plan_executor 1.0.2 → 1.8.0

data/fixtures/diagnostic_report/diagnosticreport-familyhistory-create.xml

@@ -0,0 +1,67 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<DiagnosticReport xmlns="http://hl7.org/fhir">
+	<text>
+		<status value="generated"/>
+		<div xmlns="http://www.w3.org/1999/xhtml">
+			<h3>Genetic test Report for Mary Chambers</h3>
+			<pre>
+				Gene                DNAVariation       Status        Interpretation
+				BRCA2                 185delAG        Positive         Pathogenic
+			</pre>
+			<p> Method: BRACAnalysis CDx Offered by Myriad Genetic Laboratories, Inc </p>
+			<p> Issued: 2015-05-26T15:30:10+01:00</p>
+			<p> FamilyMemeberHistory: Mother </p>
+			<pre>
+				Gene                 DNAVariation      Status
+				BRCA2                 185delAG        Positive
+			</pre>
+			<p> Method: BRACAnalysis CDx Offered by Myriad Genetic Laboratories, Inc </p>
+		</div>
+	</text>
+	<extension url="http://hl7.org/fhir/StructureDefinition/DiagnosticReport-geneticsFamilyMemberHistory">
+		<valueReference>
+			<reference value="FamilyMemberHistory/${createFamilyMemberHistoryId}"/>
+		</valueReference>
+	</extension>
+	<identifier>
+		<system value="http://happyvalley.com/diagnosticreport"/>
+		<value value="${CD7}${D11}"/>
+	</identifier>
+	<status value="final"/>
+	<category>
+		<coding>
+			<system value="http://snomed.info/sct"/>
+			<code value="15220000"/>
+			<display value="Laboratory test"/>
+		</coding>
+		<coding>
+			<system value="http://hl7.org/fhir/v2/0074"/>
+			<code value="LAB"/>
+		</coding>
+	</category>
+	<code>
+		<coding>
+			<system value="http://loinc.org"/>
+			<code value="55233-1"/>
+			<display value="Genetic analysis master panel"/>
+		</coding>
+	</code>
+	<subject>
+		<reference value="Patient/${createPatientId}"/>
+		<display value="Mary Chambers"/>
+	</subject>
+	<effectiveDateTime value="2015-05-26T15:30:10+01:00"/>
+	<issued value="2014-05-16T10:28:00+01:00"/>
+	<performer>
+		<reference value="Practitioner/${createPractitionerId}"/>
+		<display value="Molecular Diagnostic Laboratory"/>
+	</performer>
+	<specimen>
+		<reference value="Specimen/${createSpecimenId}"/>
+		<display value="Molecular Specimen ID: MLD45-Z4-1234"/>
+	</specimen>
+	<result>
+		<reference value="Observation/${createObservationId}"/>
+		<display value="Genetic analysis for BRAC -2"/>
+	</result>
+</DiagnosticReport>

data/fixtures/diagnostic_report/diagnosticreport-hlatyping-create.xml

@@ -0,0 +1,64 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<DiagnosticReport xmlns="http://hl7.org/fhir">
+	<text>
+		<status value="generated"/>
+		<div xmlns="http://www.w3.org/1999/xhtml">
+			<p>
+				<b>Generated Narrative with Details</b>
+			</p>
+			<p>
+				<b>status</b>: final</p>
+			<p>
+				<b>code</b>: HLA genotyping results <span>(Details )</span>
+			</p>
+			<p>
+				<b>subject</b>: <a>Molecular Lab Patient ID: HOSP-${CD9}${D9}</a>
+			</p>
+			<p>
+				<b>effective</b>: May 26, 2015 3:30:10 PM</p>
+			<p>
+				<b>issued</b>: May 26, 2015 3:30:10 PM</p>
+			<p>
+				<b>performer</b>: <a>Molecular Diagnostic Laboratory</a>
+			</p>
+			<p>
+				<b>specimen</b>: <a>Molecular Specimen ID: MLD45-Z4-1234</a>
+			</p>
+		</div>
+	</text>
+	<extension url="http://hl7.org/fhir/StructureDefinition/hla-genotyping-resultsAlleleAsignmentDate">
+		<valueDate value="2014-10-22"/>
+	</extension>
+	<extension url="http://hl7.org/fhir/StructureDefinition/hla-genotyping-resultsGlstring">
+		<extension url="text">
+			<valueString value="HLA-A*01:01:01+HLA-A*24:02:01"/>
+		</extension>
+	</extension>
+	<extension url="http://hl7.org/fhir/StructureDefinition/hla-genotyping-resultsConsensusSequenceBlock">
+		<valueReference>
+			<reference value="Observation/${createObservationId}"/>
+		</valueReference>
+	</extension>
+	<identifier>
+		<system value="http://acme.com/lab/reports"/>
+		<value value="${CD9}-${D7}"/>
+	</identifier>
+	<status value="final"/>
+	<code>
+		<text value="HLA genotyping results"/>
+	</code>
+	<subject>
+		<reference value="Patient/${createPatientId}"/>
+		<display value="Molecular Lab Patient ID: HOSP-${CD9}${D9}"/>
+	</subject>
+	<effectiveDateTime value="2015-05-26T15:30:10+01:00"/>
+	<issued value="2015-05-26T15:30:10+01:00"/>
+	<performer>
+		<reference value="Practitioner/${createPractitionerId}"/>
+		<display value="Molecular Diagnostic Laboratory"/>
+	</performer>
+	<specimen>
+		<reference value="Specimen/${createSpecimenId}"/>
+		<display value="Molecular Specimen ID: MLD45-Z4-1234"/>
+	</specimen>
+</DiagnosticReport>

