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

Example 46 with UriType

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

the class NarrativeGenerator method renderLeaf.

private void renderLeaf(ResourceWrapper res, BaseWrapper ew, ElementDefinition defn, XhtmlNode x, boolean title, boolean showCodeDetails, Map<String, String> displayHints) throws FHIRException, UnsupportedEncodingException, IOException {
    if (ew == null)
        return;
    Base e = ew.getBase();
    if (e instanceof StringType)
        x.addText(((StringType) e).getValue());
    else if (e instanceof CodeType)
        x.addText(((CodeType) e).getValue());
    else if (e instanceof IdType)
        x.addText(((IdType) e).getValue());
    else if (e instanceof Extension)
        x.addText("Extensions: Todo");
    else if (e instanceof InstantType)
        x.addText(((InstantType) e).toHumanDisplay());
    else if (e instanceof DateTimeType)
        x.addText(((DateTimeType) e).toHumanDisplay());
    else if (e instanceof Base64BinaryType)
        x.addText(new Base64().encodeAsString(((Base64BinaryType) e).getValue()));
    else if (e instanceof org.hl7.fhir.dstu2016may.model.DateType)
        x.addText(((org.hl7.fhir.dstu2016may.model.DateType) e).toHumanDisplay());
    else if (e instanceof Enumeration) {
        Object ev = ((Enumeration<?>) e).getValue();
        // todo: look up a display name if there is one
        x.addText(ev == null ? "" : ev.toString());
    } else if (e instanceof BooleanType)
        x.addText(((BooleanType) e).getValue().toString());
    else if (e instanceof CodeableConcept) {
        renderCodeableConcept((CodeableConcept) e, x, showCodeDetails);
    } else if (e instanceof Coding) {
        renderCoding((Coding) e, x, showCodeDetails);
    } else if (e instanceof Annotation) {
        renderAnnotation((Annotation) e, x);
    } else if (e instanceof Identifier) {
        renderIdentifier((Identifier) e, x);
    } else if (e instanceof org.hl7.fhir.dstu2016may.model.IntegerType) {
        x.addText(Integer.toString(((org.hl7.fhir.dstu2016may.model.IntegerType) e).getValue()));
    } else if (e instanceof org.hl7.fhir.dstu2016may.model.DecimalType) {
        x.addText(((org.hl7.fhir.dstu2016may.model.DecimalType) e).getValue().toString());
    } else if (e instanceof HumanName) {
        renderHumanName((HumanName) e, x);
    } else if (e instanceof SampledData) {
        renderSampledData((SampledData) e, x);
    } else if (e instanceof Address) {
        renderAddress((Address) e, x);
    } else if (e instanceof ContactPoint) {
        renderContactPoint((ContactPoint) e, x);
    } else if (e instanceof UriType) {
        renderUri((UriType) e, x);
    } else if (e instanceof Timing) {
        renderTiming((Timing) e, x);
    } else if (e instanceof Range) {
        renderRange((Range) e, x);
    } else if (e instanceof Quantity) {
        renderQuantity((Quantity) e, x, showCodeDetails);
    } else if (e instanceof Ratio) {
        renderQuantity(((Ratio) e).getNumerator(), x, showCodeDetails);
        x.addText("/");
        renderQuantity(((Ratio) e).getDenominator(), x, showCodeDetails);
    } else if (e instanceof Period) {
        Period p = (Period) e;
        x.addText(!p.hasStart() ? "??" : p.getStartElement().toHumanDisplay());
        x.addText(" --> ");
        x.addText(!p.hasEnd() ? "(ongoing)" : p.getEndElement().toHumanDisplay());
    } else if (e instanceof Reference) {
        Reference r = (Reference) e;
        XhtmlNode c = x;
        ResourceWithReference tr = null;
        if (r.hasReferenceElement()) {
            tr = resolveReference(res, r.getReference());
            if (!r.getReference().startsWith("#")) {
                if (tr != null && tr.getReference() != null)
                    c = x.addTag("a").attribute("href", tr.getReference());
                else
                    c = x.addTag("a").attribute("href", r.getReference());
            }
        }
        // what to display: if text is provided, then that. if the reference was resolved, then show the generated narrative
        if (r.hasDisplayElement()) {
            c.addText(r.getDisplay());
            if (tr != null) {
                c.addText(". Generated Summary: ");
                generateResourceSummary(c, tr.getResource(), true, r.getReference().startsWith("#"));
            }
        } else if (tr != null) {
            generateResourceSummary(c, tr.getResource(), r.getReference().startsWith("#"), r.getReference().startsWith("#"));
        } else {
            c.addText(r.getReference());
        }
    } else if (e instanceof Resource) {
        return;
    } else if (e instanceof ElementDefinition) {
        x.addText("todo-bundle");
    } else if (e != null && !(e instanceof Attachment) && !(e instanceof Narrative) && !(e instanceof Meta))
        throw new NotImplementedException("type " + e.getClass().getName() + " not handled yet");
}

Example 47 with UriType

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

the class QuestionnaireBuilder method convertType.

