Examples with Base org.hl7.fhir.dstu2.model.Base used on opensource projects

Example 46 with Base

use of org.hl7.fhir.dstu2.model.Base in project kindling by HL7.

the class XSDBaseGenerator method genInfrastructure.

private void genInfrastructure(ElementDefn elem) throws Exception {
    enums.clear();
    enumDefs.clear();
    String name = elem.getName();
    write("  <xs:complexType name=\"" + name + "\">\r\n");
    write("    <xs:annotation>\r\n");
    write("      <xs:documentation xml:lang=\"en\">" + Utilities.escapeXml(elem.getDefinition()) + "</xs:documentation>\r\n");
    write("      <xs:documentation xml:lang=\"en\">If the element is present, it must have a value for at least one of the defined elements, an @id referenced from the Narrative, or extensions</xs:documentation>\r\n");
    write("    </xs:annotation>\r\n");
    if (!elem.getName().equals("Base")) {
        write("    <xs:complexContent>\r\n");
        write("      <xs:extension base=\"" + getParentType(elem) + "\">\r\n");
    }
    write("        <xs:sequence>\r\n");
    for (ElementDefn e : elem.getElements()) {
        if (!e.isXmlAttribute()) {
            if (e.getName().equals("[type]"))
                generateAny(elem, e, null, null);
            else
                generateElement(elem, e, null, null);
        }
    }
    write("        </xs:sequence>\r\n");
    for (ElementDefn e : elem.getElements()) {
        if (e.isXmlAttribute()) {
            generateAttribute(elem, e, null);
        }
    }
    if (!elem.getName().equals("Base")) {
        write("      </xs:extension>\r\n");
        write("    </xs:complexContent>\r\n");
    }
    write("  </xs:complexType>\r\n");
    while (!structures.isEmpty()) {
        String s = structures.keySet().iterator().next();
        generateType(elem, s, structures.get(s));
        structures.remove(s);
    }
    for (BindingSpecification en : enums) {
        generateEnum(en);
    }
}

Example 47 with Base

use of org.hl7.fhir.dstu2.model.Base in project kindling by HL7.

the class ProfileGenerator method genUml.

private void genUml(TypeDefn t) {
    if (!uml.hasClass(t.getName())) {
        UMLClass c = new UMLClass(t.getName(), UMLClassType.Class);
        uml.getTypes().put(t.getName(), c);
    }
    UMLClass c = uml.getClassByName(t.getName());
    c.setDocumentation(t.getDefinition());
    if (!t.getTypes().isEmpty()) {
        c.setSpecialises(uml.getClassByName(t.typeCodeNoParams()));
    }
    if (!c.hasAttributes()) {
        for (ElementDefn e : t.getElements()) {
            UMLAttribute a = null;
            if (t.getTypes().isEmpty()) {
                a = new UMLAttribute(e.getName(), Integer.toString(e.getMinCardinality()), Integer.toString(e.getMaxCardinality()), uml.getClassByNameCreate("Base"));
            } else if (t.getTypes().size() == 1 && !isReference(t.getTypes().get(0).getName())) {
                a = new UMLAttribute(e.getName(), Integer.toString(e.getMinCardinality()), Integer.toString(e.getMaxCardinality()), uml.getClassByNameCreate(e.typeCode()));
            } else {
                String tn = t.getTypes().get(0).getName();
                boolean allSame = true;
                for (int i = 1; i < t.getTypes().size(); i++) {
                    allSame = tn.equals(t.getTypes().get(i).getName());
                }
                if (allSame && isReference(tn)) {
                    a = new UMLAttribute(e.getName(), Integer.toString(e.getMinCardinality()), Integer.toString(e.getMaxCardinality()), uml.getClassByNameCreate(tn));
                    for (TypeRef tr : t.getTypes()) {
                        for (String p : tr.getParams()) {
                            a.getTargets().add(p);
                        }
                    }
                } else {
                    boolean allPrimitive = true;
                    for (TypeRef tr : t.getTypes()) {
                        if (!definitions.hasPrimitiveType(tr.getName())) {
                            allPrimitive = false;
                        }
                    }
                    if (allPrimitive) {
                        a = new UMLAttribute(e.getName(), Integer.toString(e.getMinCardinality()), Integer.toString(e.getMaxCardinality()), uml.getClassByNameCreate("PrimitiveType"));
                    } else {
                        a = new UMLAttribute(e.getName(), Integer.toString(e.getMinCardinality()), Integer.toString(e.getMaxCardinality()), uml.getClassByNameCreate("DataType"));
                    }
                    for (TypeRef tr : t.getTypes()) {
                        a.getTypes().add(tr.getName());
                        for (String p : tr.getParams()) {
                            a.getTargets().add(p);
                        }
                    }
                }
            }
            c.getAttributes().add(a);
        }
    }
}

