Examples with ConceptDefinitionComponent org.hl7.fhir.r5.model.CodeSystem.ConceptDefinitionComponent used on opensource projects

Example 66 with ConceptDefinitionComponent

use of org.hl7.fhir.r5.model.CodeSystem.ConceptDefinitionComponent in project org.hl7.fhir.core by hapifhir.

the class ValueSetCheckerSimple method codeInConceptIsAFilter.

private boolean codeInConceptIsAFilter(CodeSystem cs, ConceptSetFilterComponent f, String code, boolean rootOnly) {
    if (!rootOnly && code.equals(f.getProperty())) {
        return true;
    }
    ConceptDefinitionComponent cc = findCodeInConcept(cs.getConcept(), f.getValue());
    if (cc == null) {
        return false;
    }
    cc = findCodeInConcept(cc, code);
    return cc != null;
}

Example 67 with ConceptDefinitionComponent

use of org.hl7.fhir.r5.model.CodeSystem.ConceptDefinitionComponent in project org.hl7.fhir.core by hapifhir.

the class ValueSetCheckerSimple method findCodeInExpansion.

private ValidationResult findCodeInExpansion(Coding code, List<ValueSetExpansionContainsComponent> contains) {
    for (ValueSetExpansionContainsComponent containsComponent : contains) {
        if (containsComponent.getSystem().equals(code.getSystem()) && containsComponent.getCode().equals(code.getCode())) {
            ConceptDefinitionComponent ccd = new ConceptDefinitionComponent();
            ccd.setCode(containsComponent.getCode());
            ccd.setDisplay(containsComponent.getDisplay());
            ValidationResult res = new ValidationResult(code.getSystem(), ccd);
            return res;
        }
        if (containsComponent.hasContains()) {
            ValidationResult res = findCodeInExpansion(code, containsComponent.getContains());
            if (res != null) {
                return res;
            }
        }
    }
    return null;
}

Example 68 with ConceptDefinitionComponent

use of org.hl7.fhir.r5.model.CodeSystem.ConceptDefinitionComponent in project org.hl7.fhir.core by hapifhir.

the class ValueSetCheckerSimple method validateCode.

public ValidationResult validateCode(Coding code) throws FHIRException {
    String warningMessage = null;
    // first, we validate the concept itself
    ValidationResult res = null;
    boolean inExpansion = false;
    boolean inInclude = false;
    String system = code.hasSystem() ? code.getSystem() : getValueSetSystemOrNull();
    if (options.getValueSetMode() != ValueSetMode.CHECK_MEMERSHIP_ONLY) {
        if (system == null && !code.hasDisplay()) {
            // dealing with just a plain code (enum)
            system = systemForCodeInValueSet(code.getCode());
        }
        if (!code.hasSystem()) {
            if (options.isGuessSystem() && system == null && Utilities.isAbsoluteUrl(code.getCode())) {
                // this arises when using URIs bound to value sets
                system = "urn:ietf:rfc:3986";
            }
            code.setSystem(system);
        }
        inExpansion = checkExpansion(code);
        inInclude = checkInclude(code);
        CodeSystem cs = resolveCodeSystem(system);
        if (cs == null) {
            warningMessage = "Unable to resolve system " + system;
            if (!inExpansion) {
                if (valueset != null && valueset.hasExpansion()) {
                    return new ValidationResult(IssueSeverity.ERROR, context.formatMessage(I18nConstants.CODESYSTEM_CS_UNK_EXPANSION, valueset.getUrl(), code.getCode().toString(), code.getSystem()));
                } else {
                    throw new FHIRException(warningMessage);
                }
            }
        }
        if (cs != null && cs.hasSupplements()) {
            return new ValidationResult(IssueSeverity.ERROR, context.formatMessage(I18nConstants.CODESYSTEM_CS_NO_SUPPLEMENT, cs.getUrl()));
        }
        if (cs != null && cs.getContent() != CodeSystemContentMode.COMPLETE) {
            warningMessage = "Resolved system " + system + ", but the definition is not complete";
            if (!inExpansion && cs.getContent() != CodeSystemContentMode.FRAGMENT) {
                // we're going to give it a go if it's a fragment
                throw new FHIRException(warningMessage);
            }
        }
        if (cs != null) /*&& (cs.getContent() == CodeSystemContentMode.COMPLETE || cs.getContent() == CodeSystemContentMode.FRAGMENT)*/
        {
            if (!(cs.getContent() == CodeSystemContentMode.COMPLETE || cs.getContent() == CodeSystemContentMode.FRAGMENT)) {
                // we can't validate that here.
                throw new FHIRException("Unable to evaluate based on empty code system");
            }
            res = validateCode(code, cs);
        } else if (cs == null && valueset.hasExpansion() && inExpansion) {
            // we just take the value set as face value then
            res = new ValidationResult(system, new ConceptDefinitionComponent().setCode(code.getCode()).setDisplay(code.getDisplay()));
        } else {
            // disabled waiting for discussion
            throw new FHIRException("No try the server");
        }
    } else {
        inExpansion = checkExpansion(code);
        inInclude = checkInclude(code);
    }
    List<String> warnings = new ArrayList<>();
    // then, if we have a value set, we check it's in the value set
    if (valueset != null && options.getValueSetMode() != ValueSetMode.NO_MEMBERSHIP_CHECK) {
        if ((res == null || res.isOk())) {
            Boolean ok = codeInValueSet(system, code.getCode(), warnings);
            if (ok == null || !ok) {
                if (res == null) {
                    res = new ValidationResult((IssueSeverity) null, null);
                }
                if (!inExpansion && !inInclude) {
                    res.setMessage("Not in value set " + valueset.getUrl()).setSeverity(IssueSeverity.ERROR);
                } else if (warningMessage != null) {
                    res = new ValidationResult(IssueSeverity.WARNING, context.formatMessage(I18nConstants.CODE_FOUND_IN_EXPANSION_HOWEVER_, warningMessage));
                } else if (inExpansion) {
                    res.setMessage("Code found in expansion, however: " + res.getMessage());
                } else if (inInclude) {
                    res.setMessage("Code found in include, however: " + res.getMessage());
                }
            }
        }
    }
    return res;
}

