Examples with ConceptName org.openmrs.ConceptName used on opensource projects

Example 46 with ConceptName

use of org.openmrs.ConceptName in project openmrs-module-coreapps by openmrs.

the class CodedOrFreeTextAnswerListWidgetTest method testViewNonEmptyList.

@Test
public void testViewNonEmptyList() throws Exception {
    setUpView();
    ConceptName conceptName = new ConceptName();
    conceptName.setLocale(Context.getLocale());
    conceptName.setConceptNameType(ConceptNameType.FULLY_SPECIFIED);
    conceptName.setLocalePreferred(true);
    conceptName.setName("Coded");
    Concept concept = new Concept();
    concept.addName(conceptName);
    List<CodedOrFreeTextAnswer> list = new ArrayList<CodedOrFreeTextAnswer>();
    list.add(new CodedOrFreeTextAnswer("Free text"));
    list.add(new CodedOrFreeTextAnswer(concept));
    widget.setInitialValue(list);
    String html = widget.generateHtml(context);
    assertThat(html, matches("<div class=\"coded-or-free-text-list-widget\">\\s*" + "<span class=\"coded-or-free-text-title\">\\s*" + "Title\\s*" + "</span>\\s*" + "<br/>\\s*" + "<span class=\"value\">\\s*" + "\"Free text\"\\s*" + "</span>\\s*" + "<br/>\\s*" + "<span class=\"coded-or-free-text-between\">\\s*" + "\\(between\\)\\s*" + "</span>\\s*" + "<br/>\\s*" + "<span class=\"value\">\\s*" + "Coded\\s*" + "</span>\\s*" + "</div>"));
}

Example 47 with ConceptName

use of org.openmrs.ConceptName in project openmrs-module-pihcore by PIH.

the class DrugListSetupTest method shouldInstallNewDrugList.

@Test
public void shouldInstallNewDrugList() throws Exception {
    ConceptService cs = Context.getConceptService();
    List<Drug> initialInstalledDrugs = Context.getConceptService().getAllDrugs();
    Concept testDrugConcept = new Concept();
    testDrugConcept.addName(new ConceptName("test drug concept", Locale.ENGLISH));
    // N/A
    testDrugConcept.setDatatype(cs.getConceptDatatype(4));
    // Drug
    testDrugConcept.setConceptClass(cs.getConceptClass(3));
    cs.saveConcept(testDrugConcept);
    ConceptReferenceTerm crt = new ConceptReferenceTerm();
    // SNOMED CT
    ConceptSource source = cs.getConceptSource(2);
    crt.setConceptSource(source);
    crt.setCode("9876");
    cs.saveConceptReferenceTerm(crt);
    ConceptMap map = new ConceptMap();
    map.setConcept(testDrugConcept);
    map.setConceptReferenceTerm(crt);
    testDrugConcept.addConceptMapping(map);
    cs.saveConcept(testDrugConcept);
    // prevents "Unexpected call to partialFlushEnd; expecting partialFlushStart"
    Context.flushSession();
    DrugListSetup.installDrugList();
    List<Drug> installedDrugs = Context.getConceptService().getAllDrugs();
    List<String> installedDrugNames = new ArrayList<String>();
    for (Drug drug : installedDrugs) {
        installedDrugNames.add(drug.getName());
    }
    assertThat("Test Drug", is(in(installedDrugNames)));
    assertThat(installedDrugs.size(), is(initialInstalledDrugs.size() + 1));
}

Example 48 with ConceptName

use of org.openmrs.ConceptName in project openmrs-module-pihcore by PIH.

the class ConceptDictionaryExportTest method exportData.

