</parameter>
</target>
<target>
<context value="tgt"/>
<element value="condition_start_date"/>
<transform value="cast"/>
<parameter>
<valueId value="osd"/>
</parameter>
<parameter>
<valueString value="date"/>
</parameter>
</target>
</rule>
<rule>
<name value="abatementDateTime"/>
<source>
<context value="src"/>
<type value="dateTime"/>
<element value="abatement"/>
<variable value="abdt"/>
</source>
<target>
<context value="tgt"/>
<element value="condition_end_datetime"/>
<transform value="copy"/>
<parameter>
<valueId value="abdt"/>
</parameter>
</target>
<target>
<context value="tgt"/>
<element value="condition_end_date"/>
<transform value="cast"/>
<parameter>
<valueId value="abdt"/>
</parameter>
<parameter>
<valueString value="date"/>
</parameter>
</target>
</rule>
<rule>
<name value="clinicalStatus"/>
<source>
<context value="src"/>
<element value="clinicalStatus"/>
<variable value="s"/>
</source>
<target>
<context value="tgt"/>
</target>
<rule>
<name value="coding"/>
<source>
<context value="s"/>
<element value="coding"/>
<variable value="sc"/>
</source>
<target>
<context value="tgt"/>
</target>
<rule>
<name value="code"/>
<source>
<context value="sc"/>
<element value="code"/>
<variable value="a"/>
</source>
<target>
<context value="tgt"/>
<element value="condition_status_concept_id"/>
<transform value="translate"/>
<parameter>
<valueId value="a"/>
</parameter>
<parameter>
<valueString
value="http://hl7.org/fhir/uv/omop/ConceptMap/ConditionStatusConcepts"/>
</parameter>
<parameter>
<valueString value="code"/>
</parameter>
</target>
<target>
<context value="tgt"/>
<element value="condition_status_source_value"/>
<transform value="copy"/>
<parameter>
<valueId value="a"/>
</parameter>
</target>
</rule>
</rule>
</rule>
<rule>
<name value="encounter"/>
<source>
<context value="src"/>
<element value="encounter"/>
<variable value="encounter"/>
</source>
<target>
<context value="tgt"/>
</target>
<rule>
<name value="reference"/>
<source>
<context value="encounter"/>
<element value="reference"/>
<variable value="e"/>
</source>
<target>
<context value="tgt"/>
<element value="visit_occurrence_id"/>
<transform value="evaluate"/>
<parameter>
<valueString value="%e.substring(%e.indexOf('/') + 1)"/>
</parameter>
</target>
</rule>
</rule>
<rule>
<name value="default"/>
<source>
<context value="src"/>
<element value="category"/>
</source>
<target>
<context value="tgt"/>
<element value="condition_type_concept_id"/>
<transform value="copy"/>
<parameter>
<valueInteger value="32817"/>
</parameter>
</target>
</rule>
</rule>
</group>
</StructureMap>
IG © 2023+ HL7 International / Biomedical Research and Regulation.
Package hl7.fhir.uv.omop#2.0.0-ballot based on FHIR 5.0.0.
Generated
2026-08-14
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