Examples with OPTParser org.ehrbase.webtemplate.parser.OPTParser used on opensource projects

Example 1 with OPTParser

use of org.ehrbase.webtemplate.parser.OPTParser in project openEHR_SDK by ehrbase.

the class DefaultValuesTest method unmarshal.

@Test
public void unmarshal() throws IOException, XmlException {
    OPERATIONALTEMPLATE template = TemplateDocument.Factory.parse(OperationalTemplateTestData.CORONA_ANAMNESE.getStream()).getTemplate();
    WebTemplate webTemplate = new OPTParser(template).parse();
    FlatJsonUnmarshaller cut = new FlatJsonUnmarshaller();
    String flat = IOUtils.toString(CompositionTestDataSimSDTJson.CORONA_WITH_CONTEXT.getStream(), StandardCharsets.UTF_8);
    Composition actual = cut.unmarshal(flat, webTemplate);
    assertThat(actual).isNotNull();
    assertThat(actual.getCategory()).isNotNull();
    assertThat(actual.getCategory().getValue()).isEqualTo("event");
    assertThat(actual.getLanguage()).isNotNull();
    assertThat(actual.getLanguage().getCodeString()).isEqualTo(Language.DE.getCode());
    assertThat(actual.getComposer()).isNotNull();
    assertThat(actual.getComposer()).getClass().isAssignableFrom(PartyIdentified.class);
    assertThat(((PartyIdentified) actual.getComposer()).getName()).isEqualTo("Silvia Blake");
    assertThat(actual.getComposer().getExternalRef().getNamespace()).isEqualTo("HOSPITAL-NS");
    assertThat(((GenericId) actual.getComposer().getExternalRef().getId()).getScheme()).isEqualTo("HOSPITAL-NS");
    assertThat(((GenericId) actual.getComposer().getExternalRef().getId()).getValue()).isEqualTo("123");
    assertThat(actual.getContext().getHealthCareFacility().getName()).isEqualTo("Hospital");
    assertThat(actual.getContext().getStartTime()).isNotNull();
    assertThat(actual.getContext().getStartTime().getValue()).isEqualTo(OffsetDateTime.of(2021, 4, 1, 12, 40, 31, 418954000, ZoneOffset.ofHours(2)));
    assertThat(actual.getContext().getParticipations()).extracting(p -> ((PartyIdentified) p.getPerformer())).flatExtracting(p -> p.getIdentifiers()).extracting(DvIdentifier::getAssigner, DvIdentifier::getId, DvIdentifier::getIssuer, DvIdentifier::getType).containsExactlyInAnyOrder(new Tuple("assigner1", "id1", "issuer1", "PERSON"), new Tuple("assigner2", "id2", "issuer2", "PERSON"), new Tuple("assigner3", "id3", "issuer3", "PERSON"), new Tuple("assigner4", "id4", "issuer4", "PERSON"));
    Observation observation = actual.getContent().stream().filter(c -> Observation.class.isAssignableFrom(c.getClass())).map(Observation.class::cast).findAny().orElse(null);
    assertThat(observation).isNotNull();
    assertThat(observation.getData()).isNotNull();
    assertThat(observation.getData().getOrigin().getValue()).isEqualTo(OffsetDateTime.of(2021, 4, 1, 12, 40, 31, 418954000, ZoneOffset.ofHours(2)));
    assertThat(observation.getData().getEvents().get(0).getTime().getValue()).isEqualTo(OffsetDateTime.of(2021, 4, 1, 12, 40, 31, 418954000, ZoneOffset.ofHours(2)));
    assertThat(observation.getOtherParticipations()).extracting(p -> p.getFunction().getValue(), p -> ((PartyIdentified) p.getPerformer()).getName(), p -> p.getPerformer().getExternalRef().getNamespace()).containsExactlyInAnyOrder(new Tuple("requester", "Dr. Marcus Johnson", "HOSPITAL-NS"), new Tuple("performer", "Lara Markham", "HOSPITAL-NS"));
    assertThat(observation.getOtherParticipations()).extracting(p -> ((PartyIdentified) p.getPerformer())).flatExtracting(p -> p.getIdentifiers()).extracting(DvIdentifier::getAssigner, DvIdentifier::getId, DvIdentifier::getIssuer, DvIdentifier::getType).containsExactlyInAnyOrder(new Tuple("assigner1", "id1", "issuer1", "PERSON"), new Tuple("assigner2", "id2", "issuer2", "PERSON"), new Tuple("assigner3", "id3", "issuer3", "PERSON"), new Tuple("assigner4", "id4", "issuer4", "PERSON"));
    assertThat(observation.getWorkflowId()).isNotNull();
    assertThat(observation.getWorkflowId().getNamespace()).isEqualTo("HOSPITAL-NS");
    assertThat(observation.getWorkflowId().getId().getValue()).isEqualTo("567");
    assertThat(observation.getWorkflowId().getType()).isEqualTo("ORGANISATION");
}