/**
 * Intentional issues currently with this, in order to isolate away known issues.  These should be removed as appropriate:
 * - Normalizes concept source name, due to known issue needed in OCL to facilitate source matching
 * - Excludes voided concept names (which are really retired names that may have references), as these are not provided by ocl
 * - Converts answer sort weight from null -> 1.0 if only one answer exists for the concept
 */
@Test
public void exportData() throws Exception {
    // Only run this test if it is being run alone.  This ensures this test will not run in normal build.
    if (props == null) {
        return;
    }
    if (!Context.isSessionOpen()) {
        Context.openSession();
    }
    authenticate();
    List<Map<String, Object>> concepts = new ArrayList<>();
    System.out.println("Pulling concepts");
    int i = 0;
    List<Concept> conceptList = Context.getConceptService().getAllConcepts();
    conceptList.sort(Comparator.comparing(t -> t.getUuid().toUpperCase()));
    List<Concept> conceptsToIgnore = getConceptsToIgnore();
    conceptList.removeAll(conceptsToIgnore);
    for (Concept concept : conceptList) {
        System.out.println(i++ + ": Pulling concept: " + concept.getUuid());
        Map<String, Object> c = new LinkedHashMap<>();
        concepts.add(c);
        c.put("uuid", concept.getUuid());
        c.put("concept_class", concept.getConceptClass().getName());
        c.put("concept_datatype", concept.getDatatype().getName());
        c.put("is_set", BooleanUtils.isTrue(concept.getSet()) ? "true" : "false");
        c.put("version", concept.getVersion() == null ? "" : concept.getVersion());
        c.put("retired", BooleanUtils.isTrue(concept.getRetired()) ? "true" : "false");
        c.put("retireReason", concept.getRetireReason() == null ? "" : concept.getRetireReason());
        if (concept instanceof ConceptNumeric) {
            ConceptNumeric cn = (ConceptNumeric) concept;
            c.put("hi_absolute", cn.getHiAbsolute() == null ? "" : cn.getHiAbsolute().toString());
            c.put("hi_critical", cn.getLowAbsolute() == null ? "" : cn.getLowAbsolute().toString());
            c.put("hi_normal", cn.getHiNormal() == null ? "" : cn.getHiNormal().toString());
            c.put("low_absolute", cn.getLowAbsolute() == null ? "" : cn.getLowAbsolute().toString());
            c.put("low_critical", cn.getLowCritical() == null ? "" : cn.getLowCritical().toString());
            c.put("low_normal", cn.getLowNormal() == null ? "" : cn.getLowNormal().toString());
            c.put("units", cn.getUnits() == null ? "" : cn.getUnits());
            c.put("allow_decimal", BooleanUtils.isTrue(cn.getAllowDecimal()) ? "true" : "false");
            c.put("display_precision", cn.getHiAbsolute() == null ? "" : cn.getHiAbsolute().toString());
        }
        if (concept instanceof ConceptComplex) {
            ConceptComplex cc = (ConceptComplex) concept;
            c.put("handler", cc.getHandler());
        }
        List<ConceptName> names = new ArrayList<>(concept.getNames(true));
        names.sort(Comparator.comparing(ConceptName::getName).thenComparing(cn -> cn.getConceptNameType() == null ? "" : cn.getConceptNameType().name()).thenComparing(cn -> cn.getLocale().toString()).thenComparing(ConceptName::getLocalePreferred));
        List<Map<String, Object>> nameList = new ArrayList<>();
        for (ConceptName name : names) {
            if (BooleanUtils.isNotTrue(name.getVoided())) {
                Map<String, Object> n = new LinkedHashMap<>();
                n.put("name", name.getName());
                n.put("locale", name.getLocale().toString());
                n.put("locale_preferred", BooleanUtils.isTrue(name.getLocalePreferred()) ? "true" : "false");
                n.put("type", name.getConceptNameType() == null ? "" : name.getConceptNameType().name());
                n.put("voided", BooleanUtils.isTrue(name.getVoided()) ? "true" : "false");
                nameList.add(n);
            }
        }
        c.put("names", nameList);
        List<ConceptDescription> descriptions = new ArrayList<>(concept.getDescriptions());
        descriptions.sort(Comparator.comparing(ConceptDescription::getDescription));
        List<Map<String, Object>> descriptionList = new ArrayList<>();
        for (ConceptDescription description : descriptions) {
            Map<String, Object> n = new LinkedHashMap<>();
            n.put("description", description.getDescription());
            n.put("locale", description.getLocale().toString());
            descriptionList.add(n);
        }
        c.put("descriptions", descriptionList);
        List<ConceptAnswer> answers = new ArrayList<>(concept.getAnswers(true));
        answers.sort(Comparator.comparingDouble(ConceptAnswer::getSortWeight).thenComparing(ca -> ca.getAnswerConcept().getUuid()));
        List<Map<String, Object>> answerList = new ArrayList<>();
        for (ConceptAnswer ca : answers) {
            if (!conceptsToIgnore.contains(ca.getAnswerConcept())) {
                Map<String, Object> n = new LinkedHashMap<>();
                n.put("answerConcept", ca.getAnswerConcept().getUuid());
                n.put("sortWeight", ca.getSortWeight() == null ? (answers.size() == 1 ? "1.0" : "") : ca.getSortWeight().toString());
                answerList.add(n);
            }
        }
        c.put("answers", answerList);
        List<ConceptSet> setMembers = new ArrayList<>(concept.getConceptSets());
        setMembers.sort(Comparator.comparingDouble(ConceptSet::getSortWeight).thenComparing(cs -> cs.getConcept().getUuid()));
        List<Map<String, Object>> setMemberList = new ArrayList<>();
        for (ConceptSet cs : setMembers) {
            if (!conceptsToIgnore.contains(cs.getConcept())) {
                Map<String, Object> n = new LinkedHashMap<>();
                n.put("concept", cs.getConcept().getUuid());
                n.put("sortWeight", cs.getSortWeight() == null ? "" : cs.getSortWeight().toString());
                setMemberList.add(n);
            }
        }
        c.put("setMembers", setMemberList);
        List<ConceptMap> mappings = new ArrayList<>(concept.getConceptMappings());
        mappings.sort(Comparator.comparing((ConceptMap m) -> m.getConceptReferenceTerm().getConceptSource().getName()).thenComparing(m -> m.getConceptMapType().getName()).thenComparing(m -> m.getConceptReferenceTerm().getCode()));
        List<Map<String, Object>> mappingList = new ArrayList<>();
        for (ConceptMap cm : mappings) {
            Map<String, Object> n = new LinkedHashMap<>();
            n.put("source", normalizeSourceName(cm.getConceptReferenceTerm().getConceptSource().getName()));
            n.put("type", cm.getConceptMapType().getName());
            n.put("code", cm.getConceptReferenceTerm().getCode());
            mappingList.add(n);
        }
        c.put("mappings", mappingList);
    }
    File exportFile = new File(EXPORT_DIR, EXPORT_FILENAME);
    System.out.println("Writing concepts to: " + exportFile);
    ObjectMapper objectMapper = new ObjectMapper();
    objectMapper.writerWithDefaultPrettyPrinter().writeValue(exportFile, concepts);
    System.out.println("Concepts exported successfully");
}

