Examples with MR org.hl7.fhir.r4.model.codesystems.V3Hl7PublishingDomain.MR used on opensource projects

Example 71 with MR

use of org.hl7.fhir.r4.model.codesystems.V3Hl7PublishingDomain.MR in project hl7v2-fhir-converter by LinuxForHealth.

the class Hl7OrderRequestFHIRConversionTest method testBroadORCPlusOBRFields2.

@Test
void testBroadORCPlusOBRFields2() {
    String hl7message = "MSH|^~\\&|||||20180924152907|34001|ORU^R01^ORU_R01|213|T|2.6|||||||||||\n" + // PID.18 is empty, MSH.7 will be used as identifier visit number
    "PID|||1234^^^^MR||DOE^JANE^|||F||||||||||||||||||||||\n" + // PV1.19  is empty, MSH.7 will be used as identifier visit number
    "PV1|1|E|||||||||||||||||||||||||||||||||||||||||||\n" + // ORC.5 with purposely bad code to see that 'unknown' is result
    "ORC|RE|248648498^|248648498^||ZZ||||20120628071200||||||||||||||||||||||\n" + "OBR|1|248648498^|248648498^|83036E^HEMOGLOBIN A1C^PACSEAP^^^^^^HEMOGLOBIN A1C|||||||L||||||||||||||F||^^^20120606120606|||||||||||||||||||||||\n";
    String json = ftv.convert(hl7message, PatientUtils.OPTIONS);
    assertThat(json).isNotBlank();
    IBaseResource bundleResource = context.getParser().parseResource(json);
    assertThat(bundleResource).isNotNull();
    Bundle bundle = (Bundle) bundleResource;
    List<BundleEntryComponent> e = bundle.getEntry();
    List<Resource> serviceRequestList = e.stream().filter(v -> ResourceType.ServiceRequest == v.getResource().getResourceType()).map(BundleEntryComponent::getResource).collect(Collectors.toList());
    // Important that we have exactly one service request (no duplication).  OBR creates it as a reference.
    assertThat(serviceRequestList).hasSize(1);
    ServiceRequest serviceRequest = ResourceUtils.getResourceServiceRequest(serviceRequestList.get(0), context);
    assertThat(serviceRequest.hasStatus()).isTrue();
    assertThat(serviceRequest.hasIdentifier()).isTrue();
    assertThat(serviceRequest.getIdentifier()).hasSize(3);
    // Identifier 1: visit number should be set by in this test by tertiary MSH.7
    // See notes about identifier testing in previous tests
    Identifier identifier = serviceRequest.getIdentifier().get(0);
    String value = identifier.getValue();
    String system = identifier.getSystem();
    // MSH.7 as a string, not as a date
    assertThat(value).isEqualTo("20180924152907");
    assertThat(system).isNull();
    CodeableConcept type = identifier.getType();
    DatatypeUtils.checkCommonCodeableConceptAssertions(type, "VN", "Visit number", "http://terminology.hl7.org/CodeSystem/v2-0203", null);
    // OBR.27[0].4 should create an ServiceRequest.occurrenceDateTime date
    assertThat(serviceRequest.hasOccurrenceDateTimeType()).isTrue();
    assertThat(serviceRequest.getOccurrenceDateTimeType().toString()).containsPattern("2012-06-06T12:06:06");
    // // ORC.5 creates the serviceRequest.status() purposely an unknown code
    assertThat(serviceRequest.hasStatus()).isTrue();
    assertThat(serviceRequest.getStatusElement().getCode()).isEqualTo("unknown");
}

Example 72 with MR

use of org.hl7.fhir.r4.model.codesystems.V3Hl7PublishingDomain.MR in project hl7v2-fhir-converter by LinuxForHealth.

the class FHIRConverterTest method testCodingSystems.

