Examples with TS org.hl7.v3.TS used on opensource projects

Example 6 with TS

use of org.hl7.v3.TS in project kindling by HL7.

the class ProfileGenerator method makeSearchParam.

public SearchParameter makeSearchParam(StructureDefinition p, String id, String rn, SearchParameterDefn spd, ResourceDefn rd) throws Exception {
    boolean shared;
    boolean created = true;
    SearchParameter sp;
    if (definitions.getCommonSearchParameters().containsKey(rn + "::" + spd.getCode())) {
        shared = true;
        CommonSearchParameter csp = definitions.getCommonSearchParameters().get(rn + "::" + spd.getCode());
        if (csp.getDefinition() == null) {
            sp = new SearchParameter();
            csp.setDefinition(sp);
            sp.setId(csp.getId());
        } else {
            created = false;
            sp = csp.getDefinition();
        }
    } else {
        shared = false;
        sp = new SearchParameter();
        sp.setId(id.replace("[", "").replace("]", ""));
    }
    spd.setCommonId(sp.getId());
    if (created) {
        sp.setUrl("http://hl7.org/fhir/SearchParameter/" + sp.getId());
        sp.setVersion(version.toCode());
        if (context.getSearchParameter(sp.getUrl()) != null)
            throw new Exception("Duplicated Search Parameter " + sp.getUrl());
        context.cacheResource(sp);
        spd.setResource(sp);
        definitions.addNs(sp.getUrl(), "Search Parameter: " + sp.getName(), rn.toLowerCase() + ".html#search");
        sp.setStatus(spd.getStandardsStatus() == StandardsStatus.NORMATIVE ? PublicationStatus.fromCode("active") : PublicationStatus.fromCode("draft"));
        StandardsStatus sst = ToolingExtensions.getStandardsStatus(sp);
        if (sst == null || (spd.getStandardsStatus() == null && spd.getStandardsStatus().isLowerThan(sst)))
            ToolingExtensions.setStandardsStatus(sp, spd.getStandardsStatus(), spd.getNormativeVersion());
        sp.setExperimental(p.getExperimental());
        sp.setName(spd.getCode());
        sp.setCode(spd.getCode());
        sp.setDate(genDate.getTime());
        sp.setPublisher(p.getPublisher());
        for (ContactDetail tc : p.getContact()) {
            ContactDetail t = sp.addContact();
            if (tc.hasNameElement())
                t.setNameElement(tc.getNameElement().copy());
            for (ContactPoint ts : tc.getTelecom()) t.getTelecom().add(ts.copy());
        }
        if (!definitions.hasResource(p.getType()) && !p.getType().equals("Resource") && !p.getType().equals("DomainResource"))
            throw new Exception("unknown resource type " + p.getType());
        sp.setType(getSearchParamType(spd.getType()));
        if (sp.getType() == SearchParamType.REFERENCE && spd.isHierarchy()) {
            sp.addModifier(SearchParameter.SearchModifierCode.BELOW);
            sp.addModifier(SearchParameter.SearchModifierCode.ABOVE);
        }
        if (shared) {
            sp.setDescription("Multiple Resources: \r\n\r\n* [" + rn + "](" + rn.toLowerCase() + ".html): " + spd.getDescription() + "\r\n");
        } else
            sp.setDescription(preProcessMarkdown(spd.getDescription(), "Search Description"));
        if (!Utilities.noString(spd.getExpression()))
            sp.setExpression(spd.getExpression());
