FHIR IG analytics| Package | silfhirprofileig |
| Resource Type | StructureMap |
| Id | StructureMap-ExtractLabRequisitionSerology.json |
| FHIR Version | R5 |
| Source | https://build.fhir.org/ig/savannahghi/sil_fhir_profile_ig/StructureMap-ExtractLabRequisitionSerology.html |
| URL | https://fhir.slade360.co.ke/fhir/StructureMap/ExtractLabRequisitionSerology |
| Version | 0.1.0 |
| Status | active |
| Date | 2026-09-11T12:18:36+00:00 |
| Name | ExtractLabRequisitionSerology |
| Title | Medical Laboratory Requisition Extraction |
| Description | One ServiceRequest per investigation asked for, category SNOMED 108252007 laboratory, with the urgency mapped onto the three request-priority codes; and one laboratory Observation per result the sheet carries, because this form is a requisition and a report on one page. The clinical history rides on every request: a serology result without it is uninterpretable, which is exactly why the form asks for it. |
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Generated Narrative: StructureMap ExtractLabRequisitionSerology
/// url = 'https://fhir.slade360.co.ke/fhir/StructureMap/ExtractLabRequisitionSerology' /// name = 'ExtractLabRequisitionSerology' /// title = 'Medical Laboratory Requisition Extraction' /// status = 'active' /// description = 'One ServiceRequest per investigation asked for, category SNOMED 108252007 laboratory, with the urgency mapped onto the three request-priority codes; and one laboratory Observation per result the sheet carries, because this form is a requisition and a report on one page. The clinical history rides on every request: a serology result without it is uninterpretable, which is exactly why the form asks for it.' uses "http://hl7.org/fhir/StructureDefinition/QuestionnaireResponse" alias QR as source uses "http://hl7.org/fhir/StructureDefinition/Bundle" alias Bundle as target uses "http://hl7.org/fhir/StructureDefinition/Observation" alias Observation as target uses "http://hl7.org/fhir/StructureDefinition/ServiceRequest" alias ServiceRequest as target group ExtractLabRequisitionSerology(source qr : QR, target bundle : Bundle) { qr -> bundle.type = 'transaction' "setBundleType"; qr.item as i where ((linkId = 'investigation') and item.where(linkId = 'investigation/name').answer.value.exists()) -> bundle.entry as entry, entry.resource = create('ServiceRequest') as sr then { qr -> sr, entry then BuildServiceRequestBase(qr, sr, entry) "base"; i -> sr.status = 'active' "status"; i -> sr.intent = 'order' "intent"; qr.encounter as e -> sr.encounter = e; qr.authored as t -> sr.authoredOn = t "authoredOn"; i -> sr.category as cat then { i -> cat.coding as cg then { i -> cg.system = 'http://snomed.info/sct' "sys"; i -> cg.code = '108252007' "cd"; i -> cg.display = 'Laboratory procedure' "dsp"; } "coding"; } "category"; i.item as it where (linkId = 'investigation/name') then { it.answer first as a then { a.value as txt -> sr.code as cr, cr.concept as cc, cc.text = txt "codeText"; }; } "nameRule"; i.item as it where ((linkId = 'investigation/specimen') and answer.value.exists()) then { it.answer first as a then { a.value as txt -> sr.specimen = create('Reference') as spref, spref.display = txt "specimen"; }; } "specimenRule"; qr -> sr then SetLabRequestCommon(qr, sr) "common"; } "investigationRequest"; // ── The results the sheet carries ─────────────────────────────────────── qr.item as r where ((linkId = 'result') and item.where(linkId = 'result/test').answer.value.exists()) -> bundle.entry as entry, entry.resource = create('Observation') as obs then { qr -> obs, entry then BuildObsBase(qr, obs, entry) "base"; qr -> obs then SetLaboratoryCategory(qr, obs) "category"; r.item as it where (linkId = 'result/test') then { it.answer first as a then { a.value as txt -> obs.code as cc, cc.text = txt "codeText"; }; } "testRule"; // The result is free text on the paper -- "Reactive", "1:160", "Negative" // -- so it goes to note rather than being coerced into a value type the // form does not commit to. Observation.value[x] has no string choice in R5. r.item as it where (linkId = 'result/value') then { it.answer first as a then { a.value as txt -> obs.note