Examples with Encounter ca.uhn.fhir.model.dstu2.resource.Encounter used on opensource projects

Example 21 with Encounter

use of ca.uhn.fhir.model.dstu2.resource.Encounter in project synthea by synthetichealth.

the class CodeResolveAndExportTest method verifyEncounterCodeStu3.

private void verifyEncounterCodeStu3() throws IOException {
    InputStream inputStream = new FileInputStream(stu3OutputPath.toFile().getAbsolutePath());
    Bundle bundle = (Bundle) FhirStu3.getContext().newJsonParser().parseResource(inputStream);
    // Find encounter reason code.
    Optional<BundleEntryComponent> maybeEncounterEntry = bundle.getEntry().stream().filter(entry -> entry.getResource().getResourceType().equals(ResourceType.Encounter)).findFirst();
    assertTrue(maybeEncounterEntry.isPresent());
    org.hl7.fhir.dstu3.model.Encounter encounterResource = (org.hl7.fhir.dstu3.model.Encounter) maybeEncounterEntry.get().getResource();
    assertEquals(encounterResource.getReason().size(), 1);
    CodeableConcept encounterReason = encounterResource.getReason().get(0);
    assertEquals(encounterReason.getCoding().size(), 1);
    Coding reasonCoding = encounterReason.getCoding().get(0);
    // Check encounter reason code.
    assertEquals(SNOMED_URI, reasonCoding.getSystem());
    assertEquals(EXPECTED_REASON_CODE, reasonCoding.getCode());
    assertEquals(EXPECTED_REASON_DISPLAY, reasonCoding.getDisplay());
    Optional<BundleEntryComponent> maybeObservationEntry = bundle.getEntry().stream().filter(entry -> entry.getResource().getResourceType().equals(ResourceType.Observation)).findFirst();
    assertTrue(maybeObservationEntry.isPresent());
    // Find observation type code.
    org.hl7.fhir.dstu3.model.Observation observationResource = (org.hl7.fhir.dstu3.model.Observation) maybeObservationEntry.get().getResource();
    CodeableConcept observationType = observationResource.getCode();
    assertNotNull(observationType);
    assertEquals(observationType.getCoding().size(), 1);
    Coding observationTypeCoding = observationType.getCoding().get(0);
    // Check observation type code.
    assertEquals(LOINC_URI, observationTypeCoding.getSystem());
    assertEquals(OBSERVATION_CODE, observationTypeCoding.getCode());
    assertEquals(OBSERVATION_DISPLAY, observationTypeCoding.getDisplay());
    // Find observation value code.
    CodeableConcept observationValue = observationResource.getValueCodeableConcept();
    assertNotNull(observationValue);
    assertEquals(observationValue.getCoding().size(), 1);
    Coding observationValueCoding = observationValue.getCoding().get(0);
    // Check observation value code.
    assertEquals(LOINC_URI, observationValueCoding.getSystem());
    assertEquals(EXPECTED_VALUE_CODE, observationValueCoding.getCode());
    assertEquals(EXPECTED_VALUE_DISPLAY, observationValueCoding.getDisplay());
    inputStream.close();
}

Example 22 with Encounter

use of ca.uhn.fhir.model.dstu2.resource.Encounter in project synthea by synthetichealth.

the class CodeResolveAndExportTest method verifyEncounterCodeR4.