Example 48 with Base

use of org.hl7.fhir.dstu2.model.Base in project kindling by HL7.

the class ProfileGenerator method generate.

public StructureDefinition generate(TypeDefn t) throws Exception {
    genUml(t);
    StructureDefinition p = new StructureDefinition();
    p.setId(t.getName());
    p.setUrl("http://hl7.org/fhir/StructureDefinition/" + t.getName());
    p.setKind(StructureDefinitionKind.COMPLEXTYPE);
    p.setAbstract(t.isAbstractType());
    p.setUserData("filename", t.getName().toLowerCase());
    p.setUserData("path", definitions.getSrcFile(t.getName()) + ".html#" + t.getName());
    assert !Utilities.noString(t.typeCode());
    String b = (t.typeCode().equals("Type") ? "Element" : t.typeCode().equals("Structure") ? "BackboneElement" : t.typeCode());
    if (!Utilities.noString(b)) {
        p.setBaseDefinition("http://hl7.org/fhir/StructureDefinition/" + b);
        p.setDerivation(TypeDerivationRule.SPECIALIZATION);
    }
    p.setType(t.getName());
    p.setFhirVersion(version);
    p.setVersion(version.toCode());
    ToolingExtensions.setStandardsStatus(p, t.getStandardsStatus(), t.getNormativeVersion());
    ToolResourceUtilities.updateUsage(p, "core");
    p.setName(t.getName());
    p.setPublisher("HL7 FHIR Standard");
    p.addContact().getTelecom().add(Factory.newContactPoint(ContactPointSystem.URL, "http://hl7.org/fhir"));
    p.setDescription("Base StructureDefinition for " + t.getName() + " Type: " + t.getDefinition());
    p.setPurpose(t.getRequirements());
    p.setDate(genDate.getTime());
    p.setStatus(t.getStandardsStatus() == StandardsStatus.NORMATIVE ? PublicationStatus.fromCode("active") : PublicationStatus.fromCode("draft"));
    Set<String> containedSlices = new HashSet<String>();
    // first, the differential
    p.setDifferential(new StructureDefinitionDifferentialComponent());
    defineElement(null, p, p.getDifferential().getElement(), t, t.getName(), containedSlices, new ArrayList<ProfileGenerator.SliceHandle>(), SnapShotMode.None, true, "Element", b, false);
    p.getDifferential().getElement().get(0).setIsSummaryElement(null);
    reset();
    // now. the snapshot
    p.setSnapshot(new StructureDefinitionSnapshotComponent());
    defineElement(null, p, p.getSnapshot().getElement(), t, t.getName(), containedSlices, new ArrayList<ProfileGenerator.SliceHandle>(), SnapShotMode.DataType, true, "Element", b, true);
    for (ElementDefinition ed : p.getSnapshot().getElement()) if (ed.getBase().getPath().equals(ed.getPath()) && ed.getPath().contains("."))
        generateElementDefinition(p, ed, getParent(ed, p.getSnapshot().getElement()));
    containedSlices.clear();
    addElementConstraintToSnapshot(p);
    p.getDifferential().getElement().get(0).getType().clear();
    p.getSnapshot().getElement().get(0).getType().clear();
    p.getSnapshot().getElement().get(0).setIsSummaryElement(null);
    XhtmlNode div = new XhtmlNode(NodeType.Element, "div");
    div.addText("to do");
    p.setText(new Narrative());
    p.getText().setStatus(NarrativeStatus.GENERATED);
    p.getText().setDiv(div);
    checkHasTypes(p);
    return p;
}