        // addModifiers(sp);
        addComparators(sp);
        String xpath = Utilities.noString(spd.getXPath()) ? new XPathQueryGenerator(this.definitions, null, null).generateXpath(spd.getPaths(), rn) : spd.getXPath();
        if (xpath != null) {
            if (xpath.contains("[x]"))
                xpath = convertToXpath(xpath);
            sp.setXpath(xpath);
            sp.setXpathUsage(spd.getxPathUsage());
        }
        if (sp.getType() == SearchParamType.COMPOSITE) {
            for (CompositeDefinition cs : spd.getComposites()) {
                SearchParameterDefn cspd = findSearchParameter(rd, cs.getDefinition());
                if (cspd != null)
                    sp.addComponent().setExpression(cs.getExpression()).setDefinition(cspd.getUrl());
                else
                    sp.addComponent().setExpression(cs.getExpression()).setDefinition("http://hl7.org/fhir/SearchParameter/" + rn + "-" + cs.getDefinition());
            }
            sp.setMultipleOr(false);
        }
        sp.addBase(p.getType());
    } else {
        if (sp.getType() != getSearchParamType(spd.getType()))
            throw new FHIRException("Type mismatch on common parameter: expected " + sp.getType().toCode() + " but found " + getSearchParamType(spd.getType()).toCode());
        if (!sp.getDescription().contains("[" + rn + "](" + rn.toLowerCase() + ".html)"))
            sp.setDescription(sp.getDescription() + "* [" + rn + "](" + rn.toLowerCase() + ".html): " + spd.getDescription() + "\r\n");
        // ext.addExtension("description", new MarkdownType(spd.getDescription()));
        if (!Utilities.noString(spd.getExpression()) && !sp.getExpression().contains(spd.getExpression()))
            sp.setExpression(sp.getExpression() + " | " + spd.getExpression());
        String xpath = new XPathQueryGenerator(this.definitions, null, null).generateXpath(spd.getPaths(), rn);
        if (xpath != null) {
            if (xpath.contains("[x]"))
                xpath = convertToXpath(xpath);
            if (sp.getXpath() != null && !sp.getXpath().contains(xpath))
                sp.setXpath(sp.getXpath() + " | " + xpath);
            if (sp.getXpathUsage() != spd.getxPathUsage())
                throw new FHIRException("Usage mismatch on common parameter: expected " + sp.getXpathUsage().toCode() + " but found " + spd.getxPathUsage().toCode());
        }
        boolean found = false;
        for (CodeType ct : sp.getBase()) found = found || p.getType().equals(ct.asStringValue());
        if (!found)
            sp.addBase(p.getType());
    }
    spd.setUrl(sp.getUrl());
    for (String target : spd.getWorkingTargets()) {
        if ("Any".equals(target) == true) {
            for (String resourceName : definitions.sortedResourceNames()) {
                boolean found = false;
                for (CodeType st : sp.getTarget()) found = found || st.asStringValue().equals(resourceName);
                if (!found)
                    sp.addTarget(resourceName);
            }
        } else {
            boolean found = false;
            for (CodeType st : sp.getTarget()) found = found || st.asStringValue().equals(target);
            if (!found)
                sp.addTarget(target);
        }
    }
    return sp;
}

