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 |
{
"resourceType" : "StructureMap",
"id" : "BloodPressureVitalSignsMap",
"language" : "en",
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><p class=\"res-header-id\"><b>Generated Narrative: StructureMap BloodPressureVitalSignsMap</b></p><a name=\"BloodPressureVitalSignsMap\"> </a><a name=\"hcBloodPressureVitalSignsMap\"> </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/BloodPressureVitalSignsMap'</span>\r\n<span style=\"color: #cc00cc\">/// <b>name</b> = </span><span style=\"color: blue\">'BloodPressureVitalSignsMap'</span>\r\n<span style=\"color: #cc00cc\">/// <b>title</b> = </span><span style=\"color: blue\">'Mapping Blood Pressure Vital Signs resource to Measurement OMOP Domain'</span>\r\n<span style=\"color: #cc00cc\">/// <b>status</b> = </span><span style=\"color: blue\">'active'</span>\r\n<span style=\"color: #cc00cc\">/// <b>description</b> = </span><span style=\"color: blue\">'This mapping maps blood pressure FHIR Vital Signs instances that are considered measurements to OMOP Measurement Table objects.'</span>\r\n\r\n<b>uses</b><span style=\"color: navy\"> "</span><a href=\"http://hl7.org/fhir/R5/observation.html\" title=\"Observation\">http://hl7.org/fhir/StructureDefinition/Observation</a><span style=\"color: navy\">" </span><b>alias </b>BloodPressure <b>as </b><b>source</b>\r\n<b>uses</b><span style=\"color: navy\"> "</span><a href=\"StructureDefinition-RecordSet.html\" title=\"Patient Record Setting\">http://hl7.org/fhir/uv/omop/StructureDefinition/RecordSet</a><span style=\"color: navy\">" </span><b>alias </b>BPRecord <b>as </b><b>target</b>\r\n<b>uses</b><span style=\"color: navy\"> "</span><a href=\"StructureDefinition-Measurement.html\" title=\"Measurement OMOP Table\">http://hl7.org/fhir/uv/omop/StructureDefinition/Measurement</a><span style=\"color: navy\">" </span><b>alias </b>Measurement <b>as </b><b>target</b>\r\n\r\n<span style=\"color: navy\">// </span><span style=\"color: green\">make the bundle</span>\r\n<b>group </b>BloodPressure<span style=\"color: navy\">(</span><b>source</b> <span style=\"color: maroon\">src</span><span style=\"color: navy\"> : </span>BloodPressure, <b>target</b> <span style=\"color: maroon\">recordSet</span><span style=\"color: navy\"> : </span>BPRecord<span style=\"color: navy\">)</span><span style=\"color: navy\"> {\r\n</span> src<b> where </b><span style=\"color: navy\">(</span>src.category.coding.code contains 'vital-signs'<span style=\"color: navy\">)</span><b> then</b><span style=\"color: navy\"> {\r\n</span> src<b> where </b><span style=\"color: navy\">(</span>src.effective.empty().not()<span style=\"color: navy\">)</span><b> then</b><span style=\"color: navy\"> {\r\n</span> src.code<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span>recordSet<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>recordSet<b> then</b><span style=\"color: navy\"> {\r\n</span> sc.code<b> as </b><span style=\"color: maroon\">a</span><b> where </b><span style=\"color: navy\">(</span>a in ('85354-9' | '8478-0')<span style=\"color: navy\">)</span><span style=\"color: navy\"><b> -> </b></span>recordSet<b> then</b><span style=\"color: navy\"> {\r\n</span> src<b> as </b><span style=\"color: maroon\">parent</span><span style=\"color: navy\"><b> -> </b></span>recordSet.measurement<b> as </b><span style=\"color: maroon\">measurement</span><b> then </b>parentTable<span style=\"color: navy\">(</span><span style=\"color: maroon\">parent</span><span style=\"color: navy\">, </span><span style=\"color: maroon\">measurement</span><span style=\"color: navy\">)</span> <i>"bpMeasurement"</i><span style=\"color: navy\">;</span>\r\n src.component<b> as </b><span style=\"color: maroon\">comp</span><span style=\"color: navy\"><b> -> </b></span>recordSet<b> then</b><span style=\"color: navy\"> {\r\n</span> comp<b> where </b><span style=\"color: navy\">(</span>comp.code.coding.code = '8480-6'<span style=\"color: navy\">)</span><span style=\"color: navy\"><b> -> </b></span>recordSet.measurement<b> as </b><span style=\"color: maroon\">measurement</span><b> then </b>Systolic<span style=\"color: navy\">(</span><span style=\"color: maroon\">src</span><span style=\"color: navy\">, </span><span style=\"color: maroon\">comp</span><span style=\"color: navy\">, </span><span style=\"color: maroon\">measurement</span><span style=\"color: navy\">)</span> <i>"systolicMeasurement"</i><span style=\"color: navy\">;</span>\r\n comp<b> where </b><span style=\"color: navy\">(</span>comp.code.coding.code = '8462-4'<span style=\"color: navy\">)</span><span style=\"color: navy\"><b> -> </b></span>recordSet.measurement<b> as </b><span style=\"color: maroon\">measurement</span><b> then </b>Diastolic<span style=\"color: navy\">(</span><span style=\"color: maroon\">src</span><span style=\"color: navy\">, </span><span style=\"color: