Examples with DefaultRandomNumberGenerator org.mitre.synthea.helpers.DefaultRandomNumberGenerator used on opensource projects

Example 1 with DefaultRandomNumberGenerator

use of org.mitre.synthea.helpers.DefaultRandomNumberGenerator in project synthea by synthetichealth.

the class HospitalExporterTestR4 method testFHIRExport.

@Test
public void testFHIRExport() throws Exception {
    FhirContext ctx = FhirR4.getContext();
    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");
    // set this manually, in case it has already been loaded.
    FhirR4.TRANSACTION_BUNDLE = true;
    TestHelper.loadTestProperties();
    Generator.DEFAULT_STATE = Config.get("test_state.default", "Massachusetts");
    Location location = new Location(Generator.DEFAULT_STATE, null);
    Provider.clear();
    Provider.loadProviders(location, ProviderTest.providerRandom);
    assertNotNull(Provider.getProviderList());
    assertFalse(Provider.getProviderList().isEmpty());
    Provider.getProviderList().get(0).incrementEncounters(EncounterType.WELLNESS, 0);
    HospitalExporterR4.export(new DefaultRandomNumberGenerator(0L), 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());
}

Example 2 with DefaultRandomNumberGenerator

use of org.mitre.synthea.helpers.DefaultRandomNumberGenerator in project synthea by synthetichealth.

the class GeneratorTest method testUpdateAfterCreationAndSerialization.

@Test
public void testUpdateAfterCreationAndSerialization() throws Exception {
    // serialization
    if (Boolean.valueOf(Config.get("physiology.generators.enabled", "false"))) {
        System.out.println("Skipping test GeneratorTest.testUpdateAfterCreationAndSerialization");
        System.out.println("Set config physiology.generators.enabled=false to enable this test");
        return;
    }
    // Get 10 people
    Generator.GeneratorOptions opts = new Generator.GeneratorOptions();
    opts.population = 1;
    opts.minAge = 50;
    opts.maxAge = 100;
    Generator generator = new Generator(opts);
    final int NUM_RECS = 10;
    Person[] people = new Person[NUM_RECS];
    for (int i = 0; i < NUM_RECS; i++) {
        long personSeed = UUID.randomUUID().getMostSignificantBits() & Long.MAX_VALUE;
        RandomNumberGenerator random = new DefaultRandomNumberGenerator(personSeed);
        Map<String, Object> demoAttributes = generator.randomDemographics(random);
        people[i] = generator.createPerson(personSeed, demoAttributes);
    // generator.recordPerson(people[i], i);
    }
    people = serializeAndDeserialize(people);
    // Update them for 10 years in the future
    generator.stop = generator.stop + Utilities.convertTime("years", 10);
    for (Person p : people) {
        generator.updatePerson(p);
    }
}

Example 3 with DefaultRandomNumberGenerator

use of org.mitre.synthea.helpers.DefaultRandomNumberGenerator in project synthea by synthetichealth.

the class PersonTest method testSerializationAndDeserialization.

@Test
public void testSerializationAndDeserialization() throws Exception {
    // serialization
    if (Boolean.valueOf(Config.get("physiology.generators.enabled", "false"))) {
        System.out.println("Skipping test PersonTest.testSerializationAndDeserialization");
        System.out.println("Set config physiology.generators.enabled=false to enable this test");
        return;
    }
    // Generate a filled-out patient record to test on
    Generator.GeneratorOptions opts = new Generator.GeneratorOptions();
    opts.population = 1;
    opts.minAge = 50;
    opts.maxAge = 100;
    Generator generator = new Generator(opts);
    RandomNumberGenerator random = new DefaultRandomNumberGenerator(0);
    Map<String, Object> demoAttributes = generator.randomDemographics(random);
    Person original = generator.createPerson(0, demoAttributes);
    Person rehydrated = serializeAndDeserialize(original);
    // Compare the original to the serialized+deserialized version
    assertEquals(original.randInt(), rehydrated.randInt());
    assertEquals(original.getSeed(), rehydrated.getSeed());
    assertEquals(original.populationSeed, rehydrated.populationSeed);
    assertEquals(original.symptoms.keySet(), rehydrated.symptoms.keySet());
    assertEquals(original.getOnsetConditionRecord().getSources().keySet(), rehydrated.getOnsetConditionRecord().getSources().keySet());
    assertEquals(original.hasMultipleRecords, rehydrated.hasMultipleRecords);
    assertEquals(original.attributes.keySet(), rehydrated.attributes.keySet());
    assertEquals(original.vitalSigns.keySet(), rehydrated.vitalSigns.keySet());
    assertEquals(original.chronicMedications.keySet(), rehydrated.chronicMedications.keySet());
    assertEquals(original.hasMultipleRecords, rehydrated.hasMultipleRecords);
    if (original.hasMultipleRecords) {
        assertEquals(original.records.keySet(), rehydrated.records.keySet());
    }
    assertEquals(original.coverage.getPlanHistory().size(), rehydrated.coverage.getPlanHistory().size());
}

Example 4 with DefaultRandomNumberGenerator

use of org.mitre.synthea.helpers.DefaultRandomNumberGenerator in project synthea by synthetichealth.

the class DemographicsTest method setUp.

/**
 * Set up the demographics to use for testing.
 */
@BeforeClass
@SuppressWarnings("rawtypes")
public static void setUp() throws IOException {
    demographicsFile = Config.get("generate.demographics.default_file");
    Config.set("generate.demographics.default_file", "geography/test_demographics.csv");
    Table pa = Demographics.load("Pennsylvania");
    philly = (Demographics) pa.get("Pennsylvania", "27237");
    random = new DefaultRandomNumberGenerator(0);
}

Example 5 with DefaultRandomNumberGenerator

use of org.mitre.synthea.helpers.DefaultRandomNumberGenerator in project synthea by synthetichealth.

the class BB2RIFExporterTest method testCodeMapper.

@Test
public void testCodeMapper() {
    // these tests depend on the presence of the code map file and will not be run in CI
    try {
        Utilities.readResource("condition_code_map.json");
    } catch (IOException | IllegalArgumentException e) {
        return;
    }
    RandomNumberGenerator random = new DefaultRandomNumberGenerator(0);
    CodeMapper mapper = new CodeMapper("condition_code_map.json");
    assertTrue(mapper.canMap("10509002"));
    assertEquals("J20.9", mapper.map("10509002", random));
    assertEquals("J209", mapper.map("10509002", random, true));
    assertFalse(mapper.canMap("not a code"));
}