Example 7 with TS

use of org.hl7.v3.TS in project hl7v2-fhir-converter by LinuxForHealth.

the class Hl7ORUMessageTest method test_oru_with_specimen.

// Suppress warnings about too many assertions in a test.  Justification: creating a FHIR message is very costly; we need to check many asserts per creation for efficiency.
@java.lang.SuppressWarnings("squid:S5961")
@Test
void test_oru_with_specimen() throws IOException {
    String hl7message = "MSH|^~\\\\&|SendTest1|Sendfac1|Receiveapp1|Receivefac1|200603081747|security|ORU^R01|MSGID000005|T|2.6\r" + "PID||45483|45483||SMITH^SUZIE^||20160813|M|||123 MAIN STREET^^SCHENECTADY^NY^12345||(123)456-7890|||||^^^T||||||||||||\r" + "OBR|1||986^IA PHIMS Stage^2.16.840.1.114222.4.3.3.5.1.2^ISO|1051-2^New Born Screening^LN|||20151009173644|||||||||||||002|||||F|||2740^Tsadok^Janetary~2913^Merrit^Darren^F~3065^Mahoney^Paul^J~4723^Loh^Robert^L~9052^Winter^Oscar^||||3065^Mahoney^Paul^J|\r" + "OBX|1|ST|TS-F-01-002^Endocrine Disorders^L||obs report||||||F\r" + "SPM|1|SpecimenID||BLD|||||||P||||||201410060535|201410060821||Y||||||1\r";
    List<BundleEntryComponent> e = ResourceUtils.createFHIRBundleFromHL7MessageReturnEntryList(ftv, hl7message);
    // Verify that the right resources are created
    List<Resource> patientResource = ResourceUtils.getResourceList(e, ResourceType.Patient);
    assertThat(patientResource).hasSize(1);
    List<Resource> diagnosticReport = ResourceUtils.getResourceList(e, ResourceType.DiagnosticReport);
    assertThat(diagnosticReport).hasSize(1);
    List<Resource> servReqResource = ResourceUtils.getResourceList(e, ResourceType.ServiceRequest);
    assertThat(servReqResource).hasSize(1);
    List<Resource> obsResource = ResourceUtils.getResourceList(e, ResourceType.Observation);
    assertThat(obsResource).hasSize(1);
    List<Resource> practitionerResource = ResourceUtils.getResourceList(e, ResourceType.Practitioner);
    assertThat(practitionerResource).hasSize(1);
    List<Resource> specimenResource = ResourceUtils.getResourceList(e, ResourceType.Specimen);
    assertThat(specimenResource).hasSize(1);
    // Expecting only the above resources, no extras!
    assertThat(e).hasSize(6);
    // /////////////////////////////////////////
    // Now confirm content of the diagnosticReport because we don't have separate tests for DiagnosticReport
    // /////////////////////////////////////////
    DiagnosticReport diag = ResourceUtils.getResourceDiagnosticReport(diagnosticReport.get(0), context);
    // Verify status from OBR.25
    assertThat(diag.getStatus().toCode()).isEqualTo("final");
    // Verify category from OBR.24
    assertThat(diag.getCategory()).isEmpty();
    // Verify code from OBR.4
    assertThat(diag.hasCode()).isTrue();
    List<Coding> codings = diag.getCode().getCoding();
    assertThat(codings).hasSize(1);
    Coding coding = codings.get(0);
    assertThat(coding.hasDisplay()).isTrue();
    assertThat(coding.getDisplay()).hasToString("New Born Screening");
    assertThat(coding.hasCode()).isTrue();
    assertThat(coding.getCode()).hasToString("1051-2");
    assertThat(coding.hasSystem()).isTrue();
    assertThat(coding.getSystem()).hasToString("http://loinc.org");
    // Verify encounter reference
    assertThat(diag.getEncounter().isEmpty()).isTrue();
    // Verify subject reference
    assertThat(diag.getSubject().isEmpty()).isFalse();
    // Verify effectiveDateTime from OBR.7 and OBR.8
    // This also verifies the type, confirming effectiveDateTime was set rather than effectivePeriod
    assertThat(diag.getEffectiveDateTimeType().asStringValue()).isEqualTo("2015-10-09T17:36:44+08:00");
    // Verify issued from OBR.22
    assertThat(diag.getIssued()).isNull();
    // Verify resultsInterpreter from OBR.32
    assertThat(diag.getResultsInterpreter()).hasSize(1);
    // Verify basedOn is ref to the ServiceRequest created for ORC or OBR
    assertThat(diag.getBasedOn()).hasSize(1);
    assertThat(diag.getBasedOn().get(0).getReference().substring(0, 15)).isEqualTo("ServiceRequest/");
    // Verify specimen reference
    List<Reference> spmRef = diag.getSpecimen();
    assertThat(spmRef).hasSize(1);
    assertThat(spmRef.get(0).isEmpty()).isFalse();
    // Verify result reference
    List<Reference> obsRef = diag.getResult();
    assertThat(obsRef).hasSize(1);
    assertThat(obsRef.get(0).isEmpty()).isFalse();
    // Verify presentedForm from OBX of type ST - No attachments expected because OBX of type not TX creates an Observation.
    List<Attachment> attachments = diag.getPresentedForm();
    Assertions.assertEquals(0, attachments.size(), "Unexpected number of attachments");
    // //////////////////////////////////
    for (Resource res : obsResource) {
        // Verify encounter reference
        Observation obs = (Observation) res;
        assertThat(obs.getEncounter().isEmpty()).isTrue();
        // Verify subject reference to Patient exists
        assertThat(obs.getSubject().isEmpty()).isFalse();
        assertThat(obs.getSubject().getReference().substring(0, 8)).isEqualTo("Patient/");
    }
}

Example 8 with TS

use of org.hl7.v3.TS in project hl7v2-fhir-converter by LinuxForHealth.

the class Hl7ORUMessageTest method test_oru_with_multiple_reports.

