Examples with Observation org.hl7.fhir.r5.model.Observation used on opensource projects

Example 66 with Observation

use of org.hl7.fhir.r5.model.Observation in project elexis-server by elexis.

the class ServiceRequestTest method createServiceRequest.

@Test
public void createServiceRequest() {
    Condition problem = new Condition();
    problem.setCode(new CodeableConcept().addCoding(new Coding("http://hl7.org/fhir/sid/icpc-2", "A04", "Müdigkeit")));
    problem.setSubject(new Reference("Patient/" + AllTests.getTestDatabaseInitializer().getPatient().getId()));
    problem.addCategory().addCoding(new Coding(ConditionCategory.PROBLEMLISTITEM.getSystem(), ConditionCategory.PROBLEMLISTITEM.toCode(), ConditionCategory.PROBLEMLISTITEM.getDisplay()));
    MethodOutcome problemOutcome = client.create().resource(problem).execute();
    Encounter encounter = new Encounter();
    EncounterParticipantComponent participant = new EncounterParticipantComponent();
    participant.setIndividual(new Reference("Practitioner/" + TestDatabaseInitializer.getMandant().getId()));
    encounter.addParticipant(participant);
    encounter.setPeriod(new Period().setStart(AllTests.getDate(LocalDate.of(2016, Month.DECEMBER, 1).atStartOfDay())).setEnd(AllTests.getDate(LocalDate.of(2016, Month.DECEMBER, 1).atTime(23, 59, 59))));
    encounter.setSubject(new Reference("Patient/" + AllTests.getTestDatabaseInitializer().getPatient().getId()));
    encounter.addDiagnosis().setCondition(new Reference(new IdType(problem.getResourceType().name(), problemOutcome.getId().getIdPart())));
    encounter.addType(new CodeableConcept().addCoding(new Coding("www.elexis.info/encounter/type", "struct", "structured enconter")));
    MethodOutcome encounterOutcome = client.create().resource(encounter).execute();
    assertNotNull(encounterOutcome);
    assertTrue(encounterOutcome.getCreated());
    assertNotNull(encounterOutcome.getId());
    // add subjective to the encounter
    Observation subjective = new Observation();
    Narrative narrative = new Narrative();
    String divEncodedText = "Subjective\nTest".replaceAll("(\r\n|\r|\n)", "<br />");
    narrative.setDivAsString(divEncodedText);
    subjective.setText(narrative);
    subjective.setSubject(new Reference("Patient/" + AllTests.getTestDatabaseInitializer().getPatient().getId()));
    subjective.addCategory().addCoding(new Coding(IdentifierSystem.ELEXIS_SOAP.getSystem(), ObservationCategory.SOAP_SUBJECTIVE.getCode(), ObservationCategory.SOAP_SUBJECTIVE.getLocalized()));
    subjective.setEncounter(new Reference(new IdType(encounter.getResourceType().name(), encounterOutcome.getId().getIdPart())));
    MethodOutcome subjectiveOutcome = client.create().resource(subjective).execute();
    assertTrue(subjectiveOutcome.getCreated());
    // add procedure request to encounter
    ServiceRequest serviceRequest = new ServiceRequest();
    narrative = new Narrative();
    divEncodedText = "Procedure\nTest".replaceAll("(\r\n|\r|\n)", "<br />");
    narrative.setDivAsString(divEncodedText);
    serviceRequest.setText(narrative);
    serviceRequest.setSubject(new Reference("Patient/" + AllTests.getTestDatabaseInitializer().getPatient().getId()));
    serviceRequest.setEncounter(new Reference(new IdType(encounter.getResourceType().name(), encounterOutcome.getId().getIdPart())));
    MethodOutcome outcome = client.create().resource(serviceRequest).execute();
    assertNotNull(outcome);
    assertTrue(outcome.getCreated());
    assertNotNull(outcome.getId());
    ServiceRequest readServiceRequest = client.read().resource(ServiceRequest.class).withId(outcome.getId()).execute();
    assertNotNull(readServiceRequest);
    assertEquals(outcome.getId().getIdPart(), readServiceRequest.getIdElement().getIdPart());
    assertEquals(serviceRequest.getSubject().getReferenceElement().getIdPart(), readServiceRequest.getSubject().getReferenceElement().getIdPart());
    assertEquals(serviceRequest.getEncounter().getReferenceElement().getIdPart(), readServiceRequest.getEncounter().getReferenceElement().getIdPart());
    assertTrue(readServiceRequest.getText().getDivAsString().contains("Test"));
    // check if the consultation text has been updated
    // search by patient and date
    Bundle results = client.search().forResource(Encounter.class).where(Encounter.PATIENT.hasId(AllTests.getTestDatabaseInitializer().getPatient().getId())).and(Encounter.DATE.exactly().day(AllTests.getDate(LocalDate.of(2016, Month.DECEMBER, 1).atStartOfDay()))).returnBundle(Bundle.class).execute();
    assertNotNull(results);
    List<BundleEntryComponent> entries = results.getEntry();
    assertFalse(entries.isEmpty());
    Encounter readEncounter = (Encounter) entries.get(0).getResource();
    assertNotNull(readEncounter);
    assertEquals(readEncounter.getIdElement().getIdPart(), encounterOutcome.getId().getIdPart());
    List<Identifier> identifier = readEncounter.getIdentifier();
    String consultationId = null;
    for (Identifier id : identifier) {
        if (id.getSystem().equals(IdentifierSystem.ELEXIS_CONSID.getSystem())) {
            consultationId = id.getValue();
        }
    }
    assertNotNull(consultationId);
    Optional<IEncounter> behandlung = AllTests.getModelService().load(consultationId, IEncounter.class);
    assertTrue(behandlung.isPresent());
    assertTrue(behandlung.get().getVersionedEntry().getHead().contains("Procedure"));
}