maroon\">comp</span><span style=\"color: navy\">, </span><span style=\"color: maroon\">measurement</span><span style=\"color: navy\">)</span> <i>"diastolicMeasurement"</i><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 <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span> <i>"bpMapping"</i><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span> <i>"bpComponentEntries"</i><span style=\"color: navy\">;</span>\r\n<span style=\"color: navy\">}\r\n\r\n</span><b>group </b>parentTable<span style=\"color: navy\">(</span><b>source</b> <span style=\"color: maroon\">src</span><span style=\"color: navy\"> : </span>BloodPressure, <b>target</b> <span style=\"color: maroon\">tgt</span><span style=\"color: navy\"> : </span>Measurement<span style=\"color: navy\">)</span><span style=\"color: navy\"> {\r\n</span> src.id<b> as </b><span style=\"color: maroon\">id</span><span style=\"color: navy\"><b> -> </b></span>tgt.measurement_id = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">id</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'code'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n 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\"> {\r\n</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\"> {\r\n</span> sc.code<b> as </b><span style=\"color: maroon\">a</span><span style=\"color: navy\"><b> -> </b></span>tgt.measurement_type_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/BloodPressureCodes'</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'code'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n sc.display<b> as </b><span style=\"color: maroon\">display</span><span style=\"color: navy\"><b> -> </b></span>tgt.measurement_concept_id = <span style=\"color: maroon\">display</span><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.effective<span style=\"color: navy\"> : </span>dateTime<b> as </b><span style=\"color: maroon\">edt</span><span style=\"color: navy\"><b> -> </b></span> tgt.measurement_datetime = <span style=\"color: maroon\">edt</span><span style=\"color: navy\">, </span> tgt.measurement_date = <span style=\"color: navy\">(</span>edt.toString().substring(0, 10)<span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n src.effective<span style=\"color: navy\"> : </span>instant<b> as </b><span style=\"color: maroon\">einst</span><span style=\"color: navy\"><b> -> </b></span> tgt.measurement_datetime = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">einst</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'dateTime'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">, </span> tgt.measurement_date = <span style=\"color: navy\">(</span>einst.toString().substring(0, 10)<span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n src.effective<span style=\"color: navy\"> : </span>Period<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span>tgt<b> then</b><span style=\"color: navy\"> {\r\n</span> s.start<b> as </b><span style=\"color: maroon\">eps</span><span style=\"color: navy\"><b> -> </b></span> tgt.measurement_datetime = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">eps</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'dateTime'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">, </span> tgt.measurement_date = <span style=\"color: navy\">(</span>eps.toString().substring(0, 10)<span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span> <i>"MeasurementDate"</i><span style=\"color: navy\">;</span>\r\n<span style=\"color: navy\">}\r\n\r\n</span><span style=\"color: navy\">// </span><span style=\"color: green\">make the systolic measurement table</span>\r\n<b>group </b>Systolic<span style=\"color: navy\">(</span><b>source</b> <span style=\"color: maroon\">parent</span><span style=\"color: navy\"> : </span>BloodPressure, <b>source</b> <span style=\"color: maroon\">comp</span>, <b>target</b> <span style=\"color: maroon\">tgt</span><span style=\"color: navy\"> : </span>Measurement<span style=\"color: navy\">)</span><span style=\"color: navy\"> {\r\n</span> parent.effective<span style=\"color: navy\"> : </span>dateTime<b> as </b><span style=\"color: maroon\">edt</span><span style=\"color: navy\"><b> -> </b></span> tgt.measurement_datetime = <span style=\"color: maroon\">edt</span><span style=\"color: navy\">, </span> tgt.measurement_date = <span style=\"color: navy\">(</span>edt.toString().substring(0, 10)<span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n parent.effective<span style=\"color: navy\"> : </span>instant<b> as </b><span style=\"color: maroon\">einst</span><span style=\"color: navy\"><b> -> </b></span> tgt.measurement_datetime = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">einst</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'dateTime'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">, </span> tgt.measurement_date = <span style=\"color: navy\">(</span>einst.toString().substring(0, 