@Test
/*
     * This tests some of coding systems of interest or potential problems
     */
void testCodingSystems() throws FHIRException {
    String hl7VUXmessageRep = "MSH|^~\\&|MYEHR2.5|RI88140101|KIDSNET_IFL|RIHEALTH|201305330||VXU^V04^VXU_V04|20130531RI881401010105|P|2.6|||AL|NE|764|ASCII||||||^4086::132:2A57:3C28^IPv6\r" + "EVN|A01|20130617154644||01\r" + "PID|1||12345678^^^MYEMR^MR||TestPatient^John|||M|\r" + "ORC|RE||197027|||||||^Clerk^Myron||MD67895^Pediatric^MARY^^^^MD^^RIA|||||RI2050\r" + // Test MVX
    "RXA|0|1|20130528|20130529|48^HIB PRP-T^CVX|0.5|ML^^ISO+||00^new immunization record^NIP001|^Sticker^Nurse|^^^RI2050||||33k2a|20131210|PMC^sanofi^MVX|||CP|A\r" + // Test HL70162 & HL70163
    "RXR|C28161^IM^NCIT^IM^INTRAMUSCULAR^HL70162|RT^right thigh^HL70163\r";
    String json = ftv.convert(hl7VUXmessageRep, OPTIONS);
    FHIRContext context = new FHIRContext();
    IBaseResource bundleResource = context.getParser().parseResource(json);
    assertThat(bundleResource).isNotNull();
    Bundle b = (Bundle) bundleResource;
    assertThat(b.getType()).isEqualTo(BundleType.COLLECTION);
    assertThat(b.getId()).isNotNull();
    List<BundleEntryComponent> e = b.getEntry();
    List<Resource> obsResource = e.stream().filter(v -> ResourceType.Immunization == v.getResource().getResourceType()).map(BundleEntryComponent::getResource).collect(Collectors.toList());
    assertThat(obsResource).hasSize(1);
    Immunization immunization = (Immunization) obsResource.get(0);
    // Check that organization identifier (MVX) has a system
    Organization org = (Organization) immunization.getManufacturer().getResource();
    List<Identifier> li = org.getIdentifier();
    Identifier ident = li.get(0);
    assertThat(ident.hasSystem()).isTrue();
    assertThat(ident.getSystem()).isEqualTo("http://terminology.hl7.org/CodeSystem/MVX");
    assertThat(ident.hasValue()).isTrue();
    assertThat(ident.getValue()).isEqualTo("PMC");
    // Check that route (HL70162) has a system
    CodeableConcept route = immunization.getRoute();
    assertThat(route.hasCoding()).isTrue();
    List<Coding> codings = route.getCoding();
    assertThat(codings.size()).isEqualTo(2);
    Coding coding = codings.get(0);
    // If the first one is not the one we want look at the second one.
    if (coding.getCode().contains("C28161")) {
        coding = codings.get(1);
    }
    assertThat(coding.hasSystem()).isTrue();
    assertThat(coding.getSystem()).isEqualTo("http://terminology.hl7.org/CodeSystem/v2-0162");
    // Check that site (HL70163) has a system
    CodeableConcept site = immunization.getSite();
    coding = site.getCodingFirstRep();
    assertThat(coding.hasSystem()).isTrue();
    assertThat(coding.getSystem()).isEqualTo("http://terminology.hl7.org/CodeSystem/v2-0163");
}

Example 73 with MR

use of org.hl7.fhir.r4.model.codesystems.V3Hl7PublishingDomain.MR in project cqf-ruler by DBCG.

the class SubmitDataProviderIT method testSubmitData.

@Test
public void testSubmitData() {
    // Create a MR and a resource
    MeasureReport mr = newResource(MeasureReport.class, "test-mr");
    Observation obs = newResource(Observation.class, "test-obs");
    // Submit it
    mySubmitDataProvider.submitData(new SystemRequestDetails(), new IdType("Measure", "test-m"), mr, Lists.newArrayList(obs));
    // Check if they made it to the db
    Observation savedObs = read(obs.getIdElement());
    assertNotNull(savedObs);
    MeasureReport savedMr = read(mr.getIdElement());
    assertNotNull(savedMr);
}

Example 74 with MR

use of org.hl7.fhir.r4.model.codesystems.V3Hl7PublishingDomain.MR in project cqf-ruler by DBCG.

the class SubmitDataProviderIT method testSubmitDataNoId.

@Test
public void testSubmitDataNoId() {
    // Create a MR and a resource
    MeasureReport mr = newResource(MeasureReport.class).setMeasure(new Reference("Measure/123"));
    Observation obs = newResource(Observation.class).setValue(new StringType("ABC"));
    // Submit it
    mySubmitDataProvider.submitData(new SystemRequestDetails(), new IdType("Measure", "123"), mr, Lists.newArrayList(obs));
    // Check if they made it to the db
    Observation savedObs = search(Observation.class, Searches.all()).single();
    assertNotNull(savedObs);
    assertEquals("ABC", savedObs.getValue().primitiveValue());
    MeasureReport savedMr = search(MeasureReport.class, Searches.all()).single();
    assertNotNull(savedMr);
    assertEquals("Measure/123", savedMr.getMeasure().getReference());
}

Example 75 with MR

use of org.hl7.fhir.r4.model.codesystems.V3Hl7PublishingDomain.MR in project org.hl7.fhir.core by hapifhir.

the class R3R4ConversionTests method loadLib.

private void loadLib(String dir) throws FileNotFoundException, IOException {
    StructureMapUtilities smu = new StructureMapUtilities(contextR4);
    for (String s : new File(dir).list()) {
        String map = TextFile.fileToString(Utilities.path(dir, s));
        try {
            StructureMap sm = smu.parse(map, s);
            contextR3.cacheResource(sm);
            contextR4.cacheResource(sm);
            for (Resource r : sm.getContained()) {
                if (r instanceof MetadataResource) {
                    MetadataResource mr = (MetadataResource) r.copy();
                    mr.setUrl(sm.getUrl() + "#" + r.getId());
                    contextR3.cacheResource(mr);
                    contextR4.cacheResource(mr);
                }
            }
        } catch (FHIRException e) {
            System.out.println("Unable to load " + Utilities.path(dir, s) + ": " + e.getMessage());
            loadErrors.put(s, e);
        // e.printStackTrace();
        }
    }
}