Example 2 with OPTParser

use of org.ehrbase.webtemplate.parser.OPTParser in project openEHR_SDK by ehrbase.

the class FlatJsonMarshallerTest method toFlatJsonMultiOccurrence.

@Test
public void toFlatJsonMultiOccurrence() throws IOException, XmlException {
    OPERATIONALTEMPLATE template = TemplateDocument.Factory.parse(OperationalTemplateTestData.MULTI_OCCURRENCE.getStream()).getTemplate();
    Composition composition = new CanonicalJson().unmarshal(IOUtils.toString(CompositionTestDataCanonicalJson.MULTI_OCCURRENCE.getStream(), StandardCharsets.UTF_8), Composition.class);
    FlatJsonMarshaller cut = new FlatJsonMarshaller();
    String actual = cut.toFlatJson(composition, new OPTParser(template).parse());
    assertThat(actual).isNotNull();
    String expected = IOUtils.toString(CompositionTestDataSimSDTJson.MULTI_OCCURRENCE.getStream(), StandardCharsets.UTF_8);
    List<String> errors = compere(actual, expected);
    checkErrors(errors, new String[] { "Missing path: encounter/body_temperature:1/any_event:0/temperature|magnitude, value: 22.0", "Missing path: encounter/body_temperature:1/any_event:1/temperature|magnitude, value: 11.0", "Missing path: encounter/body_temperature:0/any_event:0/temperature|magnitude, value: 22.0", "Missing path: encounter/body_temperature:0/any_event:1/temperature|magnitude, value: 11.0" }, new String[] { "Extra path: encounter/body_temperature:0/any_event:0/temperature|magnitude, value: 22", "Extra path: encounter/body_temperature:0/any_event:1/temperature|magnitude, value: 11", "Extra path: encounter/body_temperature:1/any_event:0/temperature|magnitude, value: 22", "Extra path: encounter/body_temperature:1/any_event:1/temperature|magnitude, value: 11" });
}

Example 3 with OPTParser

use of org.ehrbase.webtemplate.parser.OPTParser in project openEHR_SDK by ehrbase.

the class FlatJsonMarshallerTest method toFlatJsonIps.

