Examples with ConceptReferenceComponent org.hl7.fhir.r4.model.ValueSet.ConceptReferenceComponent used on opensource projects

Example 46 with ConceptReferenceComponent

use of org.hl7.fhir.r4.model.ValueSet.ConceptReferenceComponent in project org.hl7.fhir.core by hapifhir.

the class ValueSetCheckerSimple method inComponent.

private Boolean inComponent(ConceptSetComponent vsi, int vsiIndex, String system, String code, boolean only, List<String> warnings) throws FHIRException {
    if (isValueSetUnionImports()) {
        for (UriType uri : vsi.getValueSet()) {
            if (inImport(uri.getValue(), system, code)) {
                return true;
            }
        }
    } else {
        for (UriType uri : vsi.getValueSet()) {
            if (!inImport(uri.getValue(), system, code)) {
                return false;
            }
        }
    }
    if (!vsi.hasSystem()) {
        return false;
    }
    if (only && system == null) {
        // whether we know the system or not, we'll accept the stated codes at face value
        for (ConceptReferenceComponent cc : vsi.getConcept()) {
            if (cc.getCode().equals(code)) {
                return true;
            }
        }
    }
    if (!system.equals(vsi.getSystem()))
        return false;
    // ok, we need the code system
    CodeSystem cs = resolveCodeSystem(system);
    if (cs == null || (cs.getContent() != CodeSystemContentMode.COMPLETE && cs.getContent() != CodeSystemContentMode.FRAGMENT)) {
        // make up a transient value set with
        ValueSet vs = new ValueSet();
        vs.setStatus(PublicationStatus.ACTIVE);
        vs.setUrl(valueset.getUrl() + "--" + vsiIndex);
        vs.setVersion(valueset.getVersion());
        vs.getCompose().addInclude(vsi);
        ValidationResult res = context.validateCode(options.noClient(), new Coding(system, code, null), vs);
        if (res.getErrorClass() == TerminologyServiceErrorClass.UNKNOWN || res.getErrorClass() == TerminologyServiceErrorClass.CODESYSTEM_UNSUPPORTED || res.getErrorClass() == TerminologyServiceErrorClass.VALUESET_UNSUPPORTED) {
            if (warnings != null && res.getErrorClass() == TerminologyServiceErrorClass.CODESYSTEM_UNSUPPORTED) {
                warnings.add(context.formatMessage(I18nConstants.TERMINOLOGY_TX_SYSTEM_NOTKNOWN, system));
            }
            return null;
        }
        if (res.getErrorClass() == TerminologyServiceErrorClass.NOSERVICE) {
            throw new NoTerminologyServiceException();
        }
        return res.isOk();
    } else {
        if (vsi.hasFilter()) {
            boolean ok = true;
            for (ConceptSetFilterComponent f : vsi.getFilter()) {
                if (!codeInFilter(cs, system, f, code)) {
                    ok = false;
                    break;
                }
            }
            return ok;
        }
        List<ConceptDefinitionComponent> list = cs.getConcept();
        boolean ok = validateCodeInConceptList(code, cs, list);
        if (ok && vsi.hasConcept()) {
            for (ConceptReferenceComponent cc : vsi.getConcept()) {
                if (cc.getCode().equals(code)) {
                    return true;
                }
            }
            return false;
        } else {
            return ok;
        }
    }
}

Example 47 with ConceptReferenceComponent

use of org.hl7.fhir.r4.model.ValueSet.ConceptReferenceComponent in project org.hl7.fhir.core by hapifhir.

the class ValueSetRenderer method getConceptsForCodes.

private Map<String, ConceptDefinitionComponent> getConceptsForCodes(CodeSystem e, ConceptSetComponent inc) {
    if (e == null) {
        e = getContext().getWorker().fetchCodeSystem(inc.getSystem());
    }
    ValueSetExpansionComponent vse = null;
    if (!context.isNoSlowLookup() && !getContext().getWorker().hasCache()) {
        try {
            ValueSetExpansionOutcome vso = getContext().getWorker().expandVS(inc, false);
            ValueSet valueset = vso.getValueset();
            if (valueset == null)
                throw new TerminologyServiceException("Error Expanding ValueSet: " + vso.getError());
            vse = valueset.getExpansion();
        } catch (TerminologyServiceException e1) {
            return null;
        }
    }
    Map<String, ConceptDefinitionComponent> results = new HashMap<>();
    List<CodingValidationRequest> serverList = new ArrayList<>();
    // 1st pass, anything we can resolve internally
    for (ConceptReferenceComponent cc : inc.getConcept()) {
        String code = cc.getCode();
        ConceptDefinitionComponent v = null;
        if (e != null) {
            v = getConceptForCode(e.getConcept(), code);
        }
        if (v == null && vse != null) {
            v = getConceptForCodeFromExpansion(vse.getContains(), code);
        }
        if (v != null) {
            results.put(code, v);
        } else {
            serverList.add(new CodingValidationRequest(new Coding(inc.getSystem(), code, null)));
        }
    }
    if (!context.isNoSlowLookup() && !serverList.isEmpty()) {
        getContext().getWorker().validateCodeBatch(getContext().getTerminologyServiceOptions(), serverList, null);
        for (CodingValidationRequest vr : serverList) {
            ConceptDefinitionComponent v = vr.getResult().asConceptDefinition();
            if (v != null) {
                results.put(vr.getCoding().getCode(), v);
            }
        }
    }
    return results;
}

