ca.uhn.fhir.validation.FhirValidator Java Examples

public static void main(String[] args) {

      String input = "<Encounter xmlns=\"http://hl7.org/fhir\"></Encounter>";

      // Create a new validator
      FhirContext ctx = FhirContext.forDstu3();
      FhirValidator validator = ctx.newValidator();

      // Did we succeed?
      ValidationResult result = validator.validateWithResult(input);
      System.out.println("Success: " + result.isSuccessful());

      // What was the result
      OperationOutcome outcome = (OperationOutcome) result.toOperationOutcome();
      IParser parser = ctx.newXmlParser().setPrettyPrint(true);
      System.out.println(parser.encodeResourceToString(outcome));
   }
 

public static void main(String[] args) {
	
	// Create an incomplete encounter (status is required)
	Encounter enc = new Encounter();
	enc.addIdentifier().setSystem("http://acme.org/encNums").setValue("12345");
	
	// Create a new validator
	FhirContext ctx = FhirContext.forDstu3();
	FhirValidator validator = ctx.newValidator();
	
	// Did we succeed?
	ValidationResult result = validator.validateWithResult(enc);
	System.out.println("Success: " + result.isSuccessful());
	
	// What was the result
	OperationOutcome outcome = (OperationOutcome) result.toOperationOutcome();
	IParser parser = ctx.newXmlParser().setPrettyPrint(true);
	System.out.println(parser.encodeResourceToString(outcome));
}
 

public static void main(String[] args) {
   // Create an incomplete encounter (status is required)
   Encounter enc = new Encounter();
   enc.addIdentifier().setSystem("http://acme.org/encNums").setValue("12345");

   // Create a new validator
   FhirValidator validator = FhirContext.forDstu3().newValidator();

   // Cache this object! Supplies structure definitions
   DefaultProfileValidationSupport support = new DefaultProfileValidationSupport();

   // Create the validator
   FhirInstanceValidator module = new FhirInstanceValidator(support);
   validator.registerValidatorModule(module);

   // Did we succeed?
   IParser parser = FhirContext.forDstu3().newXmlParser().setPrettyPrint(true);
   System.out.println(parser.encodeResourceToString(validator.validateWithResult(enc).toOperationOutcome()));
}
 

public CCRequestValidatingInterceptor(Logger ourLog, FhirValidator fhirValidator, FhirContext ctx) {
    super();
    this.fhirValidator = fhirValidator;

    this.ctx = ctx;
}
 

@Test
public void testFHIRExport() throws Exception {
  FhirContext ctx = FhirContext.forR4();
  FhirValidator validator = ctx.newValidator();
  validator.setValidateAgainstStandardSchema(true);
  validator.setValidateAgainstStandardSchematron(true);

  File tempOutputFolder = tempFolder.newFolder();
  Config.set("exporter.baseDirectory", tempOutputFolder.toString());
  Config.set("exporter.hospital.fhir.export", "true");
  Config.set("exporter.fhir.transaction_bundle", "true");
  FhirR4.TRANSACTION_BUNDLE = true; // set this manually, in case it has already been loaded.
  TestHelper.loadTestProperties();
  Generator.DEFAULT_STATE = Config.get("test_state.default", "Massachusetts");
  Location location = new Location(Generator.DEFAULT_STATE, null);
  Provider.clear();
  Provider.loadProviders(location, 1L);
  assertNotNull(Provider.getProviderList());
  assertFalse(Provider.getProviderList().isEmpty());

  Provider.getProviderList().get(0).incrementEncounters(EncounterType.WELLNESS, 0);
  HospitalExporterR4.export(0L);

  File expectedExportFolder = tempOutputFolder.toPath().resolve("fhir").toFile();
  assertTrue(expectedExportFolder.exists() && expectedExportFolder.isDirectory());

  File expectedExportFile = expectedExportFolder.toPath().resolve("hospitalInformation0.json")
      .toFile();
  assertTrue(expectedExportFile.exists() && expectedExportFile.isFile());

  FileReader fileReader = new FileReader(expectedExportFile.getPath());
  BufferedReader bufferedReader = new BufferedReader(fileReader);
  StringBuilder fhirJson = new StringBuilder();
  String line = null;
  while ((line = bufferedReader.readLine()) != null) {
    fhirJson.append(line);
  }
  bufferedReader.close();
  IBaseResource resource = ctx.newJsonParser().parseResource(fhirJson.toString());
  ValidationResult result = validator.validateWithResult(resource);
  if (result.isSuccessful() == false) {
    for (SingleValidationMessage message : result.getMessages()) {
      System.out.println(message.getSeverity().toString() + ": " + message.getMessage());
    }
  }
  assertTrue(result.isSuccessful());
}
 

@Test
public void testFHIRDSTU2Export() throws Exception {
  TestHelper.loadTestProperties();
  Generator.DEFAULT_STATE = Config.get("test_state.default", "Massachusetts");
  Config.set("exporter.baseDirectory", tempFolder.newFolder().toString());