private void verifyEncounterCodeR4() throws IOException {
    InputStream inputStream = new FileInputStream(r4OutputPath.toFile().getAbsolutePath());
    org.hl7.fhir.r4.model.Bundle bundle = (org.hl7.fhir.r4.model.Bundle) FhirR4.getContext().newJsonParser().parseResource(inputStream);
    // Find encounter reason code.
    Optional<org.hl7.fhir.r4.model.Bundle.BundleEntryComponent> maybeEncounterEntry = bundle.getEntry().stream().filter(entry -> entry.getResource().getResourceType().equals(org.hl7.fhir.r4.model.ResourceType.Encounter)).findFirst();
    assertTrue(maybeEncounterEntry.isPresent());
    org.hl7.fhir.r4.model.Encounter encounterResource = (org.hl7.fhir.r4.model.Encounter) maybeEncounterEntry.get().getResource();
    assertEquals(encounterResource.getReasonCode().size(), 1);
    org.hl7.fhir.r4.model.CodeableConcept encounterReason = encounterResource.getReasonCode().get(0);
    assertEquals(encounterReason.getCoding().size(), 1);
    org.hl7.fhir.r4.model.Coding reasonCoding = encounterReason.getCoding().get(0);
    // Check encounter reason code.
    assertEquals(SNOMED_URI, reasonCoding.getSystem());
    assertEquals(EXPECTED_REASON_CODE, reasonCoding.getCode());
    assertEquals(EXPECTED_REASON_DISPLAY, reasonCoding.getDisplay());
    Optional<org.hl7.fhir.r4.model.Bundle.BundleEntryComponent> maybeObservationEntry = bundle.getEntry().stream().filter(entry -> entry.getResource().getResourceType().equals(org.hl7.fhir.r4.model.ResourceType.Observation)).findFirst();
    assertTrue(maybeObservationEntry.isPresent());
    // Find observation type code.
    org.hl7.fhir.r4.model.Observation observationResource = (org.hl7.fhir.r4.model.Observation) maybeObservationEntry.get().getResource();
    org.hl7.fhir.r4.model.CodeableConcept observationType = observationResource.getCode();
    assertNotNull(observationType);
    assertEquals(observationType.getCoding().size(), 1);
    org.hl7.fhir.r4.model.Coding observationTypeCoding = observationType.getCoding().get(0);
    // Check observation type code.
    assertEquals(LOINC_URI, observationTypeCoding.getSystem());
    assertEquals(OBSERVATION_CODE, observationTypeCoding.getCode());
    assertEquals(OBSERVATION_DISPLAY, observationTypeCoding.getDisplay());
    // Find observation value code.
    org.hl7.fhir.r4.model.CodeableConcept observationValue = observationResource.getValueCodeableConcept();
    assertNotNull(observationValue);
    assertEquals(observationValue.getCoding().size(), 1);
    org.hl7.fhir.r4.model.Coding observationValueCoding = observationValue.getCoding().get(0);
    // Check observation value code.
    assertEquals(LOINC_URI, observationValueCoding.getSystem());
    assertEquals(EXPECTED_VALUE_CODE, observationValueCoding.getCode());
    assertEquals(EXPECTED_VALUE_DISPLAY, observationValueCoding.getDisplay());
    inputStream.close();
}

Example 23 with Encounter

use of ca.uhn.fhir.model.dstu2.resource.Encounter in project synthea by synthetichealth.

the class FHIRDSTU2ExporterTest method testSampledDataExport.