@Test
public void toFlatJsonIps() throws Exception {
    OPERATIONALTEMPLATE template = TemplateDocument.Factory.parse(OperationalTemplateTestData.IPS.getStream()).getTemplate();
    Composition composition = new CanonicalJson().unmarshal(IOUtils.toString(CompositionTestDataCanonicalJson.IPS.getStream(), StandardCharsets.UTF_8), Composition.class);
    FlatJsonMarshaller marshaller = new FlatJsonMarshaller();
    String actual = marshaller.toFlatJson(composition, new OPTParser(template).parse());
    assertThat(actual).isNotNull();
    String expected = IOUtils.toString(CompositionTestDataSimSDTJson.IPS.getStream(), StandardCharsets.UTF_8);
    List<String> errors = compere(actual, expected);
    checkErrors(errors, new String[] { "Missing path: international_patient_summary/medication_summary/medication_statement/order_id:0|id, value: 9a0e5173-07c8-443d-b414-24432b9d95ca", "Missing path: international_patient_summary/medical_devices/device_use_statement/device_details:0/medical_device/unique_device_identifier_udi|id, value: 73b166ae-1c28-4ce0-8c08-a9587d8fd95a", "Missing path: international_patient_summary/medical_devices/device_use_statement/device_details:0/medical_device/other_identifier:0|id, value: 60287ff3-ec0f-4cd5-9000-2c05af2e6a84", "Missing path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/requester_order_identifier|id, value: 38a6687c-5136-4e75-9f1c-126e8f0e112b", "Missing path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/receiver_order_identifier|id, value: 9fc6db02-81de-4ec9-afe4-f365c42019e1", "Missing path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/report_identifier|id, value: a147525c-4763-4070-ba22-26e6b33348f4", "Missing path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/reported_image:0/image_identifier|id, value: 5462ef5c-2275-47c2-8fb5-f9f1d7a19613", "Missing path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/reported_image:0/dicom_series_identifier|id, value: 55dd86d7-52ff-4064-8dc7-f8d9b2bc22e7", "Missing path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/comparison_image:0/image_identifier|id, value: a6c20273-7b53-4c04-9b2c-2d4c218893b2", "Missing path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/comparison_image:0/dicom_series_identifier|id, value: 1ba8eff7-8f3f-4625-9432-05aa01726073", "Missing path: international_patient_summary/vital_signs/pulse_oximetry/any_event:0/spo, value: 0.8920999999999999", "Missing path: international_patient_summary/plan_of_care/care_plan/care_plan_id|id, value: 0942fb74-27f8-48c6-869e-10192740c371", "Missing path: international_patient_summary/plan_of_care/service_request/current_activity:0/action_archetype_id, value: /.*/", "Missing path: international_patient_summary/medication_summary/medication_statement/dosage/timing_-_daily/frequency/quantity_value|precision, value: 0", "Missing path: international_patient_summary/medication_summary/medication_statement/timing_-_non-daily/frequency/quantity_value|precision, value: 0", "Missing path: international_patient_summary/vital_signs/respiration/any_event:0/rate|precision, value: 0", "Missing path: international_patient_summary/vital_signs/pulse_heart_beat/any_event:0/rate|precision, value: 0", "Missing path: international_patient_summary/vital_signs/body_temperature/any_event:0/temperature|precision, value: 1", "Missing path: international_patient_summary/vital_signs/body_mass_index/any_event:0/body_mass_index|precision, value: 1", "Missing path: international_patient_summary/vital_signs/blood_pressure/any_event:0/systolic|precision, value: 0", "Missing path: international_patient_summary/vital_signs/blood_pressure/any_event:0/diastolic|precision, value: 0", "Missing path: international_patient_summary/social_history/alcohol_consumption_summary/per_episode:0/typical_consumption_alcohol_units|precision, value: 1" }, new String[] { "Extra path: international_patient_summary/medication_summary/medication_statement/order_id:0, value: 9a0e5173-07c8-443d-b414-24432b9d95ca", "Extra path: international_patient_summary/medical_devices/device_use_statement/device_details:0/medical_device/unique_device_identifier_udi, value: 73b166ae-1c28-4ce0-8c08-a9587d8fd95a", "Extra path: international_patient_summary/medical_devices/device_use_statement/device_details:0/medical_device/other_identifier:0, value: 60287ff3-ec0f-4cd5-9000-2c05af2e6a84", "Extra path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/requester_order_identifier, value: 38a6687c-5136-4e75-9f1c-126e8f0e112b", "Extra path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/receiver_order_identifier, value: 9fc6db02-81de-4ec9-afe4-f365c42019e1", "Extra path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/report_identifier, value: a147525c-4763-4070-ba22-26e6b33348f4", "Extra path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/reported_image:0/image_identifier, value: 5462ef5c-2275-47c2-8fb5-f9f1d7a19613", "Extra path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/reported_image:0/dicom_series_identifier, value: 55dd86d7-52ff-4064-8dc7-f8d9b2bc22e7", "Extra path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/comparison_image:0/image_identifier, value: a6c20273-7b53-4c04-9b2c-2d4c218893b2", "Extra path: international_patient_summary/diagnostic_results/imaging_examination_result/examination_request_details:0/comparison_image:0/dicom_series_identifier, value: 1ba8eff7-8f3f-4625-9432-05aa01726073", "Extra path: international_patient_summary/vital_signs/pulse_oximetry/any_event:0/spo, value: 0.8921", "Extra path: international_patient_summary/plan_of_care/care_plan/care_plan_id, value: 0942fb74-27f8-48c6-869e-10192740c371" });
}