// Suppress warnings about too many assertions in a test.  Justification: creating a FHIR message is very costly; we need to check many asserts per creation for efficiency.
@java.lang.SuppressWarnings("squid:S5961")
@Test
void test_oru_with_multiple_reports() throws IOException {
    String hl7message = "MSH|^~\\\\&|SendTest1|Sendfac1|Receiveapp1|Receivefac1|200603081747|security|ORU^R01|MSGID000005|T|2.6\r" + "PID||45483|45483||SMITH^SUZIE^||20160813|M|||123 MAIN STREET^^SCHENECTADY^NY^12345||(123)456-7890|||||^^^T||||||||||||\r" + "OBR|1||986^IA PHIMS Stage^2.16.840.1.114222.4.3.3.5.1.2^ISO|112^Final Echocardiogram Report|||20151009173644|||||||||||||002|||||F|||2740^Tsadok^Janetary~2913^Merrit^Darren^F~3065^Mahoney^Paul^J~4723^Loh^Robert^L~9052^Winter^Oscar^||||3068^JOHN^Paul^J|\r" + "OBX|1|ST|TS-F-01-007^Endocrine Disorders 7^L||obs report||||||F\r" + "OBX|2|ST|TS-F-01-008^Endocrine Disorders 8^L||ECHOCARDIOGRAPHIC REPORT||||||F\r" + "OBR|1||98^IA PHIMS Stage^2.16.840.1.114222.4.3.3.5.1.2^ISO|113^Echocardiogram Report|||20151009173644|||||||||||||002|||||F|||2740^Tsadok^Janetary~2913^Merrit^Darren^F~3065^Mahoney^Paul^J~4723^Loh^Robert^L~9052^Winter^Oscar^||||3065^Mahoney^Paul^J|\r" + "OBX|1|CWE|625-4^Bacteria identified in Stool by Culture^LN^^^^2.33^^result1|1|27268008^Salmonella^SCT^^^^20090731^^Salmonella species|||A^A^HL70078^^^^2.5|||P|||20120301|||^^^^^^^^Bacterial Culture||201203140957||||||\r" + "OBX|2|ST|TS-F-01-002^Endocrine Disorders^L||ECHOCARDIOGRAPHIC REPORT Group 2||||||F\r";
    List<BundleEntryComponent> e = ResourceUtils.createFHIRBundleFromHL7MessageReturnEntryList(ftv, hl7message);
    // Verify that the right resources are being created
    List<Resource> patientResource = ResourceUtils.getResourceList(e, ResourceType.Patient);
    assertThat(patientResource).hasSize(1);
    List<Resource> obsResource = ResourceUtils.getResourceList(e, ResourceType.Observation);
    assertThat(obsResource).hasSize(4);
    List<Resource> practitionerResource = ResourceUtils.getResourceList(e, ResourceType.Practitioner);
    assertThat(practitionerResource).hasSize(2);
    List<Resource> diagnosticReport = ResourceUtils.getResourceList(e, ResourceType.DiagnosticReport);
    assertThat(diagnosticReport).hasSize(2);
    List<Resource> servReqResource = ResourceUtils.getResourceList(e, ResourceType.ServiceRequest);
    assertThat(servReqResource).hasSize(2);
    // Expecting only the above resources, no extras!
    assertThat(e).hasSize(11);
    // /////////////////////////////////////////
    // Now confirm content of the FIRST diagnosticReport because we don't have separate tests for DiagnosticReport
    // /////////////////////////////////////////
    DiagnosticReport diag = ResourceUtils.getResourceDiagnosticReport(diagnosticReport.get(0), context);
    // Verify status from OBR.25
    assertThat(diag.getStatus().toCode()).isEqualTo("final");
    // Verify category from OBR.24
    assertThat(diag.getCategory()).isEmpty();
    // Verify code from OBR.4
    assertThat(diag.hasCode()).isTrue();
    List<Coding> codings = diag.getCode().getCoding();
    assertThat(codings).hasSize(1);
    Coding coding = codings.get(0);
    assertThat(coding.hasDisplay()).isTrue();
    assertThat(coding.getDisplay()).hasToString("Final Echocardiogram Report");
    assertThat(coding.hasCode()).isTrue();
    assertThat(coding.getCode()).hasToString("112");
    assertThat(coding.hasSystem()).isFalse();
    // Verify encounter reference
    assertThat(diag.getEncounter().isEmpty()).isTrue();
    // Verify subject reference
    assertThat(diag.getSubject().isEmpty()).isFalse();
    // Verify effectiveDateTime from OBR.7 and OBR.8
    // This also verifies the type, confirming effectiveDateTime was set rather than effectivePeriod
