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

Example 11 with MR

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

the class Hl7AllergyFHIRConversionTest method test_allergy_no_severity_no_coding_system.

@Test
void test_allergy_no_severity_no_coding_system() {
    String hl7message = "MSH|^~\\&|SE050|050|PACS|050|20120912011230||ADT^A01|102|T|2.6|||AL|NE\r" + "PID|0010||PID1234^5^M11^A^MR^HOSP~1234568965^^^USA^SS||DOE^JOHN^A^||19800202|F||W|111 TEST_STREET_NAME^^TEST_CITY^NY^111-1111^USA||(905)111-1111|||S|ZZ|12^^^124|34-13-312||||TEST_BIRTH_PLACE\r" + "AL1|1|DA|00000741^OXYCODONE||HYPOTENSION\r";
    AllergyIntolerance allergy = ResourceUtils.getAllergyResource(ftv, hl7message);
    assertThat(allergy.hasCriticality()).isFalse();
    assertThat(allergy.getCategory().get(0).getCode()).isEqualTo("medication");
    assertThat(allergy.getCode().getText()).isEqualTo("OXYCODONE");
    List<Coding> codings = allergy.getCode().getCoding();
    Assertions.assertEquals(1, codings.size());
    Coding coding = codings.get(0);
    Assertions.assertEquals("00000741", coding.getCode());
    Assertions.assertEquals("OXYCODONE", coding.getDisplay());
    assertThat(allergy.getReaction().get(0).getManifestation()).extracting(m -> m.getText()).containsExactly("HYPOTENSION");
}

Example 12 with MR

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

the class Hl7AllergyFHIRConversionTest method test_allergy_single.

@Test
void test_allergy_single() {
    String hl7message = "MSH|^~\\&|SE050|050|PACS|050|20120912011230||ADT^A01|102|T|2.6|||AL|NE\r" + "PID|0010||PID1234^5^M11^A^MR^HOSP~1234568965^^^USA^SS||DOE^JOHN^A^||19800202|F||W|111 TEST_STREET_NAME^^TEST_CITY^NY^111-1111^USA||(905)111-1111|||S|ZZ|12^^^124|34-13-312||||TEST_BIRTH_PLACE\r" + "AL1|1|DA|^PENICILLIN|MI|PRODUCES HIVES~RASH|MI\r" + "AL1|2|AA|^CAT DANDER|SV";
    AllergyIntolerance allergy = ResourceUtils.getAllergyResource(ftv, hl7message);
    assertThat(allergy.getCriticality().toCode()).isEqualTo("low");
    assertThat(allergy.getCategory().get(0).getCode()).isEqualTo("medication");
    assertThat(allergy.getCode().getText()).isEqualTo("PENICILLIN");
    assertThat(allergy.getReaction().get(0).getManifestation()).extracting(m -> m.getText()).containsExactlyInAnyOrder("PRODUCES HIVES", "RASH");
}

Example 13 with MR

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

the class Hl7EncounterFHIRConversionTest method test_encounter_with_serviceProvider_from_PV1_3_4.