10)<span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n parent.effective<span style=\"color: navy\"> : </span>Period<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span>tgt<b> then</b><span style=\"color: navy\"> {\r\n</span> s.start<b> as </b><span style=\"color: maroon\">eps</span><span style=\"color: navy\"><b> -> </b></span> tgt.measurement_datetime = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">eps</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'dateTime'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">, </span> tgt.measurement_date = <span style=\"color: navy\">(</span>eps.toString().substring(0, 10)<span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span> <i>"MeasurementDate"</i><span style=\"color: navy\">;</span>\r\n comp.value<span style=\"color: navy\"> : </span>Quantity<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span>tgt<b> then</b><span style=\"color: navy\"> {\r\n</span> s.value<b> as </b><span style=\"color: maroon\">a</span><span style=\"color: navy\"><b> -> </b></span>tgt.value_as_number = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">a</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.unit<b> as </b><span style=\"color: maroon\">b</span><span style=\"color: navy\"><b> -> </b></span>tgt.unit_concept_id = <span style=\"color: maroon\">b</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n<span style=\"color: navy\">}\r\n\r\n</span><span style=\"color: navy\">// </span><span style=\"color: green\">make the diastolic measurement table</span>\r\n<b>group </b>Diastolic<span style=\"color: navy\">(</span><b>source</b> <span style=\"color: maroon\">parent</span><span style=\"color: navy\"> : </span>BloodPressure, <b>source</b> <span style=\"color: maroon\">comp</span>, <b>target</b> <span style=\"color: maroon\">tgt</span><span style=\"color: navy\"> : </span>Measurement<span style=\"color: navy\">)</span><span style=\"color: navy\"> {\r\n</span> parent.effective<span style=\"color: navy\"> : </span>dateTime<b> as </b><span style=\"color: maroon\">edt</span><span style=\"color: navy\"><b> -> </b></span> tgt.measurement_datetime = <span style=\"color: maroon\">edt</span><span style=\"color: navy\">, </span> tgt.measurement_date = <span style=\"color: navy\">(</span>edt.toString().substring(0, 10)<span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n parent.effective<span style=\"color: navy\"> : </span>instant<b> as </b><span style=\"color: maroon\">einst</span><span style=\"color: navy\"><b> -> </b></span> tgt.measurement_datetime = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">einst</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'dateTime'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">, </span> tgt.measurement_date = <span style=\"color: navy\">(</span>einst.toString().substring(0, 10)<span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n parent.effective<span style=\"color: navy\"> : </span>Period<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span>tgt<b> then</b><span style=\"color: navy\"> {\r\n</span> s.start<b> as </b><span style=\"color: maroon\">eps</span><span style=\"color: navy\"><b> -> </b></span> tgt.measurement_datetime = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">eps</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'dateTime'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">, </span> tgt.measurement_date = <span style=\"color: navy\">(</span>eps.toString().substring(0, 10)<span style=\"color: navy\">)</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span> <i>"MeasurementDate"</i><span style=\"color: navy\">;</span>\r\n comp.value<span style=\"color: navy\"> : </span>Quantity<b> as </b><span style=\"color: maroon\">s</span><span style=\"color: navy\"><b> -> </b></span>tgt<b> then</b><span style=\"color: navy\"> {\r\n</span> s.value<b> as </b><span style=\"color: maroon\">a</span><span style=\"color: navy\"><b> -> </b></span> tgt.value_as_number = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">a</span><span style=\"color: navy\">, </span><span style=\"color: blue\">'decimal'</span><span style=\"color: navy\">)</span><span style=\"color: navy\">, </span> tgt.value_source_value = <b>cast</b><span style=\"color: navy\">(</span><span style=\"color: maroon\">a</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.unit<b> as </b><span style=\"color: maroon\">b</span><span style=\"color: navy\"><b> -> </b></span> tgt.unit_concept_id<span style=\"color: navy\">, </span> tgt.unit_source_value = <span style=\"color: maroon\">b</span><span style=\"color: navy\">;</span>\r\n <span style=\"color: navy\">}</span><span style=\"color: navy\">;</span>\r\n<span style=\"color: navy\">}\r\n\r\n</span></pre></div>"
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Package hl7.fhir.uv.omop#2.0.0-ballot based on FHIR 5.0.0.
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