Examples with Value org.hl7.fhir.utilities.graphql.Value used on opensource projects

Example 86 with Value

use of org.hl7.fhir.utilities.graphql.Value in project kindling by HL7.

the class FhirTurtleGenerator method genDefinedStringPattern.

/**
 * DefinedStringPattern Generator
 *
 * @param dsp FHIR DefinedStringPattern Type (e.g. id, oid, uuid)
 * @throws Exception
 */
private void genDefinedStringPattern(DefinedStringPattern dsp) throws Exception {
    String dspType = dsp.getSchema();
    String dspTypeName = dspType.endsWith("+") ? dspType.substring(0, dspType.length() - 1) : dspType;
    Resource dspTypeRes = RDFTypeMap.xsd_type_for(dspTypeName, owlTarget);
    FHIRResource dspRes = fact.fhir_class(dsp.getCode(), dsp.getBase()).addDefinition(dsp.getDefinition());
    if (dspRes != null) {
        if (dspType.endsWith("+")) {
            List<Resource> facets = new ArrayList<Resource>(1);
            facets.add(fact.fhir_pattern(dsp.getRegex()));
            dspRes.restriction(fact.fhir_restriction(value, fact.fhir_datatype_restriction(dspTypeRes == XSD.xstring ? XSD.normalizedString : dspTypeRes, facets)));
        } else
            dspRes.restriction(fact.fhir_restriction(value, dspTypeRes));
    }
}

Example 87 with Value

use of org.hl7.fhir.utilities.graphql.Value in project kindling by HL7.

the class FhirTurtleGenerator method genPrimitiveType.

/* ==============================================
     Generators for various FHIR types
   * ============================================== */
/**
 * PrimitiveType Generator
 *
 * @param pt FHIR Primitive Type (e.g. int, string, dateTime)
 */
// Note: For unknown reasons, getPrimitives returns DefinedCodes, not PrimitiveTypes...
private void genPrimitiveType(DefinedCode pt) {
    String ptName = pt.getCode();
    FHIRResource ptRes = fact.fhir_class(ptName, "Primitive").addDefinition(pt.getDefinition());
    Resource rdfType = RDFTypeMap.xsd_type_for(ptName, owlTarget);
    if (rdfType != null)
        ptRes.restriction(fact.fhir_cardinality_restriction(value, fact.fhir_datatype(rdfType).resource, 1, 1));
}

Example 88 with Value

use of org.hl7.fhir.utilities.graphql.Value in project kindling by HL7.

the class FhirTurtleGenerator method genBaseMetadata.

/**
 * Emit all the basic atoms that are implicit in the actual model
 */
private void genBaseMetadata() {
    // Declare these for now - they will get filled in more completely later on
    FHIRResource Resource = fact.fhir_class("Resource");
    FHIRResource Element = fact.fhir_class("Element");
    FHIRResource Reference = fact.fhir_class("Reference");
    // Primitive isn't in the actual model - added here
    fact.fhir_class("Primitive").addTitle("Types with only a value").addDefinition("Types with only a value and no additional elements as children").restriction(fact.fhir_restriction(value, RDFS.Literal));
    // A resource can have an optional nodeRole
    FHIRResource treeRoot = fact.fhir_class("treeRoot").addTitle("Class of FHIR base documents");
    FHIRResource nodeRole = fact.fhir_objectProperty("nodeRole").addTitle("Identifies role of subject in context of a given document").domain(Resource).range(treeRoot.resource);
    Resource.restriction(fact.fhir_cardinality_restriction(nodeRole.resource, treeRoot.resource, 0, 1));
    // Any element can have an index to assign order in a list
    FHIRResource index = fact.fhir_dataProperty("index").addTitle("Ordering value for list").domain(Element).range(XSD.nonNegativeInteger);
    Element.restriction(fact.fhir_cardinality_restriction(index.resource, XSD.nonNegativeInteger, 0, 1));
    // References have an optional link
    FHIRResource link = fact.fhir_objectProperty("link").addTitle("URI of a reference");
    Reference.restriction(fact.fhir_cardinality_restriction(link.resource, Resource.resource, 0, 1));
    // XHTML is an XML Literal -- but it isn't recognized by OWL so we use string
    FHIRResource NarrativeDiv = fact.fhir_dataProperty("Narrative.div");
    fact.fhir_class("xhtml", "Primitive").restriction(fact.fhir_cardinality_restriction(value, fact.fhir_datatype(XSD.xstring).resource, 1, 1));
}

Example 89 with Value

use of org.hl7.fhir.utilities.graphql.Value in project hl7v2-fhir-converter by LinuxForHealth.

the class Hl7EncounterFHIRConversionTest method test_encounter_class.