Example 49 with ConceptName

use of org.openmrs.ConceptName in project openmrs-module-coreapps by openmrs.

the class DiagnosesFragmentController method simplify.

/**
 * This is public so that it can be used by a fragment that needs to prepopulate a diagnoses widget that is normally
 * populated with AJAX results from the #search method.
 * @param result
 * @param ui
 * @param locale
 * @return
 * @throws Exception
 */
public SimpleObject simplify(ConceptSearchResult result, UiUtils ui, Locale locale) throws Exception {
    SimpleObject simple = SimpleObject.fromObject(result, ui, "word", "conceptName.id", "conceptName.uuid", "conceptName.conceptNameType", "conceptName.name", "concept.id", "concept.uuid", "concept.conceptMappings.conceptMapType", "concept.conceptMappings.conceptReferenceTerm.code", "concept.conceptMappings.conceptReferenceTerm.name", "concept.conceptMappings.conceptReferenceTerm.conceptSource.name");
    Concept concept = result.getConcept();
    ConceptName conceptName = result.getConceptName();
    ConceptName preferredName = getPreferredName(locale, concept);
    PropertyUtils.setProperty(simple, "concept.preferredName", preferredName.getName());
    return simple;
}

Example 50 with ConceptName

use of org.openmrs.ConceptName in project openmrs-module-coreapps by openmrs.

the class EncounterDiagnosesFragmentControllerTest method testController_createdProperExistingDiagnoses.

@Test
public void testController_createdProperExistingDiagnoses() throws Exception {
    EncounterDiagnosesFragmentController controller = new EncounterDiagnosesFragmentController();
    ConceptName specificName = new ConceptName("Specific Name", Context.getLocale());
    specificName.setId(1);
    specificName.setLocalePreferred(true);
    Concept conceptForSpecificName = new Concept();
    conceptForSpecificName.setId(2);
    conceptForSpecificName.addName(specificName);
    Concept nonSpecificConcept = new Concept();
    nonSpecificConcept.setId(3);
    ConceptName nonSpecificConceptName = new ConceptName("Non-specific concept", Context.getLocale());
    nonSpecificConceptName.setId(4);
    nonSpecificConceptName.setLocalePreferred(true);
    nonSpecificConcept.addName(nonSpecificConceptName);
    List<Diagnosis> diagnoses = new ArrayList<Diagnosis>();
    diagnoses.add(new Diagnosis(new CodedOrFreeTextAnswer(specificName), Diagnosis.Order.PRIMARY));
    diagnoses.add(new Diagnosis(new CodedOrFreeTextAnswer(nonSpecificConcept), Diagnosis.Order.SECONDARY));
    diagnoses.add(new Diagnosis(new CodedOrFreeTextAnswer("Unknown Disease"), Diagnosis.Order.SECONDARY));
    for (Diagnosis d : diagnoses) {
        d.setExistingObs(new Obs());
    }
    FragmentModel model = new FragmentModel();
    controller.controller(new TestUiUtils(), diagnoses, null, model);
    assertThat(((List<String>) model.getAttribute("jsForPrior")).size(), is(0));
    List<String> jsForExisting = (List<String>) model.getAttribute("jsForExisting");
    assertThat(jsForExisting.get(0), is("{ diagnosis: diagnoses.CodedOrFreeTextConceptAnswer({\"word\":null,\"conceptName\":{\"id\":1,\"uuid\":\"" + specificName.getUuid() + "\",\"conceptNameType\":\"FULLY_SPECIFIED\",\"name\":\"Specific Name\"},\"concept\":{\"id\":2,\"uuid\":\"" + conceptForSpecificName.getUuid() + "\",\"conceptMappings\":[],\"preferredName\":\"Specific Name\"}}), confirmed: false, primary: true, existingObs: null }"));
    assertThat(jsForExisting.get(1), is("{ diagnosis: diagnoses.CodedOrFreeTextConceptAnswer({\"word\":null,\"conceptName\":null,\"concept\":{\"id\":3,\"uuid\":\"" + nonSpecificConcept.getUuid() + "\",\"conceptMappings\":[],\"preferredName\":\"Non-specific concept\"}}), confirmed: false, primary: false, existingObs: null }"));
    assertThat(jsForExisting.get(2), is("{ diagnosis: diagnoses.CodedOrFreeTextConceptAnswer('Unknown Disease'), confirmed: false, primary: false, existingObs: null }"));
}