as n, n.text = txt "resultText"; }; } "valueRule"; r.item as it where ((linkId = 'result/tested-by') and answer.value.exists()) then { it.answer first as a then { a.value as ref -> obs.performer = ref "testedBy"; }; } "testedByRule"; r.item as it where ((linkId = 'result/reviewed-by') and answer.value.exists()) then { it.answer first as a then { a.value as ref -> obs.performer = ref "reviewedBy"; }; } "reviewedByRule"; r.item as it where ((linkId = 'result/dispatched-at') and answer.value.exists()) then { it.answer first as a then { a.value as v -> obs.issued = cast(v, 'instant') "issued"; }; } "dispatchedRule"; qr.item as s where (linkId = 'specimen') then { s.item as it where ((linkId = 'specimen/collected-at') and answer.value.exists()) then { it.answer first as a then { a.value as v -> obs.effective = v "effective"; }; } "collectedAtRule"; s.item as it where ((linkId = 'specimen/lab-registration-number') and answer.value.exists()) then { it.answer first as a then { a.value as txt -> obs.identifier as ident then { txt -> ident.system = 'https://fhir.slade360.co.ke/fhir/identifier/lab-registration' "identSystem"; txt -> ident.value = txt "identValue"; } "identifier"; }; } "labRegRule"; } "specimenGroup"; } "resultObservation"; qr.item as it where ((linkId = 'clinical-history') and answer.value.exists()) -> bundle.entry as entry, entry.resource = create('Observation') as obs then { qr -> obs, entry then BuildObsBase(qr, obs, entry) "base"; qr -> obs then SetSurveyCategory(qr, obs) "category"; it -> obs.code as cc then { it -> cc.coding as cg then { it -> cg.system = 'http://loinc.org' "sys"; it -> cg.code = '55752-0' "cd"; it -> cg.display = 'Clinical information' "dsp"; } "coding"; it -> cc.text = 'Clinical history given to the laboratory' "codeText"; } "code"; it.answer first as a then { a.value as txt -> obs.note as n, n.text = txt "text"; }; } "narr_55752_0"; } // Everything every investigation on the sheet shares. Factored out because // drifting copies is how one request silently loses its priority. group SetLabRequestCommon(source qr : QR, target sr : ServiceRequest) { qr.item as g where (linkId = 'request') then { g.item as it where ((linkId = 'request/requester') and answer.value.exists()) then { it.answer first as a then { a.value as ref -> sr.requester = ref "requester"; }; } "requesterRule"; // The form's own three words mapped onto request-priority. Desperate is // stat, routine is routine; the middle one happens to share its name. g.item as it where ((linkId = 'request/urgency') and answer.value.exists()) then { it.answer first as a then { a.value as cv where (code = 'lab-urgency-desperate') -> sr.priority = 'stat' "stat"; } "desperateRule"; it.answer first as a then { a.value as cv where (code = 'lab-urgency-urgent') -> sr.priority = 'urgent' "urgent"; } "urgentRule"; it.answer first as a then { a.value as cv where (code = 'lab-urgency-routine') -> sr.priority = 'routine' "routine"; } "routineRule"; } "urgencyRule"; g.item as it where ((linkId = 'request/department') and answer.value.exists()) then { it.answer first as a then { a.value as txt -> sr.note as n, n.text = txt "departmentNote"; }; } "departmentRule"; } "requestGroup"; // The clinical history, on the request itself. The SGHI ServiceRequest // profile binds `reason` required to a LOINC value set and this form takes // free text, so a coded reason is not available -- but a laboratory that // cannot see why a test was asked for cannot interpret it either. qr.item as it where ((linkId = 'clinical-history') and answer.value.exists()) then { it.answer first as a then { a.value as txt -> sr.note as n, n.text = txt "historyNote"; }; } "historyRule"; qr.item as g where (linkId = 'specimen') then { g.item as it where ((linkId = 'specimen/collected-by') and answer.value.exists()) then { it.answer first as a then { a.value as ref -> sr.performer = ref "collectedBy"; }; } "collectedByRule"; } "specimenGroup"; } // ───────────────────────────────────────────────────────────────────────────── // Shared scaffolding. Repeated in each map rather than imported: the transform // engine resolves `imports` against whatever StructureMaps happen to be on