@Test
void test_encounter_class() {
    // PV1.2 has mapped value and should returned fhir value
    String hl7message = "MSH|^~\\&|PROSOLV|SENTARA|WHIA|IBM|20151008111200|S1|ADT^A01^ADT_A01|MSGID000001|T|2.6|10092|PRPA008|AL|AL|100|8859/1|ENGLISH|ARM|ARM5007\n" + "EVN|A04|20151008111200|20171013152901|O|OID1006|20171013153621|EVN1009\n" + "PID|||1234^^^^MR||DOE^JANE^|||F||||||||||||||||||||||\n" + "PV1|1|E|SAN JOSE|A|10089|MILPITAS|2740^Torres^Callie|2913^Grey^Meredith^F|3065^Sloan^Mark^J|CAR|FOSTER CITY|AD|R|1|A4|VI|9052^Shepeard^Derek^|AH|10019181|FIC1002|IC|CC|CR|CO|20161012034052|60000|6|AC|GHBR|20160926054052|AC5678|45000|15000|D|20161016154413|DCD|SAN FRANCISCO|VEG|RE|O|AV|FREMONT|CALIFORNIA|20161013154626|20161014154634|10000|14000|2000|4000|POL8009|V|PHY6007\n";
    Encounter encounter = ResourceUtils.getEncounter(ftv, hl7message);
    assertThat(encounter.hasClass_()).isTrue();
    Coding encounterClass = encounter.getClass_();
    assertThat(encounterClass.getCode()).isEqualTo("EMER");
    assertThat(encounterClass.getSystem()).isEqualTo("http://terminology.hl7.org/CodeSystem/v3-ActCode");
    assertThat(encounterClass.getDisplay()).isEqualTo("emergency");
    assertThat(encounterClass.getVersion()).isNull();
    // Should return hl7Code if not a mapped value
    hl7message = "MSH|^~\\&|PROSOLV|SENTARA|WHIA|IBM|20151008111200|S1|ADT^A01^ADT_A01|MSGID000001|T|2.6|10092|PRPA008|AL|AL|100|8859/1|ENGLISH|ARM|ARM5007\n" + "EVN|A04|20151008111200|20171013152901|O|OID1006|20171013153621|EVN1009\n" + "PID|||1234^^^^MR||DOE^JANE^|||F||||||||||||||||||||||\n" + "PV1|1|L|SAN JOSE|A|10089|MILPITAS|2740^Torres^Callie|2913^Grey^Meredith^F|3065^Sloan^Mark^J|CAR|FOSTER CITY|AD|R|1|A4|VI|9052^Shepeard^Derek^|AH|10019181|FIC1002|IC|CC|CR|CO|20161012034052|60000|6|AC|GHBR|20160926054052|AC5678|45000|15000|D|20161016154413|DCD|SAN FRANCISCO|VEG|RE|O|AV|FREMONT|CALIFORNIA|20161013154626|20161014154634|10000|14000|2000|4000|POL8009|V|PHY6007\n";
    encounter = ResourceUtils.getEncounter(ftv, hl7message);
    assertThat(encounter.hasClass_()).isTrue();
    encounterClass = encounter.getClass_();
    assertThat(encounterClass.getCode()).isEqualTo("L");
    assertThat(encounterClass.getSystem()).isNull();
    assertThat(encounterClass.getDisplay()).isNull();
    assertThat(encounterClass.getVersion()).isNull();
}

Example 90 with Value

use of org.hl7.fhir.utilities.graphql.Value in project hl7v2-fhir-converter by LinuxForHealth.

the class Hl7FinancialInsuranceTest method testBasicInsuranceCoverageFields.