Example 49 with Base

use of org.hl7.fhir.dstu2.model.Base in project kindling by HL7.

the class ProfileGenerator method generate.

public StructureDefinition generate(DefinedStringPattern type) throws Exception {
    genUml(type);
    StructureDefinition p = new StructureDefinition();
    p.setId(type.getCode());
    p.setUrl("http://hl7.org/fhir/StructureDefinition/" + type.getCode());
    p.setBaseDefinition("http://hl7.org/fhir/StructureDefinition/" + type.getBase());
    p.setType(type.getCode());
    p.setDerivation(TypeDerivationRule.SPECIALIZATION);
    p.setKind(StructureDefinitionKind.PRIMITIVETYPE);
    p.setAbstract(false);
    p.setUserData("filename", type.getCode().toLowerCase());
    p.setUserData("path", "datatypes.html#" + type.getCode());
    p.setFhirVersion(version);
    p.setVersion(version.toCode());
    ToolingExtensions.setStandardsStatus(p, StandardsStatus.NORMATIVE, "4.0.0");
    ToolResourceUtilities.updateUsage(p, "core");
    p.setName(type.getCode());
    p.setPublisher("HL7 FHIR Standard");
    p.addContact().getTelecom().add(Factory.newContactPoint(ContactPointSystem.URL, "http://hl7.org/fhir"));
    p.setDescription("Base StructureDefinition for " + type.getCode() + " type: " + type.getDefinition());
    p.setDate(genDate.getTime());
    p.setStatus(PublicationStatus.fromCode("active"));
    Set<String> containedSlices = new HashSet<String>();
    // first, the differential
    p.setDifferential(new StructureDefinitionDifferentialComponent());
    ElementDefinition ec1 = new ElementDefinition();
    p.getDifferential().getElement().add(ec1);
    ec1.setId(type.getCode());
    ec1.setPath(type.getCode());
    ec1.setShort("Primitive Type " + type.getCode());
    ec1.setDefinition(type.getDefinition());
    ec1.setComment(type.getComment());
    ec1.setMin(0);
    ec1.setMax("*");
    ElementDefinition ec2 = new ElementDefinition();
    p.getDifferential().getElement().add(ec2);
    ec2.setId(type.getCode() + ".value");
    ec2.setPath(type.getCode() + ".value");
    ec2.addRepresentation(PropertyRepresentation.XMLATTR);
    ec2.setShort("Primitive value for " + type.getCode());
    ec2.setDefinition("Primitive value for " + type.getCode());
    ec2.setMin(0);
    ec2.setMax("1");
    TypeRefComponent t = ec2.addType();
    t.setCodeElement(new UriType());
    t.getFormatCommentsPre().add("Note: special primitive values have a FHIRPath system type. e.g. this is compiler magic (g)");
    t.setCode(Constants.NS_SYSTEM_TYPE + type.getFHIRPathType());
    ToolingExtensions.addUriExtension(t, ToolingExtensions.EXT_FHIR_TYPE, type.getCode());
    if (!Utilities.noString(type.getRegex())) {
        ToolingExtensions.addStringExtension(t, ToolingExtensions.EXT_REGEX, type.getRegex());
    }
    reset();
    // now. the snapshot