// Test for serviceProvider reference in messages with PV1 segment and no PV2 segment
// Use serviceProvider from PV1-3.4.1
@ParameterizedTest
@ValueSource(strings = { "ADT^A01", /* "ADT^A02", "ADT^A03", "ADT^A04", */
"ADT^A08", // MDM messages are not tested here because they do not have PV2 segments
"OMP^O09", "ORU^R01", "RDE^O11", "RDE^O25", "VXU^V04" })
void test_encounter_with_serviceProvider_from_PV1_3_4(String message) {
    String hl7message = "MSH|^~\\&|TestSystem||TestTransformationAgent||20150502090000||" + message + "|controlID|P|2.6\r" + "EVN|A01|20150502090000|\r" + "PID|||1234^^^^MR||DOE^JANE^|||F||||||||||||||||||||||\r" + // PV1-3.4 used for serviceProvider reference; used for both id and name
    "PV1||I|INT^0001^02^Toronto East|||||||SUR||||||||S|VisitNumber^^^Toronto North|A|||||||||||||||||||Toronto West||||||\r";
    String json = ftv.convert(hl7message, OPTIONS);
    assertThat(json).isNotBlank();
    LOGGER.debug("FHIR json result:\n" + json);
    IBaseResource bundleResource = context.getParser().parseResource(json);
    assertThat(bundleResource).isNotNull();
    Bundle b = (Bundle) bundleResource;
    List<BundleEntryComponent> e = b.getEntry();
    List<Resource> encounterResource = ResourceUtils.getResourceList(e, ResourceType.Encounter);
    assertThat(encounterResource).hasSize(1);
    Encounter encounter = ResourceUtils.getResourceEncounter(encounterResource.get(0), context);
    Reference serviceProvider = encounter.getServiceProvider();
    assertThat(serviceProvider).isNotNull();
    String providerString = serviceProvider.getReference();
    // Also verify underscore replacement for VALID_ID
    assertThat(providerString).isEqualTo("Organization/toronto-east");
    List<Resource> organizations = ResourceUtils.getResourceList(e, ResourceType.Organization);
    assertThat(organizations).hasSize(1);
    Organization orgResource = ResourceUtils.getResourceOrganization(organizations.get(0), context);
    assertThat(orgResource.getId()).isEqualTo(providerString);
    // PV1.3.4.1
    assertThat(orgResource.getName()).isEqualTo("Toronto East");
    assertThat(orgResource.getIdentifier()).hasSize(1);
    // PV1.3.4.1
    assertThat(orgResource.getIdentifierFirstRep().getValue()).hasToString("Toronto East");
    // Because ID is name based
    assertThat(orgResource.getIdentifierFirstRep().getSystem()).hasToString("urn:id:extID");
}

Example 14 with MR

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

the class HL7ConditionFHIRConversionTest method validateEncounterMultipleDiagnosesTestingMultipleDiagnosisAndReasonReferences.