// 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 testBasicInsuranceCoverageFields() throws IOException {
    // Tests fields listed below.
    String hl7message = "MSH|^~\\&|||||20151008111200||DFT^P03^DFT_P03|MSGID000001|T|2.6|||||||||\n" + "EVN||20210407191342||||||\n" + "PID|||MR1^^^XYZ^MR||DOE^JANE^|||F||||||||||||||||||||||\n" + "PV1||I||||||||||||||||||||||||||||||||||||||||||\n" + // FT1.7 is required transaction code (currently not used)
    "FT1||||20201231145045||CG|FAKE|||||||||||||||||||||||||||||||||||||\n" + // IN1.2.4, IN1.2.6 to second XV Coverage.identifier
    "IN1|1|Value1^^System3^Value4^^System6" + // IN1.3.8 to Organization Identifier.period.end
    "|IdValue1^^^IdSystem4^IdType5^^20201231145045^20211231145045" + // IN1.4 to Organization Name
    "|Large Blue Organization" + // IN1.5 to Organization Address (All XAD standard fields)
    "|456 Ultramarine Lane^^Faketown^CA^ZIP5" + // IN1.6.13 to Organization Contact Name .period.end
    "|LastFake^FirstFake^MiddleFake^III^Dr.^^L^^^^^20201231145045^20211231145045" + // IN1.7.18 to Organization Contact telecom .rank
    "|^WPN^^^^333^4444444^^^^^^20201231145045^20211231145045^^^^1" + // IN1.9.1 (2) to list element Coverage.class.name and value (because IN1.9.10 (2) does not exist)
    "|UA34567|NameBlue^^^^^^^^^IDBlue~NameGreen||" + // IN1.35 to Organization.identifier
    "|20201231145045|20211231145045|||||||||5|||||||||||||COMPANYPLANCODE35" + // IN1.49 has value to show that it is not used for Patient.identifier because NO relationship (IN1.17/IN2.72 empty)
    "|MEMBER36||||||||||Value46|||PatientId49.1||||\n" + // IN2.61 is purposely empty (primary to IN1.36) so IN1.36 will be used as the MB Coverage.identifier
    "IN2|||||||||||||||||||||||||IdValue25.1^^^IdSystem25.4^IdType25.5^^20201231145045^20211231145045|||||||||||||||||||||||||||||||||||||||||||" + // IN2.72 is purposely empty (backup to IN1.17) so no RelatedPerson is created.
    "|Name69.1^^^^^IdSystem69.6^UNK^^^IdValue69.10||\n";
    List<BundleEntryComponent> e = ResourceUtils.createFHIRBundleFromHL7MessageReturnEntryList(ftv, hl7message);
    List<Resource> encounters = ResourceUtils.getResourceList(e, ResourceType.Encounter);
    // From PV1
    assertThat(encounters).hasSize(1);
    List<Resource> patients = ResourceUtils.getResourceList(e, ResourceType.Patient);
    // From PID
    assertThat(patients).hasSize(1);
    Patient patient = (Patient) patients.get(0);
    String patientId = patient.getId();
    // From PID.3
    assertThat(patient.getIdentifier()).hasSize(1);
    Identifier patientIdentifier = patient.getIdentifier().get(0);
    // PID.3.1
    assertThat(patientIdentifier.getValue()).isEqualTo("MR1");
    // PID.3.4
    assertThat(patientIdentifier.getSystem()).isEqualTo("urn:id:XYZ");
    DatatypeUtils.checkCommonCodeableConceptAssertions(patientIdentifier.getType(), "MR", "Medical record number", "http://terminology.hl7.org/CodeSystem/v2-0203", // PID.3.5
    null);
    // IN1.49 not used
    List<Resource> organizations = ResourceUtils.getResourceList(e, ResourceType.Organization);
    // From IN1.3 creates Payor, IN2.25 to new PayorId Organization, IN2.69 creates new PolicyHolder Organization Name
    assertThat(organizations).hasSize(3);
    Organization org = (Organization) organizations.get(0);
    // Check Payor Organization Id's
    String payorOrgId = org.getId();
    // IN1.17.1 (no TENANT)  (Id's lowercased)