    assertThat(diag.getEffectiveDateTimeType().asStringValue()).isEqualTo("2015-10-09T17:36:44+08:00");
    // Verify issued from OBR.22
    assertThat(diag.getIssued()).isNull();
    // Verify resultsInterpreter from OBR.32
    assertThat(diag.getResultsInterpreter()).hasSize(1);
    // Verify basedOn is ref to the ServiceRequest created for ORC or OBR
    assertThat(diag.getBasedOn()).hasSize(1);
    assertThat(diag.getBasedOn().get(0).getReference().substring(0, 15)).isEqualTo("ServiceRequest/");
    // Verify specimen reference
    assertThat(diag.getSpecimen()).isEmpty();
    // Verify result reference
    List<Reference> obsRef = diag.getResult();
    assertThat(obsRef).hasSize(2);
    assertThat(obsRef.get(0).isEmpty()).isFalse();
    // Verify presentedForm from OBX of type TX - In this case no attachments created because the OBX is not of type TX.
    List<Attachment> attachments = diag.getPresentedForm();
    Assertions.assertEquals(0, attachments.size(), "Unexpected number of attachments");
    // /////////////////////////////////////////
    // Now confirm content of the SECOND diagnosticReport because we don't have separate tests for DiagnosticReport
    // /////////////////////////////////////////
    DiagnosticReport diag2 = ResourceUtils.getResourceDiagnosticReport(diagnosticReport.get(0), context);
    // Verify status from OBR.25
    assertThat(diag2.getStatus().toCode()).isEqualTo("final");
    // Verify category from OBR.24
    assertThat(diag2.getCategory()).isEmpty();
    // Verify code from OBR.4
    assertThat(diag2.hasCode()).isTrue();
    List<Coding> codings2 = diag2.getCode().getCoding();
    assertThat(codings2).hasSize(1);
    Coding coding2 = codings.get(0);
    assertThat(coding2.hasDisplay()).isTrue();
    assertThat(coding2.getDisplay()).hasToString("Final Echocardiogram Report");
    assertThat(coding2.hasCode()).isTrue();
    assertThat(coding2.getCode()).hasToString("112");
    assertThat(coding2.hasSystem()).isFalse();
    // Verify encounter reference
    assertThat(diag2.getEncounter().isEmpty()).isTrue();
    // Verify subject reference
    assertThat(diag2.getSubject().isEmpty()).isFalse();
    // Verify effectiveDateTime from OBR.7 and OBR.8
    // This also verifies the type, confirming effectiveDateTime was set rather than effectivePeriod
    assertThat(diag2.getEffectiveDateTimeType().asStringValue()).isEqualTo("2015-10-09T17:36:44+08:00");
    // Verify issued from OBR.22
    assertThat(diag2.getIssued()).isNull();
    // Verify resultsInterpreter from OBR.32
    assertThat(diag2.getResultsInterpreter()).hasSize(1);
    // Verify basedOn is ref to the ServiceRequest created for ORC or OBR
    assertThat(diag.getBasedOn()).hasSize(1);
    assertThat(diag.getBasedOn().get(0).getReference().substring(0, 15)).isEqualTo("ServiceRequest/");
    // Verify specimen reference
    assertThat(diag2.getSpecimen()).isEmpty();
    // Verify result reference
    List<Reference> obsRef2 = diag2.getResult();
    assertThat(obsRef2).hasSize(2);
    assertThat(obsRef2.get(0).isEmpty()).isFalse();
    // Verify presentedForm from OBX of type TX - In this case no attachments created because the OBX is not type TX.
    List<Attachment> attachments2 = diag2.getPresentedForm();
    Assertions.assertEquals(0, attachments2.size(), "Unexpected number of attachments");
    // //////////////////////////////////
    for (Resource res : obsResource) {
        // Verify encounter reference is not set
        Observation obs = (Observation) res;
        assertThat(obs.getEncounter().isEmpty()).isTrue();
        // Verify subject reference to Patient exists
        Base subject = ResourceUtils.getValue(obs, "subject");
        assertThat(ResourceUtils.getValueAsString(subject, "reference").substring(0, 8)).isEqualTo("Patient/");
    }
}