@SuppressWarnings("unchecked")
private Type convertType(Base value, QuestionnaireItemType af, ValueSet vs, String path) throws FHIRException {
    switch(af) {
        // simple cases
        case BOOLEAN:
            if (value instanceof BooleanType)
                return (Type) value;
        case DECIMAL:
            if (value instanceof DecimalType)
                return (Type) value;
        case INTEGER:
            if (value instanceof IntegerType)
                return (Type) value;
        case DATE:
            if (value instanceof DateType)
                return (Type) value;
        case DATETIME:
            if (value instanceof DateTimeType)
                return (Type) value;
        case INSTANT:
            if (value instanceof InstantType)
                return (Type) value;
        case TIME:
            if (value instanceof TimeType)
                return (Type) value;
        case STRING:
            if (value instanceof StringType)
                return (Type) value;
            else if (value instanceof UriType)
                return new StringType(((UriType) value).asStringValue());
        case TEXT:
            if (value instanceof StringType)
                return (Type) value;
        case QUANTITY:
            if (value instanceof Quantity)
                return (Type) value;
        // ? QuestionnaireItemTypeAttachment: ...?
        case CHOICE:
        case OPENCHOICE:
            if (value instanceof Coding)
                return (Type) value;
            else if (value instanceof Enumeration) {
                Coding cc = new Coding();
                cc.setCode(((Enumeration<Enum<?>>) value).asStringValue());
                cc.setSystem(getSystemForCode(vs, cc.getCode(), path));
                return cc;
            } else if (value instanceof StringType) {
                Coding cc = new Coding();
                cc.setCode(((StringType) value).asStringValue());
                cc.setSystem(getSystemForCode(vs, cc.getCode(), path));
                return cc;
            }
        case REFERENCE:
            if (value instanceof Reference)
                return (Type) value;
            else if (value instanceof StringType) {
                Reference r = new Reference();
                r.setReference(((StringType) value).asStringValue());
            }
    }
    throw new FHIRException("Unable to convert from '" + value.getClass().toString() + "' for Answer Format " + af.toCode() + ", path = " + path);
}

Example 48 with UriType

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

the class StructureMapUtilities method runTransform.

private Base runTransform(TransformContext context, StructureMap map, StructureMapGroupRuleTargetComponent tgt, Variables vars) throws FHIRException {
    switch(tgt.getTransform()) {
        case CREATE:
            return ResourceFactory.createResourceOrType(getParamString(vars, tgt.getParameter().get(0)));
        case COPY:
            return getParam(vars, tgt.getParameter().get(0));
        case EVALUATE:
            ExpressionNode expr = (ExpressionNode) tgt.getUserData(MAP_EXPRESSION);
            if (expr == null) {
                expr = fpe.parse(getParamString(vars, tgt.getParameter().get(1)));
                tgt.setUserData(MAP_WHERE_EXPRESSION, expr);
            }
            List<Base> v = fpe.evaluate(null, null, getParam(vars, tgt.getParameter().get(0)), expr);
            if (v.size() != 1)
                throw new FHIRException("evaluation of " + expr.toString() + " returned " + Integer.toString(v.size()) + " objects");
            return v.get(0);
        case TRUNCATE:
            String src = getParamString(vars, tgt.getParameter().get(0));
            String len = getParamString(vars, tgt.getParameter().get(1));
            if (Utilities.isInteger(len)) {
                int l = Integer.parseInt(len);
                if (src.length() > l)
                    src = src.substring(0, l);
            }
            return new StringType(src);
        case ESCAPE:
            throw new Error("Transform " + tgt.getTransform().toCode() + " not supported yet");
        case CAST:
            throw new Error("Transform " + tgt.getTransform().toCode() + " not supported yet");
        case APPEND:
            throw new Error("Transform " + tgt.getTransform().toCode() + " not supported yet");
        case TRANSLATE:
            return translate(context, map, vars, tgt.getParameter());
        case REFERENCE:
            throw new Error("Transform " + tgt.getTransform().toCode() + " not supported yet");
        case DATEOP:
            throw new Error("Transform " + tgt.getTransform().toCode() + " not supported yet");
        case UUID:
            return new IdType(UUID.randomUUID().toString());
        case POINTER:
            Base b = getParam(vars, tgt.getParameter().get(0));
            if (b instanceof Resource)
                return new UriType("urn:uuid:" + ((Resource) b).getId());
            else
                throw new FHIRException("Transform engine cannot point at an element of type " + b.fhirType());
        default:
            throw new Error("Transform Unknown: " + tgt.getTransform().toCode());
    }
}

Example 49 with UriType

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

the class StructureMapUtilities method parseConceptMap.