    assertThat(payorOrgId).isEqualTo("Organization/idvalue1");
    // IN1.4
    assertThat(org.getName()).isEqualTo("Large Blue Organization");
    assertThat(org.getIdentifier()).hasSize(2);
    Identifier orgIdentifier = org.getIdentifier().get(0);
    // IN1.3.1
    assertThat(orgIdentifier.getValue()).isEqualTo("IdValue1");
    // IN1.3.4
    assertThat(orgIdentifier.getSystem()).isEqualTo("urn:id:IdSystem4");
    // IN1.3.7
    assertThat(orgIdentifier.getPeriod().getStartElement().toString()).containsPattern("2020-12-31T14:50:45");
    // IN1.3.8
    assertThat(orgIdentifier.getPeriod().getEndElement().toString()).containsPattern("2021-12-31T14:50:45");
    // IN1.3.5
    DatatypeUtils.checkCommonCodeableConceptAssertions(orgIdentifier.getType(), "IdType5", null, null, null);
    Identifier orgIdentifier1 = org.getIdentifier().get(1);
    // IN1.35
    assertThat(orgIdentifier1.getValue()).isEqualTo("COMPANYPLANCODE35");
    // Check Payor Organization address. IN1.4 is a standard XAD address, which is tested exhaustively in other tests.
    assertThat(org.getAddress()).hasSize(1);
    assertThat(org.getAddress().get(0).getLine().get(0).getValueAsString()).isEqualTo(// IN1.4.1
    "456 Ultramarine Lane");
    // IN1.4.3
    assertThat(org.getAddress().get(0).getCity()).isEqualTo("Faketown");
    // IN1.4.4
    assertThat(org.getAddress().get(0).getState()).isEqualTo("CA");
    // IN1.4.5
    assertThat(org.getAddress().get(0).getPostalCode()).isEqualTo("ZIP5");
    // Check Payor Organization contact name.  IN1.6 name is standard XPN, tested exhaustively in other tests.
    HumanName contactName = org.getContact().get(0).getName();
    assertThat(org.getContact()).hasSize(1);
    // IN1.6.1
    assertThat(contactName.getFamily()).isEqualTo("LastFake");
    // IN1.6.2
    assertThat(contactName.getGiven().get(0).getValueAsString()).isEqualTo("FirstFake");
    // IN1.6.3
    assertThat(contactName.getGiven().get(1).getValueAsString()).isEqualTo("MiddleFake");
    // IN1.6.6
    assertThat(contactName.getPrefixAsSingleString()).hasToString("Dr.");
    // IN1.6.5
    assertThat(contactName.getSuffixAsSingleString()).hasToString("III");
    // from IN1.6 aggregate
    assertThat(contactName.getText()).isEqualTo("Dr. FirstFake MiddleFake LastFake III");
    // IN1.6.7
    assertThat(contactName.getUseElement().getCode()).hasToString("official");
    // IN1.6.12
    assertThat(contactName.getPeriod().getStartElement().toString()).containsPattern("2020-12-31T14:50:45");
    // IN1.6.13
    assertThat(contactName.getPeriod().getEndElement().toString()).containsPattern("2021-12-31T14:50:45");
    // Check there is no purpose. Don't need one, here.
    assertThat(org.getContact().get(0).hasPurpose()).isFalse();
    // Check Payor Organization contact telecom.  IN1.7 is standard XTN, tested exhaustively in other tests.
    assertThat(org.getContact().get(0).getTelecom()).hasSize(1);
    // telecom is type ContactPoint
    ContactPoint contactPoint = org.getContact().get(0).getTelecomFirstRep();
    // default type hardcoded.
    assertThat(contactPoint.getSystemElement().getCode()).hasToString("phone");
    // IN1.7.2 is not mapped (ignored)
    assertThat(contactPoint.hasUseElement()).isFalse();
    // IN1.7.6, IN1.7.7 via getFormattedTelecomNumberValue
    assertThat(contactPoint.getValue()).hasToString("(333) 444 4444");
    // IN1.7.13