// Tests that the Encounter has the full array of condition references in both
// diagnosis and reasonReference.
@Test
void validateEncounterMultipleDiagnosesTestingMultipleDiagnosisAndReasonReferences() {
    String hl7message = "MSH|^~\\&||||||S1|ADT^A01^ADT_A01||T|2.6|||||||||\r" + "EVN|A04||||||\r" + "PID|||1234^^^^MR||DOE^JANE^|||F||||||||||||||||||||||\r" + "PV1||I|||||||||||||||||1492|||||||||||||||||||||||||\r" + "DG1|1|D1|V72.83^Other specified pre-operative examination^ICD-9^^^|Other specified pre-operative examination|20151008111200|F|||||||||8|\r" + "DG1|2|D2|R00.0^Tachycardia, unspecified^ICD-10^^^|Tachycardia, unspecified|20150725201300|F|||||||||8|\r" + "DG1|3|D3|R06.02^Shortness of breath^ICD-10^^^|Shortness of breath||F|||||||||8|\r" + "DG1|4|D4|Q99.9^Chromosomal abnormality, unspecified^ICD-10^^^|Chromosomal abnormality, unspecified||F|||||||||8|\r" + "DG1|5|D5|I34.8^Arteriosclerosis^ICD-10^^^|Arteriosclerosis||F|||||||||8|\r" + "DG1|6|D6|I34.0^Mitral valve regurgitation^ICD-10^^^|Mitral valve regurgitation||F|||||||||8|\r" + "DG1|6|D7|I05.9^Mitral valve disorder in childbirth^ICD-10^^^|Mitral valve disorder in childbirth||F|||||||||8|\r" + "DG1|7|D8|J45.909^Unspecified asthma, uncomplicated^ICD-10^^^|Unspecified asthma, uncomplicated||F|||||||||8|\r";
    List<BundleEntryComponent> e = ResourceUtils.createFHIRBundleFromHL7MessageReturnEntryList(ftv, hl7message);
    // Find the conditions from the FHIR bundle.
    List<Resource> conditionResource = ResourceUtils.getResourceList(e, ResourceType.Condition);
    // We should have 1 condition for each diagnosis therefore 8 for this message.
    assertThat(conditionResource).hasSize(8);
    // Find the encounter from the FHIR bundle.
    List<Resource> encounterResource = ResourceUtils.getResourceList(e, ResourceType.Encounter);
    // Verify we only have 1 encounter
    assertThat(encounterResource).hasSize(1);
    Encounter encounter = (Encounter) encounterResource.get(0);
    // Verify reasonReference has a reference for each condition. Therefore there should be 8.
    assertThat(encounter.getReasonReference()).hasSize(8);
    // Check the references are referencing conditions
    for (int i = 0; i < 8; i++) {
        assertThat(encounter.getReasonReference().get(i).getReference().substring(0, 10)).isEqualTo("Condition/");
    }
    // Verify there is encounter.diagnosis for every diagnosis. Therefore there should be 8.
    assertThat(encounter.getDiagnosis()).hasSize(8);
    List<String> referencedConditions = encounter.getDiagnosis().stream().map(i -> i.getCondition().getReference()).collect(Collectors.toList());
    List<String> condIdentifiers = conditionResource.stream().map(r -> (Condition) r).map(c -> c.getId()).collect(Collectors.toList());
    assertThat(referencedConditions).containsExactlyInAnyOrderElementsOf(condIdentifiers);
    // Verify each diagnosis is set correctly.
    for (int i = 0; i < 8; i++) {
        // Diagnosis requires a reference to condition.
        assertThat(encounter.getDiagnosis().get(i).getCondition().getReference().substring(0, 10)).isEqualTo("Condition/");
        // Verify Use coding of each diagnosis
        DatatypeUtils.checkCommonCodeableConceptAssertions(encounter.getDiagnosis().get(i).getUse(), "F", "Final", "http://terminology.hl7.org/CodeSystem/v2-0052", null);
        // Verify encounter diagnosis rank is set correctly.
        // DG1.15
        assertThat(encounter.getDiagnosis().get(i).getRank()).isEqualTo(8);
    }
}

Example 15 with MR

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

the class HL7MergeFHIRConversionTest method validateHappyPathADT_A34WithMRG.