data/fixtures/diagnostic_report/diagnosticreport-pathologyreport-create.xml

@@ -0,0 +1,312 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<DiagnosticReport xmlns="http://hl7.org/fhir">
+	<text>
+		<status value="generated"/>
+		<div xmlns="http://www.w3.org/1999/xhtml">comprehensive bone marrow report</div>
+	</text>
+	<contained>
+		<Observation>
+			<id value="o1"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="26464-8"/>
+					<display value="Leukocytes [#/volume] in Blood"/>
+				</coding>
+			</code>
+			<valueQuantity>
+				<value value="31.9"/>
+				<unit value="K/ul"/>
+			</valueQuantity>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o2"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="20570-8"/>
+					<display value="Hematocrit [Volume Fraction] of Blood"/>
+				</coding>
+			</code>
+			<valueQuantity>
+				<value value="27"/>
+				<unit value="%"/>
+			</valueQuantity>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o3"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="26515-7"/>
+					<display value="Platelets [#/volume] in Blood"/>
+				</coding>
+			</code>
+			<valueQuantity>
+				<value value="84"/>
+				<unit value="K/ul"/>
+			</valueQuantity>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o4"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="75034-9"/>
+					<display value="NPM1 gene mutations found [Identifier] in Bone marrow by Molecular genetics method Nominal"/>
+				</coding>
+			</code>
+			<valueCodeableConcept>
+				<coding>
+					<system value="http://snomed.info/sct"/>
+					<code value="10828004"/>
+					<display value="Positive"/>
+				</coding>
+			</valueCodeableConcept>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o5"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="54447-8"/>
+					<display value="FLT3 gene mutation analysis in Bone marrow by Molecular genetics method Narrative"/>
+				</coding>
+			</code>
+			<valueCodeableConcept>
+				<coding>
+					<system value="http://snomed.info/sct"/>
+					<code value="260385009"/>
+					<display value="Negative"/>
+				</coding>
+			</valueCodeableConcept>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o6"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="55201-8"/>
+					<display value="KIT gene mutation analysis in Bone marrow by Molecular genetics method Narrative"/>
+				</coding>
+			</code>
+			<valueCodeableConcept>
+				<coding>
+					<system value="http://snomed.info/sct"/>
+					<code value="260385009"/>
+					<display value="Negative"/>
+				</coding>
+			</valueCodeableConcept>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o7"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="30444-4"/>
+					<display value="Myeloblasts [#/volume] in Blood"/>
+				</coding>
+			</code>
+			<valueCodeableConcept>
+				<coding>
+					<system value="http://snomed.info/sct"/>
+					<code value="10828004"/>
+					<display value="Positive"/>
+				</coding>
+			</valueCodeableConcept>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o8"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="47016-1"/>
+					<display value="CD4 Ag [Presence] in Tissue by Immune stain"/>
+				</coding>
+			</code>
+			<valueCodeableConcept>
+				<coding>
+					<system value="http://snomed.info/sct"/>
+					<code value="10828004"/>
+					<display value="Positive"/>
+				</coding>
+			</valueCodeableConcept>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o9"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="49464-1"/>
+					<display value="CD13 Ag [Presence] in Tissue by Immune stain"/>
+				</coding>
+			</code>
+			<valueCodeableConcept>
+				<coding>
+					<system value="http://snomed.info/sct"/>
+					<code value="10828004"/>
+					<display value="Positive"/>
+				</coding>