    assertThat(contactPoint.getPeriod().getStartElement().toString()).containsPattern("2020-12-31T14:50:45");
    // IN1.7.14
    assertThat(contactPoint.getPeriod().getEndElement().toString()).containsPattern("2021-12-31T14:50:45");
    // IN1.7.18
    assertThat(contactPoint.getRank()).isEqualTo(1);
    // Check PayorId Organization from IN2.25
    org = (Organization) organizations.get(1);
    String payorOrgIdIn25 = org.getId();
    // IN1.25.1 (no TENANT) (Id's lowercased)
    assertThat(payorOrgIdIn25).isEqualTo("Organization/idvalue25.1");
    // IN2.25.1
    assertThat(org.getName()).isEqualTo("IdValue25.1");
    assertThat(org.getIdentifier()).hasSize(1);
    orgIdentifier = org.getIdentifier().get(0);
    // IN2.25.1
    assertThat(orgIdentifier.getValue()).isEqualTo("IdValue25.1");
    // IN2.25.4
    assertThat(orgIdentifier.getSystem()).isEqualTo("urn:id:IdSystem25.4");
    // IN2.25.7
    assertThat(orgIdentifier.getPeriod().getStartElement().toString()).containsPattern("2020-12-31T14:50:45");
    // IN2.25.8
    assertThat(orgIdentifier.getPeriod().getEndElement().toString()).containsPattern("2021-12-31T14:50:45");
    // IN2.25.5
    DatatypeUtils.checkCommonCodeableConceptAssertions(orgIdentifier.getType(), "IdType25.5", null, null, null);
    // Check PolicyHolder Organization Name and ID Organization from IN2.69
    org = (Organization) organizations.get(2);
    String policyHolderOrgId = org.getId();
    // IN2.69.1 (no TENANT) (Id's lowercased)
    assertThat(policyHolderOrgId).isEqualTo("Organization/idvalue69.10");
    // IN2.69.1
    assertThat(org.getName()).isEqualTo("Name69.1");
    assertThat(org.getIdentifier()).hasSize(1);
    orgIdentifier = org.getIdentifier().get(0);
    // IN2.69.10
    assertThat(orgIdentifier.getValue()).isEqualTo("IdValue69.10");
    // IN2.69.6
    assertThat(orgIdentifier.getSystem()).isEqualTo("urn:id:IdSystem69.6");
    // Becuase the code is unknown, the 0203 table lookup fails, and the coding has just the code, no system
    // IN2.69.7
    DatatypeUtils.checkCommonCodeableConceptAssertions(orgIdentifier.getType(), "UNK", null, null, null);
    List<Resource> coverages = ResourceUtils.getResourceList(e, ResourceType.Coverage);
    // From IN1 segment
    assertThat(coverages).hasSize(1);
    Coverage coverage = (Coverage) coverages.get(0);
    // Confirm Coverage Identifiers - Order matches order of identifier_X in Coverage.yml
    // XV, XV, XV, MB, SN; but not MA (IN2.8) nor MC (IN2.6)
    assertThat(coverage.getIdentifier()).hasSize(5);
    // IN1.2.1
    assertThat(coverage.getIdentifier().get(0).getValue()).isEqualTo("Value1");
    // IN1.2.3
    assertThat(coverage.getIdentifier().get(0).getSystem()).isEqualTo("urn:id:System3");
    // No use, here
    assertThat(coverage.getIdentifier().get(0).getUse()).isNull();
    DatatypeUtils.checkCommonCodeableConceptAssertions(coverage.getIdentifier().get(0).getType(), "XV", "Health Plan Identifier", "http://terminology.hl7.org/CodeSystem/v2-0203", null);
    // IN1.2.4
    assertThat(coverage.getIdentifier().get(1).getValue()).isEqualTo("Value4");
    // IN1.2.6
    assertThat(coverage.getIdentifier().get(1).getSystem()).isEqualTo("urn:id:System6");
    // No use, here
    assertThat(coverage.getIdentifier().get(1).getUse()).isNull();
    DatatypeUtils.checkCommonCodeableConceptAssertions(coverage.getIdentifier().get(1).getType(), "XV", "Health Plan Identifier", "http://terminology.hl7.org/CodeSystem/v2-0203", null);