@Test
public void testSampledDataExport() throws Exception {
    Person person = new Person(0L);
    person.attributes.put(Person.GENDER, "F");
    person.attributes.put(Person.FIRST_LANGUAGE, "spanish");
    person.attributes.put(Person.RACE, "other");
    person.attributes.put(Person.ETHNICITY, "hispanic");
    person.attributes.put(Person.INCOME, Integer.parseInt(Config.get("generate.demographics.socioeconomic.income.poverty")) * 2);
    person.attributes.put(Person.OCCUPATION_LEVEL, 1.0);
    person.history = new LinkedList<>();
    Provider mock = Mockito.mock(Provider.class);
    Mockito.when(mock.getResourceID()).thenReturn("Mock-UUID");
    person.setProvider(EncounterType.AMBULATORY, mock);
    person.setProvider(EncounterType.WELLNESS, mock);
    person.setProvider(EncounterType.EMERGENCY, mock);
    person.setProvider(EncounterType.INPATIENT, mock);
    Long time = System.currentTimeMillis();
    int age = 35;
    long birthTime = time - Utilities.convertTime("years", age);
    person.attributes.put(Person.BIRTHDATE, birthTime);
    Payer.loadNoInsurance();
    for (int i = 0; i < age; i++) {
        long yearTime = time - Utilities.convertTime("years", i);
        person.coverage.setPayerAtTime(yearTime, Payer.noInsurance);
    }
    Module module = TestHelper.getFixture("observation.json");
    State encounter = module.getState("SomeEncounter");
    assertTrue(encounter.process(person, time));
    person.history.add(encounter);
    State physiology = module.getState("Simulate_CVS");
    assertTrue(physiology.process(person, time));
    person.history.add(physiology);
    State sampleObs = module.getState("SampledDataObservation");
    assertTrue(sampleObs.process(person, time));
    person.history.add(sampleObs);
    FhirContext ctx = FhirDstu2.getContext();
    IParser parser = ctx.newJsonParser().setPrettyPrint(true);
    String fhirJson = FhirDstu2.convertToFHIRJson(person, System.currentTimeMillis());
    Bundle bundle = parser.parseResource(Bundle.class, fhirJson);
    for (Entry entry : bundle.getEntry()) {
        if (entry.getResource() instanceof Observation) {
            Observation obs = (Observation) entry.getResource();
            assertTrue(obs.getValue() instanceof SampledDataDt);
            SampledDataDt data = (SampledDataDt) obs.getValue();
            // 0.01s == 10ms
            assertEquals(10, data.getPeriod().doubleValue(), 0.001);
            assertEquals(3, (int) data.getDimensions());
        }
    }
}

Example 24 with Encounter

use of ca.uhn.fhir.model.dstu2.resource.Encounter in project synthea by synthetichealth.

the class CodeResolveAndExportTest method verifyEncounterCodeDstu2.

private void verifyEncounterCodeDstu2() throws IOException {
    InputStream inputStream = new FileInputStream(dstu2OutputPath.toFile().getAbsolutePath());
    ca.uhn.fhir.model.dstu2.resource.Bundle bundle = (ca.uhn.fhir.model.dstu2.resource.Bundle) FhirDstu2.getContext().newJsonParser().parseResource(inputStream);
    // Find encounter reason code.
    Optional<Entry> maybeEncounterEntry = bundle.getEntry().stream().filter(entry -> entry.getResource().getResourceName().equals(org.hl7.fhir.dstu2.model.ResourceType.Encounter.name())).findFirst();
    assertTrue(maybeEncounterEntry.isPresent());
    ca.uhn.fhir.model.dstu2.resource.Encounter encounterResource = (ca.uhn.fhir.model.dstu2.resource.Encounter) maybeEncounterEntry.get().getResource();
    assertEquals(encounterResource.getReason().size(), 1);
    CodeableConceptDt encounterReason = encounterResource.getReason().get(0);
    assertEquals(encounterReason.getCoding().size(), 1);
    CodingDt reasonCoding = encounterReason.getCoding().get(0);
    // Check encounter reason code.
    assertEquals(SNOMED_URI, reasonCoding.getSystem());
    assertEquals(EXPECTED_REASON_CODE, reasonCoding.getCode());
    assertEquals(EXPECTED_REASON_DISPLAY, reasonCoding.getDisplay());
    Optional<Entry> maybeObservationEntry = bundle.getEntry().stream().filter(entry -> entry.getResource().getResourceName().equals(org.hl7.fhir.dstu2.model.ResourceType.Observation.name())).findFirst();
    assertTrue(maybeObservationEntry.isPresent());
    // Find observation type code.
    ca.uhn.fhir.model.dstu2.resource.Observation observationResource = (ca.uhn.fhir.model.dstu2.resource.Observation) maybeObservationEntry.get().getResource();
    CodeableConceptDt observationType = observationResource.getCode();
    assertNotNull(observationType);
    assertEquals(observationType.getCoding().size(), 1);
    CodingDt observationTypeCoding = observationType.getCoding().get(0);
    // Check observation type code.
    assertEquals(LOINC_URI, observationTypeCoding.getSystem());
    assertEquals(OBSERVATION_CODE, observationTypeCoding.getCode());
    assertEquals(OBSERVATION_DISPLAY, observationTypeCoding.getDisplay());
    // Find observation value code.
    CodeableConceptDt observationValue = (CodeableConceptDt) observationResource.getValue();
    assertNotNull(observationValue);
    assertEquals(observationValue.getCoding().size(), 1);
    CodingDt observationValueCoding = observationValue.getCoding().get(0);
    // Check observation value code.
    assertEquals(LOINC_URI, observationValueCoding.getSystem());
    assertEquals(EXPECTED_VALUE_CODE, observationValueCoding.getCode());
    assertEquals(EXPECTED_VALUE_DISPLAY, observationValueCoding.getDisplay());
    inputStream.close();
}