Example 4 with OPTParser

use of org.ehrbase.webtemplate.parser.OPTParser in project openEHR_SDK by ehrbase.

the class FlatJsonMarshallerTest method toFlatJsonAllTypes.

@Test
public void toFlatJsonAllTypes() throws IOException, XmlException {
    OPERATIONALTEMPLATE template = TemplateDocument.Factory.parse(OperationalTemplateTestData.ALL_TYPES.getStream()).getTemplate();
    Composition composition = new CanonicalJson().unmarshal(IOUtils.toString(CompositionTestDataCanonicalJson.ALL_TYPES.getStream(), StandardCharsets.UTF_8), Composition.class);
    FlatJsonMarshaller cut = new FlatJsonMarshaller();
    String actual = cut.toFlatJson(composition, new OPTParser(template).parse());
    assertThat(actual).isNotNull();
    String expected = IOUtils.toString(CompositionTestDataSimSDTJson.ALL_TYPES.getStream(), StandardCharsets.UTF_8);
    List<String> errors = compere(actual, expected);
    checkErrors(errors, new String[] { "Missing path: test_all_types/test_all_types:0/identifier|id, value: 55175056", "Missing path: test_all_types/test_all_types:0/proportion_any|type, value: 1", "Missing path: test_all_types/test_all_types:0/proportion_any|precision, value: 1", "Missing path: test_all_types/test_all_types:0/duration_any, value: P1Y2M10DT2H30M", "Missing path: test_all_types/test_all_types2:0/uri, value: www.iana.org" }, new String[] { "Extra path: test_all_types/test_all_types:0/duration_any, value: PT30M", "Extra path: test_all_types/test_all_types:0/identifier, value: 55175056", "Extra path: test_all_types/test_all_types:0/proportion_any|type, value: 1.0" });
}

Example 5 with OPTParser

use of org.ehrbase.webtemplate.parser.OPTParser in project openEHR_SDK by ehrbase.

the class FlatJsonUnmarshallerTest method unmarshal.

@Test
public void unmarshal() throws IOException, XmlException {
    OPERATIONALTEMPLATE template = TemplateDocument.Factory.parse(OperationalTemplateTestData.CORONA_ANAMNESE.getStream()).getTemplate();
    WebTemplate webTemplate = new OPTParser(template).parse();
    FlatJsonUnmarshaller cut = new FlatJsonUnmarshaller();
    String flat = IOUtils.toString(CompositionTestDataSimSDTJson.CORONA.getStream(), StandardCharsets.UTF_8);
    Composition actual = cut.unmarshal(flat, webTemplate);
    assertThat(actual).isNotNull();
    Observation observation = (Observation) actual.itemAtPath("/content[openEHR-EHR-OBSERVATION.story.v1]");
    assertThat(observation.getData().getOrigin().getValue()).hasToString("2020-05-11T22:53:12.039139+02:00");
    assertThat(observation.getSubject()).isNotNull();
    assertThat(observation.getSubject().getClass()).isEqualTo(PartySelf.class);
}