the // server, and a form that stops extracting because a shared map was not // uploaded is a worse failure than a duplicated group. // Two notes on what the publisher's StructureMap validator says about this file. // Source parameters below are left untyped on purpose. Writing `: Element` makes // the validator compare QuestionnaireResponse.item against the literal 'Element' // and report them as incompatible with each other, which is noise, not a finding. // `evaluate(context, expression)` is flagged as "takes 1 parameter but 2 were // found". Leave it. The FML parser in the same jar refuses the one-argument form // outright -- it wants a parameter, a comma, then the FHIRPath -- so the // publisher is objecting to what its own compiler emits. Two arguments is the // only form that compiles, and it is what the R5 transform engine executes. // ───────────────────────────────────────────────────────────────────────────── group BuildObsBase(source qr : QR, target obs : Observation, target entry) { qr -> obs then SetResponseProvenance(qr, obs) "responseProvenance"; qr -> obs.id = uuid() then SetObservationFullUrl(obs, entry) "idAndFullUrl"; qr -> entry.request as request then { qr -> request.method = 'POST' "requestMethod"; qr -> request.url = 'Observation' "requestUrl"; } "entryRequest"; qr -> obs.status = 'final' "status"; qr.subject as s -> obs.subject = s; qr.encounter as e -> obs.encounter = e; qr.authored as t -> obs.effective = t "effective"; qr.source as src -> obs.performer = src "performerFromSource"; qr where (source.exists().not()) then { qr.author as a -> obs.performer = a "performerFromAuthor"; } "performerFallback"; // A stored response's id already reads "QuestionnaireResponse/<id>", so it is // a relative reference as it stands. The hasValue() guard is what stops an // unsaved response -- one posted straight to $extract rather than saved first // -- from writing "QuestionnaireResponse/null" into the record. qr.id as qid where ($this.hasValue()) -> obs.derivedFrom = create('Reference') as ref, ref.reference = qid "linkQuestionnaireResponse"; } group SetObservationFullUrl(source obs : Observation, target entry) { obs.id as id -> entry.fullUrl = append('https://fhir.slade360.co.ke/fhir/Observation/', id) "assignFullUrl"; } // The two answer shapes a component can carry. Both read the answer through the // untyped `.value` accessor: reading `valueCoding` or `valueQuantity` by its // typed property name fails at transform time on HAPI R5 with "Attempt to read // invalid property ... on QuestionnaireResponse.item.answer". group SetComponentCodedValue(source it, target comp) { it.answer first as a then { a.value as cv -> comp.value = create('CodeableConcept') as cc then { cv -> cc.coding = cv "valueCoding"; cv.display as d -> cc.text = d "valueText"; } "codedValue"; } "componentAnswer"; } group SetComponentValue(source it, target comp) { it.answer first as a then { a.value as v -> comp.value = v "plainValue"; } "componentAnswer"; } group SetSurveyCategory(source qr : QR, target obs : Observation) { qr -> obs.category as cat then { qr -> cat.coding as coding then { qr -> coding.system = 'http://terminology.hl7.org/CodeSystem/observation-category' "categorySystem"; qr -> coding.code = 'survey' "categoryCode"; qr -> coding.display = 'Survey' "categoryDisplay"; } "categoryCoding"; } "category"; } group SetLaboratoryCategory(source qr : QR, target obs : Observation) { qr -> obs.category as cat then { qr -> cat.coding as coding then { qr -> coding.system = 'http://terminology.hl7.org/CodeSystem/observation-category' "categorySystem"; qr -> coding.code = 'laboratory' "categoryCode"; qr -> coding.display = 'Laboratory' "categoryDisplay"; } "categoryCoding"; } "category"; } group BuildServiceRequestBase(source qr : QR, target r : ServiceRequest, target entry) { qr -> r then SetResponseProvenance(qr, r) "responseProvenance"; qr -> r.id = uuid() then SetServiceRequestFullUrl(r, entry) "idAndFullUrl"; qr -> entry.request as request then { qr -> request.method = 'POST' "requestMethod"; qr -> request.url = 'ServiceRequest' "requestUrl"; } "entryRequest"; qr.subject as s -> r.subject = s; } group SetServiceRequestFullUrl(source