Example 67 with Observation

use of org.hl7.fhir.r5.model.Observation in project openmrs-module-fhir2 by openmrs.

the class EncounterFhirResourceProviderTest method searchEncounters_shouldAddRelatedResourcesForRevInclude.

@Test
public void searchEncounters_shouldAddRelatedResourcesForRevInclude() {
    when(encounterService.searchForEncounters(any(), any(), any(), any(), any(), any(), any(), any(), any(), any())).thenReturn(new MockIBundleProvider<>(Arrays.asList(encounter, new Observation()), PREFERRED_SIZE, COUNT));
    HashSet<Include> revIncludes = new HashSet<>();
    revIncludes.add(new Include("Observation:encounter"));
    IBundleProvider results = resourceProvider.searchEncounter(null, null, null, null, null, null, null, null, null, null, revIncludes);
    List<IBaseResource> resultList = get(results);
    assertThat(results, notNullValue());
    assertThat(resultList.size(), greaterThanOrEqualTo(2));
    assertThat(resultList.get(0).fhirType(), equalTo(FhirConstants.ENCOUNTER));
    assertThat(resultList.get(1).fhirType(), equalTo(FhirConstants.OBSERVATION));
    assertThat(((Encounter) resultList.iterator().next()).getId(), equalTo(ENCOUNTER_UUID));
}

Example 68 with Observation

use of org.hl7.fhir.r5.model.Observation in project openmrs-module-fhir2 by openmrs.

the class ObservationTranslatorImplTest method toFhirResource_shouldTranslateOpenMrsObsDatetimeToEffectiveDatetime.

@Test
public void toFhirResource_shouldTranslateOpenMrsObsDatetimeToEffectiveDatetime() {
    Obs observation = new Obs();
    observation.setObsDatetime(new Date());
    when(datetimeTranslator.toFhirResource(observation)).thenReturn(new DateTimeType(new Date()));
    Observation result = observationTranslator.toFhirResource(observation);
    assertThat(result, notNullValue());
    assertThat(result.getEffectiveDateTimeType(), notNullValue());
    assertThat(result.getEffectiveDateTimeType().getValue(), DateMatchers.sameDay(new Date()));
}

Example 69 with Observation

use of org.hl7.fhir.r5.model.Observation in project openmrs-module-fhir2 by openmrs.

the class ObservationTranslatorImplTest method toFhirResource_shouldConvertEncounterToReference.

@Test
public void toFhirResource_shouldConvertEncounterToReference() {
    Obs observation = new Obs();
    Encounter encounter = new Encounter();
    encounter.setUuid(ENCOUNTER_UUID);
    observation.setEncounter(encounter);
    Reference encounterReference = new Reference();
    encounterReference.setType("Encounter");
    encounterReference.setId(ENCOUNTER_UUID);
    when(encounterReferenceTranslator.toFhirResource(encounter)).thenReturn(encounterReference);
    Observation result = observationTranslator.toFhirResource(observation);
    assertThat(result.getEncounter(), notNullValue());
    assertThat(result.getEncounter().getType(), equalTo("Encounter"));
    assertThat(result.getEncounter().getId(), equalTo(ENCOUNTER_UUID));
}

Example 70 with Observation

use of org.hl7.fhir.r5.model.Observation in project openmrs-module-fhir2 by openmrs.

the class ObservationTranslatorImplTest method toFhirResource_shouldTranslateOpenMrsDateChangedToLastUpdatedDate.

@Test
public void toFhirResource_shouldTranslateOpenMrsDateChangedToLastUpdatedDate() {
    Obs observation = new Obs();
    observation.setDateChanged(new Date());
    Observation result = observationTranslator.toFhirResource(observation);
    assertThat(result, notNullValue());
    assertThat(result.getMeta().getLastUpdated(), DateMatchers.sameDay(new Date()));
}