+			</valueCodeableConcept>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o10"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="49466-6"/>
+					<display value="CD2 Ag [Presence] in Tissue by Immune stain"/>
+				</coding>
+			</code>
+			<valueCodeableConcept>
+				<coding>
+					<system value="http://snomed.info/sct"/>
+					<code value="260385009"/>
+					<display value="Negative"/>
+				</coding>
+			</valueCodeableConcept>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o11"/>
+			<status value="final"/>
+			<code>
+				<coding>
+					<system value="http://loinc.org"/>
+					<code value="33893-9"/>
+					<display value="Karyotype [Identifier] in Bone marrow Nominal"/>
+				</coding>
+			</code>
+			<valueCodeableConcept>
+				<text value="46,XX[20]"/>
+			</valueCodeableConcept>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o12"/>
+			<status value="final"/>
+			<code>
+				<text value="MDS-associated genetic abnormalities"/>
+			</code>
+			<valueCodeableConcept>
+				<coding>
+					<system value="http://snomed.info/sct"/>
+					<code value="260385009"/>
+					<display value="Negative"/>
+				</coding>
+			</valueCodeableConcept>
+		</Observation>
+	</contained>
+	<contained>
+		<Observation>
+			<id value="o13"/>
+			<status value="final"/>
+			<code>
+				<text value="AML-associated genetic abnormalities"/>
+			</code>
+			<valueCodeableConcept>
+				<coding>
+					<system value="http://snomed.info/sct"/>
+					<code value="260385009"/>
+					<display value="Negative"/>
+				</coding>
+			</valueCodeableConcept>
+		</Observation>
+	</contained>
+	<extension url="http://hl7.org/fhir/StructureDefinition/DiagnosticReport-geneticsAssessedCondition">
+		<valueReference>
+			<reference value="Condition/${createConditionId}"/>
+		</valueReference>
+	</extension>
+	<identifier>
+		<system value="http://happyvalley.com/diagnosticreport"/>
+		<value value="${CD10}-${D8}"/>
+	</identifier>
+	<status value="final"/>
+	<code>
+		<text value="comprehensive bone marrow report"/>
+	</code>
+	<subject>
+		<reference value="Patient/${createPatientId}"/>
+		<display value="Everywoman, Eve A, MRN: HOSP-${CD14}${D4}"/>
+	</subject>
+	<effectiveDateTime value='2015-01-02T13:20:10+01:00'/>
+	<issued value='2015-01-06T13:20:10+01:00'/>
+	<performer>
+		<reference value="Practitioner/${createPractitionerId}"/>
+		<display value="Molecular Diagnostic Laboratory"/>
+	</performer>
+	<specimen>
+		<reference value="Specimen/${createSpecimenId}"/>
+		<display value="Bone marrow ID: MLD45-Z4-1234"/>
+	</specimen>
+	<result>
+		<reference value="#o1"/>
+	</result>
+	<result>
+		<reference value="#o2"/>
+	</result>
+	<result>
+		<reference value="#o3"/>
+	</result>
+	<result>
+		<reference value="#o4"/>
+	</result>
+	<result>
+		<reference value="#o5"/>
+	</result>
+	<result>
+		<reference value="#o6"/>
+	</result>
+	<result>
+		<reference value="#o7"/>
+	</result>
+	<result>
+		<reference value="#o8"/>
+	</result>
+	<result>
+		<reference value="#o9"/>
+	</result>
+	<result>
+		<reference value="#o10"/>
+	</result>
+	<result>
+		<reference value="#o11"/>
+	</result>
+	<result>
+		<reference value="#o12"/>
+	</result>
+	<result>
+		<reference value="#o13"/>
+	</result>
+</DiagnosticReport>

data/fixtures/diagnostic_report/dr-100.xml

@@ -31,7 +31,7 @@
       </p>
       <p>
         <b>request</b>: 
-        <a href="DiagnosticOrder/do-100">DiagnosticOrder/do-100</a>
+        <a href="DiagnosticRequest/do-100">DiagnosticRequest/do-100</a>
       </p>
       <p>
         <b>specimen</b>: 
@@ -78,8 +78,8 @@
     <display value="Acme Labs"/>
   </performer>
   <request>
-    <reference value="DiagnosticOrder/do-100"/>
-    <display value="DiagnosticOrder/do-100"/>
+    <reference value="DiagnosticRequest/do-100"/>
+    <display value="DiagnosticRequest/do-100"/>
   </request>
   <specimen>
     <reference value="Specimen/spec-100"/>