Example 48 with ConceptReferenceComponent

use of org.hl7.fhir.r4.model.ValueSet.ConceptReferenceComponent in project org.hl7.fhir.core by hapifhir.

the class ValueSetRenderer method addLanguageRow.

private void addLanguageRow(ConceptReferenceComponent c, XhtmlNode t, List<String> langs) {
    XhtmlNode tr = t.tr();
    tr.td().addText(c.getCode());
    for (String lang : langs) {
        String d = null;
        for (ConceptReferenceDesignationComponent cd : c.getDesignation()) {
            String l = cd.getLanguage();
            if (lang.equals(l))
                d = cd.getValue();
        }
        tr.td().addText(d == null ? "" : d);
    }
}

Example 49 with ConceptReferenceComponent

use of org.hl7.fhir.r4.model.ValueSet.ConceptReferenceComponent in project org.hl7.fhir.core by hapifhir.

the class ValueSetRenderer method generateComposition.

private boolean generateComposition(XhtmlNode x, ValueSet vs, boolean header, List<UsedConceptMap> maps) throws FHIRException, IOException {
    boolean hasExtensions = false;
    List<String> langs = new ArrayList<String>();
    for (ConceptSetComponent inc : vs.getCompose().getInclude()) {
        scanForLangs(inc, langs);
    }
    for (ConceptSetComponent inc : vs.getCompose().getExclude()) {
        scanForLangs(inc, langs);
    }
    boolean doLangs = langs.size() < MAX_LANGS_IN_LINE;
    if (header) {
        XhtmlNode h = x.h2();
        h.addText(vs.present());
        addMarkdown(x, vs.getDescription());
        if (vs.hasCopyrightElement())
            generateCopyright(x, vs);
    }
    if (vs.getCompose().getInclude().size() == 1 && vs.getCompose().getExclude().size() == 0) {
        hasExtensions = genInclude(x.ul(), vs.getCompose().getInclude().get(0), "Include", langs, doLangs, maps) || hasExtensions;
    } else {
        XhtmlNode p = x.para();
        p.tx("This value set includes codes based on the following rules:");
        XhtmlNode ul = x.ul();
        for (ConceptSetComponent inc : vs.getCompose().getInclude()) {
            hasExtensions = genInclude(ul, inc, "Include", langs, doLangs, maps) || hasExtensions;
        }
        if (vs.getCompose().hasExclude()) {
            p = x.para();
            p.tx("This value set excludes codes based on the following rules:");
            ul = x.ul();
            for (ConceptSetComponent exc : vs.getCompose().getExclude()) {
                hasExtensions = genInclude(ul, exc, "Exclude", langs, doLangs, maps) || hasExtensions;
            }
        }
    }
    if (!doLangs && langs.size() > 0) {
        Collections.sort(langs);
        x.para().b().tx("Additional Language Displays");
        XhtmlNode t = x.table("codes");
        XhtmlNode tr = t.tr();
        tr.td().b().tx("Code");
        for (String lang : langs) tr.td().b().addText(describeLang(lang));
        for (ConceptSetComponent c : vs.getCompose().getInclude()) {
            for (ConceptReferenceComponent cc : c.getConcept()) {
                addLanguageRow(cc, t, langs);
            }
        }
    }
    return hasExtensions;
}

Example 50 with ConceptReferenceComponent

use of org.hl7.fhir.r4.model.ValueSet.ConceptReferenceComponent in project org.hl7.fhir.core by hapifhir.

the class ValueSetRenderer method genInclude.