    p.setSnapshot(new StructureDefinitionSnapshotComponent());
    ElementDefinition ecA = new ElementDefinition(true, ElementDefinition.NOT_MODIFIER, ElementDefinition.NOT_IN_SUMMARY);
    p.getSnapshot().getElement().add(ecA);
    ecA.setId(type.getCode());
    ecA.setPath(type.getCode());
    ecA.setShort("Primitive Type " + type.getCode());
    ecA.setDefinition(type.getDefinition());
    ecA.setComment(type.getComment());
    ecA.setMin(0);
    ecA.setMax("*");
    ecA.makeBase(type.getCode(), 0, "*");
    addElementConstraints("Element", ecA);
    ElementDefinition ecid = new ElementDefinition(true, ElementDefinition.NOT_MODIFIER, ElementDefinition.NOT_IN_SUMMARY);
    p.getSnapshot().getElement().add(ecid);
    ecid.setId(type.getCode() + ".id");
    ecid.setPath(type.getCode() + ".id");
    ecid.addRepresentation(PropertyRepresentation.XMLATTR);
    ecid.setDefinition("unique id for the element within a resource (for internal references)");
    ecid.setMin(0);
    ecid.setMax("1");
    ecid.setShort("xml:id (or equivalent in JSON)");
    TypeRefComponent tr = ecid.addType();
    tr.getFormatCommentsPre().add("Note: special primitive values have a FHIRPath system type. e.g. this is compiler magic (h)");
    tr.setCode(Constants.NS_SYSTEM_TYPE + "String");
    ToolingExtensions.addUriExtension(tr, ToolingExtensions.EXT_FHIR_TYPE, "string");
    ecid.makeBase("Element.id", 0, "1");
    makeExtensionSlice("extension", p, p.getSnapshot(), null, type.getCode());
    ElementDefinition ecB = new ElementDefinition(true, ElementDefinition.NOT_MODIFIER, ElementDefinition.NOT_IN_SUMMARY);
    p.getSnapshot().getElement().add(ecB);
    ecB.setPath(type.getCode() + ".value");
    ecB.setId(type.getCode() + ".value");
    ecB.addRepresentation(PropertyRepresentation.XMLATTR);
    ecB.setDefinition("Primitive value for " + type.getCode());
    ecB.setShort("Primitive value for " + type.getCode());
    ecB.setMin(0);
    ecB.setMax("1");
    ecB.makeBase(type.getBase() + ".value", 0, "1");
    t = ecB.addType();
    t.getFormatCommentsPre().add("Note: special primitive values have a FHIRPath system type. e.g. this is compiler magic (i)");
    t.setCode(Constants.NS_SYSTEM_TYPE + "String");
    ToolingExtensions.addUriExtension(t, ToolingExtensions.EXT_FHIR_TYPE, "string");
    if (!Utilities.noString(type.getRegex()))
        ToolingExtensions.addStringExtension(t, ToolingExtensions.EXT_REGEX, type.getRegex());
    // generateElementDefinition(ecB, ecA);
    containedSlices.clear();
    addElementConstraintToSnapshot(p);
    XhtmlNode div = new XhtmlNode(NodeType.Element, "div");
    div.addText("to do");
    p.setText(new Narrative());
    p.getText().setStatus(NarrativeStatus.GENERATED);
    p.getText().setDiv(div);
    checkHasTypes(p);
    return p;
}