// Test ADT_A34 with one MRG segment (the most it supports).
@Test
void validateHappyPathADT_A34WithMRG() {
    String hl7message = "MSH|^~\\&|SENDING_APPLICATION|SENDING_FACILITY|RECEIVING_APPLICATION|RECEIVING_FACILITY|||ADT^A34||P|2.3||||\r" + "EVN|A40|20110613122406637||01\r" + // Identifier value 234 with no system and no identifier type
    "PID|1||123^^^^MR||||||||||||||||||||||||||||||||||||\r" + // Identifier value 456 with no system and no identifier type
    "MRG|456||||||\r";
    // Convert hl7 message
    List<BundleEntryComponent> e = ResourceUtils.createFHIRBundleFromHL7MessageReturnEntryList(ftv, hl7message);
    // Find the patient resources in the FHIR bundle.
    List<Resource> patientResources = ResourceUtils.getResourceList(e, ResourceType.Patient);
    // There should be 2 - One for the PID segment and one for the MRG segment
    assertThat(patientResources).hasSize(2);
    // Get first patient and associated identifiers and id.
    Patient patientOne = PatientUtils.getPatientFromResource(patientResources.get(0));
    String patientOneId = patientOne.getId();
    List<Identifier> patientOneIdentifierList = patientOne.getIdentifier();
    // Get second patient and associated identifiers and id.
    Patient patientTwo = PatientUtils.getPatientFromResource(patientResources.get(1));
    String patientTwoId = patientTwo.getId();
    List<Identifier> patientTwoIdentifierList = patientTwo.getIdentifier();
    /*-----------Verify Patient One-----------*/
    // Verify patient one's identifier is set correctly (this is the patient build
    // from the PID segment)
    // 
    // "identifier":[
    // {
    // "type":{
    // "coding":[
    // {
    // "system":"http://terminology.hl7.org/CodeSystem/v2-0203",
    // "code":"MR",
    // "display":"Medical record number"
    // }
    // ]
    // },
    // "value":"123"
    // },
    // {
    // "use":"old",
    // "value":"456"
    // }
    // ]
    // Verify the patient has two identifiers
    assertThat(patientOneIdentifierList).hasSize(2);
    // Verify the identifier values are correct.
    assertThat(patientOneIdentifierList.get(0).getValue()).isEqualTo("123");
    assertThat(patientOneIdentifierList.get(1).getValue()).isEqualTo("456");
    // Verify the system values are not present
    assertThat(patientOneIdentifierList.get(0).getSystem()).isNull();
    assertThat(patientOneIdentifierList.get(1).getSystem()).isNull();
    // Verify the first identifier has no use field.
    assertThat(patientOneIdentifierList.get(0).getUse()).isNull();
    // Verify the second identifier is marked as old
    assertThat(patientOneIdentifierList.get(1).getUse()).isEqualTo(Identifier.IdentifierUse.OLD);
    // Verify identifier type is set correctly for the first identifier
    CodeableConcept patientOneIdentifierType = patientOneIdentifierList.get(0).getType();
    assertThat(patientOneIdentifierType.getCoding().get(0).getSystem()).isEqualTo("http://terminology.hl7.org/CodeSystem/v2-0203");
    assertThat(patientOneIdentifierType.getCoding().get(0).getDisplay()).isEqualTo("Medical record number");
    assertThat(patientOneIdentifierType.getCoding().get(0).getCode()).isEqualTo("MR");
    // Verify the identifier type for the second identifier is not present.
    assertThat(patientOneIdentifierList.get(1).getType().getCoding()).isEmpty();
    // Verify first patient has these fields
    // 
    // "active":true,
    // "link":[
    // {
    // "other":{
    // "reference":"Patient/expiringID-MRG"
    // },
    // "type":"replaces"
    // }
    // ]
    // The first patient should be active.
    assertThat(patientOne.getActive()).isTrue();
    // Verify link.other.reference references the MRG (2nd) patient with of a type of 'replaces'
    PatientLinkComponent linkOne = patientOne.getLink().get(0);
    assertThat(linkOne.getType()).isEqualTo(Patient.LinkType.REPLACES);
    assertThat(linkOne.getOther().getReference()).isEqualTo(patientTwoId);
    /*-----------Verify Patient Two-----------*/
    // Verify patient two's identifier is set correctly (this is the patient build
    // from the MRG segment)
    // 
    // "identifier":[
    // {
    // "use":"old",
    // "value":"456"
    // }
    // ]
    // Verify has only 1 identifier
    assertThat(patientTwoIdentifierList).hasSize(1);
    // Verify the identifier value is correct.
    assertThat(patientTwoIdentifierList.get(0).getValue()).isEqualTo("456");
    // Verify the system is not present
    assertThat(patientTwoIdentifierList.get(0).getSystem()).isNull();
    // Verify the identifier is marked as old
    assertThat(patientTwoIdentifierList.get(0).getUse()).isEqualTo(Identifier.IdentifierUse.OLD);
    // Verify identifier type is not present
    assertThat(patientTwoIdentifierList.get(0).getType().getCoding()).isEmpty();
    // Verify second patient has these fields.
    // "active":false,
    // "link":[
    // {
    // "other":{
    // "reference":"Patient/survivingID"
    // },
    // "type":"replaced-by"
    // }
    // ]
    // The second patient should NOT be active.
    assertThat(patientTwo.getActive()).isFalse();
    // We should have link.other.reference to the PID (1st) patient with a type of 'replaced-by'
    PatientLinkComponent linkTwo = patientTwo.getLink().get(0);
    assertThat(linkTwo.getType()).isEqualTo(Patient.LinkType.REPLACEDBY);
    assertThat(linkTwo.getOther().getReference()).isEqualTo(patientOneId);
    ;
}