Example 9 with TS

use of org.hl7.v3.TS in project hl7v2-fhir-converter by LinuxForHealth.

the class Hl7VXUMessageTest method test_VXU_with_minimum_patient_group_plus_multiple_order_groups.

// Suppress warnings about too many assertions in a test.  Justification: creating a FHIR message is very costly; we need to check many asserts per creation for efficiency.
@java.lang.SuppressWarnings("squid:S5961")
@Test
void test_VXU_with_minimum_patient_group_plus_multiple_order_groups() throws IOException {
    String hl7message = "MSH|^~\\&|EHR|12345^SiteName|MIIS|99990|20140701041038||VXU^V04^VXU_V04|MSG.Valid_01|P|2.6|||\r" + "PID|||1234^^^^MR||DOE^JANE^|||F||||||||||||||||||||||\r" + "PV1|1|R||||||||||||||||||V01^20120901041038\r" + "ORC|RE||4242546^NameSpaceID||||||||||||||\r" + "RXA|0|1|20140701041038|20140701041038|48^HPV, quadrivalent^CVX|0.5|ml^MilliLiter [SI Volume Units]^UCUM||||14509|||||||||CP||\r" + "OBX|1|CWE|31044-1^Immunization reaction^LN|1|VXC12^fever of >40.5C within 48 hrs.^CDCPHINVS||||||F|||20120901041038\r" + "OBX|2|CWE|31044-1^Immunization reaction^LN|1|VXC14^Rash within 14 days of dose^CDCPHINVS||||||F|||20140701041038\r" + "ORC|RE||4242546^NameSpaceID||||||||||||||\r" + "RXA|0|1|20140701041038|20140701041038|48^HPV, quadrivalent^CVX|0.5|ml^MilliLiter [SI Volume Units]^UCUM||||14509|||||||||CP||\r" + "RXR|C28161^Intramuscular^NCIT||||\r" + "OBX|1|CWE|31044-1^Immunization reaction^LN|1|39579001^Anaphylaxis (disorder)^SCT||||||F|||20120901041038\r" + "OBX|2|TS|29768-9^DATE VACCINE INFORMATION STATEMENT PUBLISHED^LN|1|20010711||||||F|||20120720101321\r";
    List<Bundle.BundleEntryComponent> e = ResourceUtils.createFHIRBundleFromHL7MessageReturnEntryList(ftv, hl7message);
    // Validate that the correct resources are created
    List<Resource> patient = ResourceUtils.getResourceList(e, ResourceType.Patient);
    assertThat(patient).hasSize(1);
    List<Resource> enc = ResourceUtils.getResourceList(e, ResourceType.Encounter);
    assertThat(enc).hasSize(1);
    List<Resource> immu = ResourceUtils.getResourceList(e, ResourceType.Immunization);
    assertThat(immu).hasSize(2);
    List<Resource> obs = ResourceUtils.getResourceList(e, ResourceType.Observation);
    assertThat(obs).hasSize(3);
    // verify that the correct Observations are associated with the correct Immunizations.
    // The first two reaction details come from the first immunization resource.
    // Too confirm both observations match we compare the IDs of the reaction detail and the actual observation resource id
    // The first two sets of assertions are from the first RXA segment
    Immunization resource = ResourceUtils.getResourceImmunization(immu.get(0), ResourceUtils.context);
    List<Resource> observations = ResourceUtils.getResourceList(e, ResourceType.Observation);
    String reactionDetail = resource.getReactionFirstRep().getDetail().getReference();
    Observation obsResource = ResourceUtils.getResourceObservation(observations.get(0), ResourceUtils.context);
    assertThat(obsResource.getId()).isEqualTo(reactionDetail);
    assertThat(obsResource.getCode().getCodingFirstRep().getDisplay()).isEqualTo("fever of >40.5C within 48 hrs.");
    assertThat(obsResource.getCode().getCodingFirstRep().getCode()).isEqualTo("VXC12");
    assertThat(obsResource.getCode().getCodingFirstRep().getSystem()).isEqualTo("urn:id:CDCPHINVS");
    assertThat(obsResource.getCode().getText()).isEqualTo("fever of >40.5C within 48 hrs.");
    assertThat(obsResource.getIdentifierFirstRep().getValue()).isEqualTo("4242546-VXC12-CDCPHINVS");
    // Expecting only the above resources, no extras!
    assertThat(obsResource.getIdentifierFirstRep().getSystem()).isEqualTo("urn:id:extID");
    reactionDetail = resource.getReaction().get(1).getDetail().getReference();
    obsResource = ResourceUtils.getResourceObservation(observations.get(1), ResourceUtils.context);
    assertThat(obsResource.getId()).isEqualTo(reactionDetail);
    assertThat(obsResource.getCode().getCodingFirstRep().getDisplay()).isEqualTo("Rash within 14 days of dose");
    assertThat(obsResource.getCode().getCodingFirstRep().getCode()).isEqualTo("VXC14");
    assertThat(obsResource.getCode().getCodingFirstRep().getSystem()).isEqualTo("urn:id:CDCPHINVS");
    assertThat(obsResource.getCode().getText()).isEqualTo("Rash within 14 days of dose");
    assertThat(obsResource.getIdentifierFirstRep().getValue()).isEqualTo("4242546-VXC14-CDCPHINVS");
    assertThat(obsResource.getIdentifierFirstRep().getSystem()).isEqualTo("urn:id:extID");
    assertThat(e).hasSize(7);
    // The second set of assertions are from the second RXA segment
    resource = ResourceUtils.getResourceImmunization(immu.get(1), ResourceUtils.context);
    reactionDetail = resource.getReaction().get(0).getDetail().getReference();
    obsResource = ResourceUtils.getResourceObservation(observations.get(2), ResourceUtils.context);
    assertThat(obsResource.getId()).isEqualTo(reactionDetail);
    assertThat(obsResource.getCode().getCodingFirstRep().getDisplay()).isEqualTo("Anaphylaxis (disorder)");
    assertThat(obsResource.getCode().getCodingFirstRep().getCode()).isEqualTo("39579001");
    assertThat(obsResource.getCode().getCodingFirstRep().getSystem()).isEqualTo("http://snomed.info/sct");
    assertThat(obsResource.getCode().getText()).isEqualTo("Anaphylaxis (disorder)");
    assertThat(obsResource.getIdentifierFirstRep().getValue()).isEqualTo("4242546-39579001-SCT");
    assertThat(obsResource.getIdentifierFirstRep().getSystem()).isEqualTo("urn:id:extID");
}