r : ServiceRequest, target entry) { r.id as id -> entry.fullUrl = append('https://fhir.slade360.co.ke/fhir/ServiceRequest/', id) "assignFullUrl"; } // ── Provenance and tenancy ─────────────────────────────────────────────────── // Two tags on everything this map creates. The first says which questionnaire // produced it, so a form that reopens mid-admission recalls its own earlier // entries and not another form's. The second copies the tenant tags off the // response, because nothing else on the path puts them there. // The code is the form's document type, not the questionnaire's id: every // environment mints its own ids, and there is only one set of maps, so an id // here would tie the tag to whichever environment stamped it. // ── Provenance and tenancy ─────────────────────────────────────────────────── group SetResponseProvenance(source qr : QR, target r) { qr -> r.meta as m then { qr -> m.tag as t then { qr -> t.system = 'http://slade360edi.com/questionnaire-provenance' "provenanceSystem"; qr -> t.code = 'lab-requisition-serology' "provenanceCode"; qr -> t.display = 'Medical laboratory requisition' "provenanceDisplay"; } "provenanceTag"; } "provenanceMeta"; // Every tag the response carries, onto the resource. `meta` is 0..1, so this // lands on the same meta the rule above created rather than a second one. qr.meta as qm then { qm.tag as qt -> r.meta as m, m.tag = qt "copyTag"; } "tenantTags"; }
FHIR
FHIRsmith{
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"documentation": "The result is free text on the paper -- \"Reactive\", \"1:160\", \"Negative\"\r\n-- so it goes to note rather than being coerced into a value type the\r\nform does not commit to. Observation.value[x] has no string choice in R5."
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],
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],
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{
"context": "a",
"element": "value",
"variable": "v"
}
],
"target": [
{
"context": "comp",
"element": "value",
"transform": "copy",
"parameter": [
{
"valueId": "v"
}
]
}
]
}
]
}
]
},
{
"name": "SetSurveyCategory",
"input": [
{
"name": "qr",
"type": "QR",
"mode": "source"
},
{
"name": "obs",
"type": "Observation",
"mode": "target"
}
],
"rule": [
{
"name": "category",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "obs",
"element": "category",
"variable": "cat"
}
],
"rule": [
{
"name": "categoryCoding",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "cat",
"element": "coding",
"variable": "coding"
}
],
"rule": [
{
"name": "categorySystem",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "coding",
"element": "system",
"transform": "copy",
"parameter": [
{
"valueString": "http://terminology.hl7.org/CodeSystem/observation-category"
}
]
}
]
},
{
"name": "categoryCode",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "coding",
"element": "code",
"transform": "copy",
"parameter": [
{
"valueString": "survey"
}
]
}
]
},
{
"name": "categoryDisplay",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "coding",
"element": "display",
"transform": "copy",
"parameter": [
{
"valueString": "Survey"
}
]
}
]
}
]
}
]
}
]
},
{
"name": "SetLaboratoryCategory",
"input": [
{
"name": "qr",
"type": "QR",
"mode": "source"
},
{
"name": "obs",
"type": "Observation",
"mode": "target"
}
],
"rule": [
{
"name": "category",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "obs",
"element": "category",
"variable": "cat"
}
],
"rule": [
{
"name": "categoryCoding",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "cat",
"element": "coding",
"variable": "coding"
}
],
"rule": [
{
"name": "categorySystem",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "coding",
"element": "system",
"transform": "copy",
"parameter": [
{
"valueString": "http://terminology.hl7.org/CodeSystem/observation-category"
}
]
}
]
},
{
"name": "categoryCode",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "coding",
"element": "code",
"transform": "copy",
"parameter": [
{
"valueString": "laboratory"
}
]
}
]
},
{
"name": "categoryDisplay",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "coding",
"element": "display",
"transform": "copy",
"parameter": [
{