private void parseConceptMap(StructureMap result, FHIRLexer lexer) throws FHIRLexerException {
    lexer.token("conceptmap");
    ConceptMap map = new ConceptMap();
    String id = lexer.readConstant("map id");
    if (!id.startsWith("#"))
        lexer.error("Concept Map identifier must start with #");
    map.setId(id.substring(1));
    result.getContained().add(map);
    lexer.token("{");
    lexer.skipComments();
    // lexer.token("source");
    // map.setSource(new UriType(lexer.readConstant("source")));
    // lexer.token("target");
    // map.setSource(new UriType(lexer.readConstant("target")));
    Map<String, String> prefixes = new HashMap<String, String>();
    while (lexer.hasToken("prefix")) {
        lexer.token("prefix");
        String n = lexer.take();
        lexer.token("=");
        String v = lexer.readConstant("prefix url");
        prefixes.put(n, v);
    }
    while (!lexer.hasToken("}")) {
        SourceElementComponent e = map.addElement();
        e.setSystem(readPrefix(prefixes, lexer));
        lexer.token(":");
        e.setCode(lexer.take());
        TargetElementComponent tgt = e.addTarget();
        tgt.setEquivalence(readEquivalence(lexer));
        if (tgt.getEquivalence() != ConceptMapEquivalence.UNMATCHED) {
            tgt.setSystem(readPrefix(prefixes, lexer));
            lexer.token(":");
            tgt.setCode(lexer.take());
        }
        if (lexer.hasComment())
            tgt.setComments(lexer.take().substring(2).trim());
    }
    lexer.token("}");
}

Example 50 with UriType

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

the class StructureMapUtilities method translate.

public Base translate(TransformContext context, StructureMap map, Base source, String conceptMapUrl, String fieldToReturn) throws FHIRException {
    Coding src = new Coding();
    if (source.isPrimitive()) {
        src.setCode(source.primitiveValue());
    } else if ("Coding".equals(source.fhirType())) {
        Base[] b = source.getProperty("system".hashCode(), "system", true);
        if (b.length == 1)
            src.setSystem(b[0].primitiveValue());
        b = source.getProperty("code".hashCode(), "code", true);
        if (b.length == 1)
            src.setCode(b[0].primitiveValue());
    } else if ("CE".equals(source.fhirType())) {
        Base[] b = source.getProperty("codeSystem".hashCode(), "codeSystem", true);
        if (b.length == 1)
            src.setSystem(b[0].primitiveValue());
        b = source.getProperty("code".hashCode(), "code", true);
        if (b.length == 1)
            src.setCode(b[0].primitiveValue());
    } else
        throw new FHIRException("Unable to translate source " + source.fhirType());
    if (conceptMapUrl.equals("http://hl7.org/fhir/ConceptMap/special-oid2uri")) {
        String uri = worker.oid2Uri(src.getCode());
        if (uri == null)
            uri = "urn:oid:" + src.getCode();
        if ("uri".equals(fieldToReturn))
            return new UriType(uri);
        else
            throw new FHIRException("Error in return code");
    } else {
        ConceptMap cmap = null;
        if (conceptMapUrl.startsWith("#")) {
            for (Resource r : map.getContained()) {
                if (r instanceof ConceptMap && ((ConceptMap) r).getId().equals(conceptMapUrl.substring(1)))
                    cmap = (ConceptMap) r;
            }
        } else
            cmap = worker.fetchResource(ConceptMap.class, conceptMapUrl);
        Coding outcome = null;
        boolean done = false;
        String message = null;
        if (cmap == null) {
            if (services == null)
                message = "No map found for " + conceptMapUrl;
            else {
                outcome = services.translate(context.appInfo, src, conceptMapUrl);
                done = true;
            }
        } else {
            List<SourceElementComponent> list = new ArrayList<SourceElementComponent>();
            for (SourceElementComponent e : cmap.getElement()) {
                if (!src.hasSystem() && src.getCode().equals(e.getCode()))
                    list.add(e);
                else if (src.hasSystem() && src.getSystem().equals(e.getSystem()) && src.getCode().equals(e.getCode()))
                    list.add(e);
            }
            if (list.size() == 0)
                done = true;
            else if (list.get(0).getTarget().size() == 0)
                message = "Concept map " + conceptMapUrl + " found no translation for " + src.getCode();
            else {
                for (TargetElementComponent tgt : list.get(0).getTarget()) {
                    if (tgt.getEquivalence() == ConceptMapEquivalence.EQUAL || tgt.getEquivalence() == ConceptMapEquivalence.EQUIVALENT || tgt.getEquivalence() == ConceptMapEquivalence.WIDER) {
                        if (done) {
                            message = "Concept map " + conceptMapUrl + " found multiple matches for " + src.getCode();
                            done = false;
                        } else {
                            done = true;
                            outcome = new Coding().setCode(tgt.getCode()).setSystem(tgt.getSystem());
                        }
                    } else if (tgt.getEquivalence() == ConceptMapEquivalence.UNMATCHED) {
                        done = true;
                    }
                }
                if (!done)
                    message = "Concept map " + conceptMapUrl + " found no usable translation for " + src.getCode();
            }
        }
        if (!done)
            throw new FHIRException(message);
        if (outcome == null)
            return null;
        if ("code".equals(fieldToReturn))
            return new CodeType(outcome.getCode());
        else
            return outcome;
    }
}