Example 25 with Encounter

use of ca.uhn.fhir.model.dstu2.resource.Encounter in project synthea by synthetichealth.

the class FHIRDSTU2ExporterTest method testObservationAttachment.

@Test
public void testObservationAttachment() throws Exception {
    Person person = new Person(0L);
    person.attributes.put(Person.GENDER, "F");
    person.attributes.put(Person.FIRST_LANGUAGE, "spanish");
    person.attributes.put(Person.RACE, "other");
    person.attributes.put(Person.ETHNICITY, "hispanic");
    person.attributes.put(Person.INCOME, Integer.parseInt(Config.get("generate.demographics.socioeconomic.income.poverty")) * 2);
    person.attributes.put(Person.OCCUPATION_LEVEL, 1.0);
    person.attributes.put("Pulmonary Resistance", 0.1552);
    person.attributes.put("BMI Multiplier", 0.055);
    person.setVitalSign(VitalSign.BMI, 21.0);
    person.history = new LinkedList<>();
    Provider mock = Mockito.mock(Provider.class);
    Mockito.when(mock.getResourceID()).thenReturn("Mock-UUID");
    person.setProvider(EncounterType.AMBULATORY, mock);
    person.setProvider(EncounterType.WELLNESS, mock);
    person.setProvider(EncounterType.EMERGENCY, mock);
    person.setProvider(EncounterType.INPATIENT, mock);
    Long time = System.currentTimeMillis();
    int age = 35;
    long birthTime = time - Utilities.convertTime("years", age);
    person.attributes.put(Person.BIRTHDATE, birthTime);
    Payer.loadNoInsurance();
    for (int i = 0; i < age; i++) {
        long yearTime = time - Utilities.convertTime("years", i);
        person.coverage.setPayerAtTime(yearTime, Payer.noInsurance);
    }
    Module module = TestHelper.getFixture("observation.json");
    State physiology = module.getState("Simulate_CVS");
    assertTrue(physiology.process(person, time));
    person.history.add(physiology);
    State encounter = module.getState("SomeEncounter");
    assertTrue(encounter.process(person, time));
    person.history.add(encounter);
    State chartState = module.getState("ChartObservation");
    assertTrue(chartState.process(person, time));
    person.history.add(chartState);
    State urlState = module.getState("UrlObservation");
    assertTrue(urlState.process(person, time));
    person.history.add(urlState);
    FhirContext ctx = FhirDstu2.getContext();
    IParser parser = ctx.newJsonParser().setPrettyPrint(true);
    String fhirJson = FhirDstu2.convertToFHIRJson(person, System.currentTimeMillis());
    Bundle bundle = parser.parseResource(Bundle.class, fhirJson);
    for (Entry entry : bundle.getEntry()) {
        if (entry.getResource() instanceof Media) {
            Media media = (Media) entry.getResource();
            if (media.getContent().getData() != null) {
                assertEquals(400, (int) media.getWidth());
                assertEquals(200, (int) media.getHeight());
                assertTrue(Base64.isBase64(media.getContent().getDataElement().getValueAsString()));
            } else if (media.getContent().getUrl() != null) {
                assertEquals("https://example.com/image/12498596132", media.getContent().getUrl());
                assertEquals("en-US", media.getContent().getLanguage());
                assertTrue(media.getContent().getSize() > 0);
            } else {
                fail("Invalid Media element in output JSON");
            }
        }
    }
}