Example 10 with TS

use of org.hl7.v3.TS in project integration-adaptor-111 by nhsconnect.

the class ReferralRequestMapperTest method setup.

@BeforeEach
public void setup() {
    healthcareServiceList = new ArrayList<>();
    healthcareServiceList.add(healthcareService);
    encounter = new Encounter();
    String encounterId = "Encounter/1";
    encounter.setServiceProvider(serviceProviderRef).setSubject(patientRef).setId(encounterId);
    TS ts = TS.Factory.newInstance();
    ts.setValue(AUTHOR_TIME);
    POCDMT000002UK01Author[] authorArray = new POCDMT000002UK01Author[1];
    authorArray[0] = author;
    TS effectiveTime = TS.Factory.newInstance();
    effectiveTime.setValue("20220304");
    when(procedureRequestMapper.mapProcedureRequest(any(), any(), any())).thenReturn(procedureRequest);
    when(resourceUtil.newRandomUuid()).thenReturn(new IdType(RANDOM_UUID));
    when(resourceUtil.createReference(encounter)).thenReturn(new Reference(encounter));
    when(resourceUtil.createReference(procedureRequest)).thenReturn(new Reference(procedureRequest));
    when(resourceUtil.createReference(practitioner)).thenReturn(new Reference(practitioner));
    when(author.getTime()).thenReturn(ts);
    when(author.getTypeCode()).thenReturn("AUT");
    when(clinicalDocument.getAuthorArray()).thenReturn(authorArray);
    when(clinicalDocument.getParticipantArray()).thenReturn(new POCDMT000002UK01Participant1[] { participantREFT, participantCALLBCK });
    when(clinicalDocument.getEffectiveTime()).thenReturn(effectiveTime);
    when(participantREFT.getTypeCode()).thenReturn(PARTICIPANT_TYPE_CODE_REFT);
    when(participantCALLBCK.getTypeCode()).thenReturn(PARTICIPANT_TYPE_CODE_CALLBCK);
    when(participantREFT.getAssociatedEntity()).thenReturn(associatedEntity);
    when(practitionerMapper.mapPractitioner(associatedEntity)).thenReturn(practitioner);
    when(periodMapper.mapPeriod(effectiveTime)).thenReturn(occurrence);
}