Example 69 with ConceptDefinitionComponent

use of org.hl7.fhir.r5.model.CodeSystem.ConceptDefinitionComponent in project org.hl7.fhir.core by hapifhir.

the class ValueSetExpanderSimple method addCodeAndDescendents.

private void addCodeAndDescendents(CodeSystem cs, String system, ConceptDefinitionComponent def, ValueSetExpansionContainsComponent parent, Parameters expParams, List<ValueSet> filters, ConceptDefinitionComponent exclusion, IConceptFilter filterFunc) throws FHIRException {
    def.checkNoModifiers("Code in Code System", "expanding");
    if (exclusion != null) {
        if (exclusion.getCode().equals(def.getCode()))
            // excluded.
            return;
    }
    if (!CodeSystemUtilities.isDeprecated(cs, def, false)) {
        ValueSetExpansionContainsComponent np = null;
        boolean abs = CodeSystemUtilities.isNotSelectable(cs, def);
        boolean inc = CodeSystemUtilities.isInactive(cs, def);
        if ((includeAbstract || !abs) && filterFunc.includeConcept(cs, def)) {
            np = addCode(system, def.getCode(), def.getDisplay(), parent, def.getDesignation(), expParams, abs, inc, filters);
        }
        for (ConceptDefinitionComponent c : def.getConcept()) {
            addCodeAndDescendents(cs, system, c, np, expParams, filters, exclusion, filterFunc);
        }
        if (def.hasUserData(CodeSystemUtilities.USER_DATA_CROSS_LINK)) {
            List<ConceptDefinitionComponent> children = (List<ConceptDefinitionComponent>) def.getUserData(CodeSystemUtilities.USER_DATA_CROSS_LINK);
            for (ConceptDefinitionComponent c : children) addCodeAndDescendents(cs, system, c, np, expParams, filters, exclusion, filterFunc);
        }
    } else {
        for (ConceptDefinitionComponent c : def.getConcept()) {
            addCodeAndDescendents(cs, system, c, null, expParams, filters, exclusion, filterFunc);
        }
        if (def.hasUserData(CodeSystemUtilities.USER_DATA_CROSS_LINK)) {
            List<ConceptDefinitionComponent> children = (List<ConceptDefinitionComponent>) def.getUserData(CodeSystemUtilities.USER_DATA_CROSS_LINK);
            for (ConceptDefinitionComponent c : children) addCodeAndDescendents(cs, system, c, null, expParams, filters, exclusion, filterFunc);
        }
    }
}

Example 70 with ConceptDefinitionComponent

use of org.hl7.fhir.r5.model.CodeSystem.ConceptDefinitionComponent in project org.hl7.fhir.core by hapifhir.

the class ValueSetRenderer method getConceptForCodeFromExpansion.

private ConceptDefinitionComponent getConceptForCodeFromExpansion(List<ValueSetExpansionContainsComponent> list, String code) {
    for (ValueSetExpansionContainsComponent c : list) {
        if (code.equals(c.getCode())) {
            ConceptDefinitionComponent res = new ConceptDefinitionComponent();
            res.setCode(c.getCode());
            res.setDisplay(c.getDisplay());
            return res;
        }
        ConceptDefinitionComponent v = getConceptForCodeFromExpansion(c.getContains(), code);
        if (v != null)
            return v;
    }
    return null;
}