  FhirContext ctx = FhirContext.forDstu2();
  IParser parser = ctx.newJsonParser().setPrettyPrint(true);

  FhirValidator validator = ctx.newValidator();
  validator.setValidateAgainstStandardSchema(true);
  validator.setValidateAgainstStandardSchematron(true);

  List<String> validationErrors = new ArrayList<String>();

  int numberOfPeople = 10;
  Generator generator = new Generator(numberOfPeople);
  generator.options.overflow = false;
  for (int i = 0; i < numberOfPeople; i++) {
    int x = validationErrors.size();
    TestHelper.exportOff();
    Person person = generator.generatePerson(i);
    Config.set("exporter.fhir_dstu2.export", "true");
    FhirDstu2.TRANSACTION_BUNDLE = person.random.nextBoolean();
    String fhirJson = FhirDstu2.convertToFHIRJson(person, System.currentTimeMillis());
    // Check that the fhirJSON doesn't contain unresolved SNOMED-CT strings
    // (these should have been converted into URIs)
    if (fhirJson.contains("SNOMED-CT")) {
      validationErrors.add(
          "JSON contains unconverted references to 'SNOMED-CT' (should be URIs)");
    }
    // Now validate the resource...
    IBaseResource resource = ctx.newJsonParser().parseResource(fhirJson);
    ValidationResult result = validator.validateWithResult(resource);
    if (!result.isSuccessful()) {
      // If the validation failed, let's crack open the Bundle and validate
      // each individual entry.resource to get context-sensitive error
      // messages...
      Bundle bundle = parser.parseResource(Bundle.class, fhirJson);
      for (Entry entry : bundle.getEntry()) {
        ValidationResult eresult = validator.validateWithResult(entry.getResource());
        if (!eresult.isSuccessful()) {
          for (SingleValidationMessage emessage : eresult.getMessages()) {
            System.out.println(parser.encodeResourceToString(entry.getResource()));
            System.out.println("ERROR: " + emessage.getMessage());
            validationErrors.add(emessage.getMessage());
          }
        }
        if (entry.getResource() instanceof DiagnosticReport) {
          DiagnosticReport report = (DiagnosticReport) entry.getResource();
          if (report.getPerformer().isEmpty()) {
            validationErrors.add("Performer is a required field on DiagnosticReport!");
          }
        }
      }
    }
    int y = validationErrors.size();
    if (x != y) {
      Exporter.export(person, System.currentTimeMillis());
    }
  }

  assertTrue("Validation of exported FHIR bundle failed: " 
      + String.join("|", validationErrors), validationErrors.size() == 0);
}
 

@Test
public void testFHIRExport() throws Exception {
  FhirContext ctx = FhirContext.forDstu3();
  FhirValidator validator = ctx.newValidator();
  validator.setValidateAgainstStandardSchema(true);
  validator.setValidateAgainstStandardSchematron(true);

  File tempOutputFolder = tempFolder.newFolder();
  Config.set("exporter.baseDirectory", tempOutputFolder.toString());
  Config.set("exporter.hospital.fhir_stu3.export", "true");
  Config.set("exporter.fhir.transaction_bundle", "true");
  FhirStu3.TRANSACTION_BUNDLE = true; // set this manually, in case it has already been loaded.
  TestHelper.loadTestProperties();
  Generator.DEFAULT_STATE = Config.get("test_state.default", "Massachusetts");
  Location location = new Location(Generator.DEFAULT_STATE, null);
  Provider.clear();
  Provider.loadProviders(location, 1L);
  assertNotNull(Provider.getProviderList());
  assertFalse(Provider.getProviderList().isEmpty());

  Provider.getProviderList().get(0).incrementEncounters(EncounterType.WELLNESS, 0);
  HospitalExporterStu3.export(0L);

  File expectedExportFolder = tempOutputFolder.toPath().resolve("fhir_stu3").toFile();
  assertTrue(expectedExportFolder.exists() && expectedExportFolder.isDirectory());

  File expectedExportFile = expectedExportFolder.toPath().resolve("hospitalInformation0.json")
      .toFile();
  assertTrue(expectedExportFile.exists() && expectedExportFile.isFile());

  FileReader fileReader = new FileReader(expectedExportFile.getPath());
  BufferedReader bufferedReader = new BufferedReader(fileReader);
  StringBuilder fhirJson = new StringBuilder();
  String line = null;
  while ((line = bufferedReader.readLine()) != null) {
    fhirJson.append(line);
  }
  bufferedReader.close();
  IBaseResource resource = ctx.newJsonParser().parseResource(fhirJson.toString());
  ValidationResult result = validator.validateWithResult(resource);
  if (result.isSuccessful() == false) {
    for (SingleValidationMessage message : result.getMessages()) {
      System.out.println(message.getSeverity().toString() + ": " + message.getMessage());
    }
  }
  assertTrue(result.isSuccessful());
}
 