"valueString": "Laboratory"
}
]
}
]
}
]
}
]
}
]
},
{
"name": "BuildServiceRequestBase",
"input": [
{
"name": "qr",
"type": "QR",
"mode": "source"
},
{
"name": "r",
"type": "ServiceRequest",
"mode": "target"
},
{
"name": "entry",
"mode": "target"
}
],
"rule": [
{
"name": "responseProvenance",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "r"
}
],
"dependent": [
{
"name": "SetResponseProvenance",
"parameter": [
{
"valueId": "qr"
},
{
"valueId": "r"
}
]
}
]
},
{
"name": "idAndFullUrl",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "r",
"element": "id",
"transform": "uuid"
}
],
"dependent": [
{
"name": "SetServiceRequestFullUrl",
"parameter": [
{
"valueId": "r"
},
{
"valueId": "entry"
}
]
}
]
},
{
"name": "entryRequest",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "entry",
"element": "request",
"variable": "request"
}
],
"rule": [
{
"name": "requestMethod",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "request",
"element": "method",
"transform": "copy",
"parameter": [
{
"valueString": "POST"
}
]
}
]
},
{
"name": "requestUrl",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "request",
"element": "url",
"transform": "copy",
"parameter": [
{
"valueString": "ServiceRequest"
}
]
}
]
}
]
},
{
"name": "subject",
"source": [
{
"context": "qr",
"element": "subject",
"variable": "s"
}
],
"target": [
{
"context": "r",
"element": "subject",
"transform": "copy",
"parameter": [
{
"valueId": "s"
}
]
}
]
}
]
},
{
"name": "SetServiceRequestFullUrl",
"input": [
{
"name": "r",
"type": "ServiceRequest",
"mode": "source"
},
{
"name": "entry",
"mode": "target"
}
],
"rule": [
{
"name": "assignFullUrl",
"source": [
{
"context": "r",
"element": "id",
"variable": "id"
}
],
"target": [
{
"context": "entry",
"element": "fullUrl",
"transform": "append",
"parameter": [
{
"valueString": "https://fhir.slade360.co.ke/fhir/ServiceRequest/"
},
{
"valueId": "id"
}
]
}
]
}
]
},
{
"name": "SetResponseProvenance",
"documentation": "── Provenance and tenancy ───────────────────────────────────────────────────\r\nTwo tags on everything this map creates. The first says which questionnaire\r\nproduced it, so a form that reopens mid-admission recalls its own earlier\r\nentries and not another form's. The second copies the tenant tags off the\r\nresponse, because nothing else on the path puts them there.\r\nThe code is the form's document type, not the questionnaire's id: every\r\nenvironment mints its own ids, and there is only one set of maps, so an id\r\nhere would tie the tag to whichever environment stamped it.\r\n── Provenance and tenancy ───────────────────────────────────────────────────",
"input": [
{
"name": "qr",
"type": "QR",
"mode": "source"
},
{
"name": "r",
"mode": "target"
}
],
"rule": [
{
"name": "provenanceMeta",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "r",
"element": "meta",
"variable": "m"
}
],
"rule": [
{
"name": "provenanceTag",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "m",
"element": "tag",
"variable": "t"
}
],
"rule": [
{
"name": "provenanceSystem",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "t",
"element": "system",
"transform": "copy",
"parameter": [
{
"valueString": "http://slade360edi.com/questionnaire-provenance"
}
]
}
]
},
{
"name": "provenanceCode",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "t",
"element": "code",
"transform": "copy",
"parameter": [
{
"valueString": "lab-requisition-serology"
}
]
}
]
},
{
"name": "provenanceDisplay",
"source": [
{
"context": "qr"
}
],
"target": [
{
"context": "t",
"element": "display",
"transform": "copy",
"parameter": [
{
"valueString": "Medical laboratory requisition"
}
]
}
]
}
]
}
]
},
{
"name": "tenantTags",
"source": [
{
"context": "qr",
"element": "meta",
"variable": "qm"
}
],
"rule": [
{
"name": "copyTag",
"source": [
{
"context": "qm",
"element": "tag",
"variable": "qt"
}
],
"target": [
{
"context": "r",
"element": "meta",
"variable": "m"
},
{
"context": "m",
"element": "tag",
"transform": "copy",
"parameter": [
{
"valueId": "qt"
}
]
}
]
}
],
"documentation": "Every tag the response carries, onto the resource. `meta` is 0..1, so this\r\nlands on the same meta the rule above created rather than a second one."
}
]
}
]
}