Example 50 with Base

use of org.hl7.fhir.dstu2.model.Base in project kindling by HL7.

the class ProfileGenerator method generate.

public StructureDefinition generate(ProfiledType pt, List<ValidationMessage> issues) throws Exception {
    StructureDefinition p = new StructureDefinition();
    p.setId(pt.getName());
    p.setUrl("http://hl7.org/fhir/StructureDefinition/" + pt.getName());
    p.setBaseDefinition("http://hl7.org/fhir/StructureDefinition/" + pt.getBaseType());
    p.setKind(StructureDefinitionKind.COMPLEXTYPE);
    p.setType(pt.getBaseType());
    p.setDerivation(TypeDerivationRule.CONSTRAINT);
    p.setAbstract(false);
    p.setUserData("filename", pt.getName().toLowerCase());
    p.setUserData("path", "datatypes.html#" + pt.getName());
    p.setFhirVersion(version);
    p.setVersion(version.toCode());
    ToolingExtensions.setStandardsStatus(p, StandardsStatus.NORMATIVE, "4.0.0");
    p.setStatus(PublicationStatus.fromCode("active"));
    ToolResourceUtilities.updateUsage(p, "core");
    p.setName(pt.getName());
    p.setPublisher("HL7 FHIR Standard");
    p.addContact().getTelecom().add(Factory.newContactPoint(ContactPointSystem.URL, "http://hl7.org/fhir"));
    p.setDescription("Base StructureDefinition for Type " + pt.getName() + ": " + pt.getDefinition());
    p.setDescription(pt.getDefinition());
    p.setDate(genDate.getTime());
    // first, the differential
    p.setName(pt.getName());
    ElementDefinition e = new ElementDefinition();
    String idroot = e.getId();
    e.setPath(pt.getBaseType());
    // e.setSliceName(pt.getName());
    e.setShort(pt.getDefinition());
    e.setDefinition(preProcessMarkdown(pt.getDescription(), "??"));
    e.setMin(0);
    e.setMax("*");
    e.setIsModifier(false);
    String s = definitions.getTLAs().get(pt.getName().toLowerCase());
    if (s == null)
        throw new Exception("There is no TLA for '" + pt.getName() + "' in fhir.ini");
    ElementDefinitionConstraintComponent inv = new ElementDefinitionConstraintComponent();
    inv.setKey(s + "-1");
    inv.setRequirements(pt.getInvariant().getRequirements());
    inv.setSeverity(ConstraintSeverity.ERROR);
    inv.setHuman(pt.getInvariant().getEnglish());
    if (!"n/a".equals(pt.getInvariant().getExpression())) {
        fpUsages.add(new FHIRPathUsage(pt.getName(), pt.getName(), pt.getName(), null, pt.getInvariant().getExpression()));
        inv.setExpression(pt.getInvariant().getExpression());
    }
    inv.setXpath(pt.getInvariant().getXpath());
    e.getConstraint().add(inv);
    p.setDifferential(new StructureDefinitionDifferentialComponent());
    p.getDifferential().getElement().add(e);
    StructureDefinition base = getTypeSnapshot(pt.getBaseType());
    if (!pt.getRules().isEmpty()) {
        // throw new Exception("todo");
        for (String rule : pt.getRules().keySet()) {
            String[] parts = rule.split("\\.");
            String value = pt.getRules().get(rule);
            ElementDefinition er = findElement(p.getDifferential(), pt.getBaseType() + '.' + parts[0]);
            if (er == null) {
                er = new ElementDefinition();
                er.setId(pt.getBaseType() + ':' + p.getId() + '.' + parts[0]);
                er.setPath(pt.getBaseType() + '.' + parts[0]);
                p.getDifferential().getElement().add(er);
            }
            if (parts[1].equals("min"))
                er.setMin(Integer.parseInt(value));
            else if (parts[1].equals("max"))
                er.setMax(value);
            else if (parts[1].equals("defn"))
                er.setDefinition(preProcessMarkdown(value, "er"));
        }
        List<String> errors = new ArrayList<String>();
        new ProfileUtilities(context, null, pkp).sortDifferential(base, p, p.getName(), errors, true);
        for (String se : errors) issues.add(new ValidationMessage(Source.ProfileValidator, IssueType.STRUCTURE, -1, -1, p.getUrl(), se, IssueSeverity.WARNING));
    }
    reset();
    // now, the snapshot
    new ProfileUtilities(context, issues, pkp).generateSnapshot(base, p, "http://hl7.org/fhir/StructureDefinition/" + pt.getBaseType(), "http://hl7.org/fhir", p.getName());
    // for (ElementDefinition ed : p.getSnapshot().getElement())
    // generateElementDefinition(ed, getParent(ed, p.getSnapshot().getElement()));
    p.getDifferential().getElement().get(0).getType().clear();
    p.getSnapshot().getElement().get(0).getType().clear();
    XhtmlNode div = new XhtmlNode(NodeType.Element, "div");
    div.addTag("h2").addText("Data type " + pt.getName());
    div.addTag("p").addText(pt.getDefinition());
    div.addTag("h3").addText("Rule");
    div.addTag("p").addText(pt.getInvariant().getEnglish());
    div.addTag("p").addText("XPath:");
    div.addTag("blockquote").addTag("pre").addText(pt.getInvariant().getXpath());
    p.setText(new Narrative());
    p.getText().setStatus(NarrativeStatus.GENERATED);
    p.getText().setDiv(div);
    addElementConstraintToSnapshot(p);
    new ProfileUtilities(context, issues, pkp).setIds(p, false);
    checkHasTypes(p);
    return p;
}