@Test
public void testFHIRExport() throws Exception {
  FhirContext ctx = FhirContext.forDstu2();
  FhirValidator validator = ctx.newValidator();
  validator.setValidateAgainstStandardSchema(true);
  validator.setValidateAgainstStandardSchematron(true);

  File tempOutputFolder = tempFolder.newFolder();
  Config.set("exporter.baseDirectory", tempOutputFolder.toString());
  Config.set("exporter.hospital.fhir_dstu2.export", "true");
  Config.set("exporter.fhir.transaction_bundle", "true");
  FhirDstu2.TRANSACTION_BUNDLE = true; // set this manually, in case it has already been loaded.
  TestHelper.loadTestProperties();
  Generator.DEFAULT_STATE = Config.get("test_state.default", "Massachusetts");
  Location location = new Location(Generator.DEFAULT_STATE, null);
  Provider.clear();
  Provider.loadProviders(location, 1L);
  assertNotNull(Provider.getProviderList());
  assertFalse(Provider.getProviderList().isEmpty());

  Provider.getProviderList().get(0).incrementEncounters(EncounterType.WELLNESS, 0);
  HospitalExporterDstu2.export(0L);

  File expectedExportFolder = tempOutputFolder.toPath().resolve("fhir_dstu2").toFile();
  assertTrue(expectedExportFolder.exists() && expectedExportFolder.isDirectory());

  File expectedExportFile = expectedExportFolder.toPath().resolve("hospitalInformation0.json")
      .toFile();
  assertTrue(expectedExportFile.exists() && expectedExportFile.isFile());

  FileReader fileReader = new FileReader(expectedExportFile.getPath());
  BufferedReader bufferedReader = new BufferedReader(fileReader);
  StringBuilder fhirJson = new StringBuilder();
  String line = null;
  while ((line = bufferedReader.readLine()) != null) {
    fhirJson.append(line);
  }
  bufferedReader.close();
  IBaseResource resource = ctx.newJsonParser().parseResource(fhirJson.toString());
  ValidationResult result = validator.validateWithResult(resource);
  if (result.isSuccessful() == false) {
    for (SingleValidationMessage message : result.getMessages()) {
      System.out.println(message.getSeverity().toString() + ": " + message.getMessage());
    }
  }
  assertTrue(result.isSuccessful());
}
 

@Bean(name="fhirValidatorSTU3")
public FhirValidator fhirValidatorSTU3 () {

    log.info("Creating FHIR Validator STU3");
    FhirValidator val = stu3ctx.newValidator();

    val.setValidateAgainstStandardSchema(true);

    // todo reactivate once this is fixed https://github.com/nhsconnect/careconnect-reference-implementation/issues/36
    val.setValidateAgainstStandardSchematron(false);

    DefaultProfileValidationSupport defaultProfileValidationSupport = new DefaultProfileValidationSupport();

    org.hl7.fhir.dstu3.hapi.validation.FhirInstanceValidator instanceValidator = new org.hl7.fhir.dstu3.hapi.validation.FhirInstanceValidator(defaultProfileValidationSupport);
    val.registerValidatorModule(instanceValidator);

    org.hl7.fhir.dstu3.hapi.validation.ValidationSupportChain validationSupportChain = new org.hl7.fhir.dstu3.hapi.validation.ValidationSupportChain();

    validationSupportChain.addValidationSupport(defaultProfileValidationSupport);
    validationSupportChain.addValidationSupport(new CareConnectProfileDbValidationSupportSTU3(stu3ctx));
    validationSupportChain.addValidationSupport(new SNOMEDUKDbValidationSupportSTU3(stu3ctx));

    instanceValidator.setValidationSupport(validationSupportChain);


    return val;
}
 

@Bean(name="fhirValidatorR4")
public FhirValidator fhirValidatorR4 () {



    FhirValidator val = r4ctx.newValidator();

    val.setValidateAgainstStandardSchema(true);

    // todo reactivate once this is fixed https://github.com/nhsconnect/careconnect-reference-implementation/issues/36
    val.setValidateAgainstStandardSchematron(false);

    DefaultProfileValidationSupportStu3AsR4 defaultProfileValidationSupport = new DefaultProfileValidationSupportStu3AsR4();

    FhirInstanceValidator instanceValidator = new FhirInstanceValidator(defaultProfileValidationSupport);
    val.registerValidatorModule(instanceValidator);


    ValidationSupportChain validationSupportChain = new ValidationSupportChain();

    validationSupportChain.addValidationSupport(defaultProfileValidationSupport);
    validationSupportChain.addValidationSupport(new CareConnectProfileDbValidationSupportR4(r4ctx, stu3ctx, HapiProperties.getTerminologyServerSecondary()));
    validationSupportChain.addValidationSupport(new SNOMEDUKDbValidationSupportR4(r4ctx, stu3ctx));

    instanceValidator.setValidationSupport(validationSupportChain);


    return val;
}