private boolean genInclude(XhtmlNode ul, ConceptSetComponent inc, String type, List<String> langs, boolean doLangs, List<UsedConceptMap> maps) throws FHIRException, IOException {
    boolean hasExtensions = false;
    XhtmlNode li;
    li = ul.li();
    CodeSystem e = getContext().getWorker().fetchCodeSystem(inc.getSystem());
    if (inc.hasSystem()) {
        if (inc.getConcept().size() == 0 && inc.getFilter().size() == 0) {
            li.addText(type + " all codes defined in ");
            addCsRef(inc, li, e);
        } else {
            if (inc.getConcept().size() > 0) {
                li.addText(type + " these codes as defined in ");
                addCsRef(inc, li, e);
                if (inc.hasVersion()) {
                    li.addText(" version ");
                    li.code(inc.getVersion());
                }
                // for performance reasons, we do all the fetching in one batch
                Map<String, ConceptDefinitionComponent> definitions = getConceptsForCodes(e, inc);
                XhtmlNode t = li.table("none");
                boolean hasComments = false;
                boolean hasDefinition = false;
                for (ConceptReferenceComponent c : inc.getConcept()) {
                    hasComments = hasComments || ExtensionHelper.hasExtension(c, ToolingExtensions.EXT_VS_COMMENT);
                    ConceptDefinitionComponent cc = definitions.get(c.getCode());
                    hasDefinition = hasDefinition || ((cc != null && cc.hasDefinition()) || ExtensionHelper.hasExtension(c, ToolingExtensions.EXT_DEFINITION));
                }
                if (hasComments || hasDefinition)
                    hasExtensions = true;
                addMapHeaders(addTableHeaderRowStandard(t, false, true, hasDefinition, hasComments, false, false, null, langs, doLangs), maps);
                for (ConceptReferenceComponent c : inc.getConcept()) {
                    XhtmlNode tr = t.tr();
                    XhtmlNode td = tr.td();
                    ConceptDefinitionComponent cc = definitions.get(c.getCode());
                    addCodeToTable(false, inc.getSystem(), c.getCode(), c.hasDisplay() ? c.getDisplay() : cc != null ? cc.getDisplay() : "", td);
                    td = tr.td();
                    if (!Utilities.noString(c.getDisplay()))
                        td.addText(c.getDisplay());
                    else if (cc != null && !Utilities.noString(cc.getDisplay()))
                        td.addText(cc.getDisplay());
                    if (hasDefinition) {
                        td = tr.td();
                        if (ExtensionHelper.hasExtension(c, ToolingExtensions.EXT_DEFINITION)) {
                            smartAddText(td, ToolingExtensions.readStringExtension(c, ToolingExtensions.EXT_DEFINITION));
                        } else if (cc != null && !Utilities.noString(cc.getDefinition())) {
                            smartAddText(td, cc.getDefinition());
                        }
                    }
                    if (hasComments) {
                        td = tr.td();
                        if (ExtensionHelper.hasExtension(c, ToolingExtensions.EXT_VS_COMMENT)) {
                            smartAddText(td, "Note: " + ToolingExtensions.readStringExtension(c, ToolingExtensions.EXT_VS_COMMENT));
                        }
                    }
                    if (doLangs) {
                        addLangaugesToRow(c, langs, tr);
                    }
                }
            }
            if (inc.getFilter().size() > 0) {
                li.addText(type + " codes from ");
                addCsRef(inc, li, e);
                li.tx(" where ");
                for (int i = 0; i < inc.getFilter().size(); i++) {
                    ConceptSetFilterComponent f = inc.getFilter().get(i);
                    if (i > 0) {
                        if (i == inc.getFilter().size() - 1) {
                            li.tx(" and ");
                        } else {
                            li.tx(", ");
                        }
                    }
                    if (f.getOp() == FilterOperator.EXISTS) {
                        if (f.getValue().equals("true")) {
                            li.tx(f.getProperty() + " exists");
                        } else {
                            li.tx(f.getProperty() + " doesn't exist");
                        }
                    } else {
                        li.tx(f.getProperty() + " " + describe(f.getOp()) + " ");
                        if (e != null && codeExistsInValueSet(e, f.getValue())) {
                            String href = getContext().fixReference(getCsRef(e));
                            if (href.contains("#"))
                                href = href + "-" + Utilities.nmtokenize(f.getValue());
                            else
                                href = href + "#" + e.getId() + "-" + Utilities.nmtokenize(f.getValue());
                            li.ah(href).addText(f.getValue());
                        } else if ("concept".equals(f.getProperty()) && inc.hasSystem()) {
                            li.addText(f.getValue());
                            ValidationResult vr = getContext().getWorker().validateCode(getContext().getTerminologyServiceOptions(), inc.getSystem(), inc.getVersion(), f.getValue(), null);
                            if (vr.isOk()) {
                                li.tx(" (" + vr.getDisplay() + ")");
                            }
                        } else
                            li.addText(f.getValue());
                        String disp = ToolingExtensions.getDisplayHint(f);
                        if (disp != null)
                            li.tx(" (" + disp + ")");
                    }
                }
            }
        }
        if (inc.hasValueSet()) {
            li.tx(", where the codes are contained in ");
            boolean first = true;
            for (UriType vs : inc.getValueSet()) {
                if (first)
                    first = false;
                else
                    li.tx(", ");
                AddVsRef(vs.asStringValue(), li);
            }
        }
    } else {
        li.tx("Import all the codes that are contained in ");
        if (inc.getValueSet().size() < 4) {
            boolean first = true;
            for (UriType vs : inc.getValueSet()) {
                if (first)
                    first = false;
                else
                    li.tx(", ");
                AddVsRef(vs.asStringValue(), li);
            }
        } else {
            XhtmlNode xul = li.ul();
            for (UriType vs : inc.getValueSet()) {
                AddVsRef(vs.asStringValue(), xul.li());
            }
        }
    }
    return hasExtensions;
}