    // IN1.46
    assertThat(coverage.getIdentifier().get(2).getValue()).isEqualTo("Value46");
    // No system, here
    assertThat(coverage.getIdentifier().get(2).getSystem()).isNull();
    // Use is enumeration "old"
    assertThat(coverage.getIdentifier().get(2).getUseElement().getCode()).hasToString("old");
    DatatypeUtils.checkCommonCodeableConceptAssertions(coverage.getIdentifier().get(2).getType(), "XV", "Health Plan Identifier", "http://terminology.hl7.org/CodeSystem/v2-0203", null);
    // IN1.36
    assertThat(coverage.getIdentifier().get(3).getValue()).isEqualTo("MEMBER36");
    // No system, here
    assertThat(coverage.getIdentifier().get(3).getSystem()).isNull();
    // No use, here
    assertThat(coverage.getIdentifier().get(3).getUse()).isNull();
    DatatypeUtils.checkCommonCodeableConceptAssertions(coverage.getIdentifier().get(3).getType(), "MB", "Member Number", "http://terminology.hl7.org/CodeSystem/v2-0203", null);
    // IN1.36
    assertThat(coverage.getIdentifier().get(4).getValue()).isEqualTo("MEMBER36");
    // No system, here
    assertThat(coverage.getIdentifier().get(4).getSystem()).isNull();
    // No use, here
    assertThat(coverage.getIdentifier().get(4).getUse()).isNull();
    DatatypeUtils.checkCommonCodeableConceptAssertions(coverage.getIdentifier().get(4).getType(), "SN", "Subscriber Number", "http://terminology.hl7.org/CodeSystem/v2-0203", null);
    // Confirm SubscriberId
    // IN1.36
    assertThat(coverage.getSubscriberId()).isEqualTo("MEMBER36");
    // Confirm coverage.Order
    // IN1.22 takes priority over IN1.1
    assertThat(coverage.getOrder()).isEqualTo(5);
    // Confirm Coverage Beneficiary references to Patient, and Payor references correct Organizations
    assertThat(coverage.getBeneficiary().getReference()).isEqualTo(patientId);
    // One for each payorOrganization
    assertThat(coverage.getPayor()).hasSize(2);
    assertThat(coverage.getPayor().get(0).getReference()).isEqualTo(payorOrgId);
    assertThat(coverage.getPayor().get(1).getReference()).isEqualTo(payorOrgIdIn25);
    // Confirm policyHolder references correct organization
    assertThat(coverage.getPolicyHolder().getReference()).isEqualTo(policyHolderOrgId);
    // Only one Coverage Class expected.  (getClass_ is correct name for method)
    assertThat(coverage.getClass_()).hasSize(3);
    // IN1.8  Only has value
    checkCoverageClassExistsWithCorrectValueAndName(coverage.getClass_(), "UA34567", null);
    // IN1.9 (1)
    checkCoverageClassExistsWithCorrectValueAndName(coverage.getClass_(), "IDBlue", "NameBlue");
    // IN1.9 (2) Name is also used for value
    checkCoverageClassExistsWithCorrectValueAndName(coverage.getClass_(), "NameGreen", "NameGreen");
    // Confirm Coverage period
    // IN1.12
    assertThat(coverage.getPeriod().getStartElement().toString()).containsPattern("2020-12-31T14:50:45");
    // IN1.13
    assertThat(coverage.getPeriod().getEndElement().toString()).containsPattern("2021-12-31T14:50:45");
    // Expect no RelatedPerson because IN1.17 was empty
    List<Resource> relatedPersons = ResourceUtils.getResourceList(e, ResourceType.RelatedPerson);
    // IN1.17 empty
    assertThat(relatedPersons).isEmpty();
    // Confirm there are no unaccounted for resources
    // Expected: Coverage, Organization (3x), Patient, Encounter
    assertThat(e).hasSize(6);
}