Examples with org.hl7.fhir.r5.utils.validation org.hl7.fhir.r5.utils.validation used on opensource projects

Example 26 with org.hl7.fhir.r5.utils.validation

use of org.hl7.fhir.r5.utils.validation in project kindling by HL7.

the class DefinitionsUsageTracker method usage.

private void usage(org.hl7.fhir.r5.elementmodel.Element instance, ElementDefn definition, String path) throws Exception {
    definition.setCoveredByExample(true);
    for (Element c : instance.getChildren()) {
        String p = c.getProperty().getDefinition().getPath();
        ElementDefn ed = definitions.getElementByPath(p.split("\\."), "example usage", true);
        if (ed != null)
            usage(c, ed, path + "." + c.getName());
    // else if (!c.getName().equals("extension"))
    // System.out.println("error finding "+c.getName()+" at "+path);
    }
}

Example 27 with org.hl7.fhir.r5.utils.validation

use of org.hl7.fhir.r5.utils.validation in project kindling by HL7.

the class ExampleInspector method fetch.

@Override
public Element fetch(IResourceValidator validator, Object appContext, String url) throws IOException, FHIRException {
    String[] parts = url.split("\\/");
    if (parts.length == 2 && definitions.hasResource(parts[0])) {
        ResourceDefn r = definitions.getResourceByName(parts[0]);
        for (Example e : r.getExamples()) {
            if (e.getElement() == null && e.hasXml()) {
                e.setElement(new org.hl7.fhir.r5.elementmodel.XmlParser(context).parse(e.getXml()));
                if (e.getElement().getProperty().getStructure().getBaseDefinition().contains("MetadataResource")) {
                    String urle = e.getElement().getChildValue("url");
                    String v = e.getElement().getChildValue("url");
                    if (urle != null && urle.startsWith("http://hl7.org/fhir") && !version.toCode().equals(v)) {
                        e.getElement().setChildValue("version", version.toCode());
                    }
                }
            }
            if (e.getElement() != null) {
                if (e.getElement().fhirType().equals("Bundle")) {
                    for (Base b : e.getElement().listChildrenByName("entry")) {
                        if (b.getChildByName("resource").hasValues()) {
                            Element res = (Element) b.getChildByName("resource").getValues().get(0);
                            if (res.fhirType().equals(parts[0]) && parts[1].equals(res.getChildValue("id"))) {
                                return res;
                            }
                        }
                    }
                } else if (e.getElement().fhirType().equals(parts[0]) && e.getId().equals(parts[1])) {
                    return e.getElement();
                }
            }
        }
        try {
            if (parts[0].equals("StructureDefinition"))
                return new ObjectConverter(context).convert(context.fetchResourceWithException(StructureDefinition.class, "http://hl7.org/fhir/" + parts[0] + "/" + parts[1]));
            if (parts[0].equals("OperationDefinition"))
                return new ObjectConverter(context).convert(context.fetchResourceWithException(OperationDefinition.class, "http://hl7.org/fhir/" + parts[0] + "/" + parts[1]));
            if (parts[0].equals("SearchParameter"))
                return new ObjectConverter(context).convert(context.fetchResourceWithException(SearchParameter.class, "http://hl7.org/fhir/" + parts[0] + "/" + parts[1]));
            if (parts[0].equals("ValueSet"))
                return new ObjectConverter(context).convert(context.fetchResourceWithException(ValueSet.class, "http://hl7.org/fhir/" + parts[0] + "/" + parts[1]));
            if (parts[0].equals("CodeSystem"))
                return new ObjectConverter(context).convert(context.fetchResourceWithException(CodeSystem.class, "http://hl7.org/fhir/" + parts[0] + "/" + parts[1]));
        } catch (Exception e) {
            return null;
        }
        return null;
    } else
        return null;
}

Example 28 with org.hl7.fhir.r5.utils.validation

use of org.hl7.fhir.r5.utils.validation in project kindling by HL7.

the class SpecNPMPackageGenerator method makeResourceList5.

private List<ResourceEntry> makeResourceList5(Map<String, byte[]> files, String version, List<ResourceEntry> res) throws FHIRFormatError, IOException {
    for (String k : files.keySet()) {
        if (k.endsWith(".xml")) {
            Bundle b = (Bundle) new org.hl7.fhir.r5.formats.XmlParser().parse(files.get(k));
            for (org.hl7.fhir.r5.model.Bundle.BundleEntryComponent be : b.getEntry()) {
                if (be.hasResource()) {
                    ResourceEntry e = new ResourceEntry();
                    e.type = be.getResource().fhirType();
                    e.id = be.getResource().getId();
                    e.json = new org.hl7.fhir.r5.formats.JsonParser().composeBytes(be.getResource());
                    e.xml = new org.hl7.fhir.r5.formats.XmlParser().composeBytes(be.getResource());
                    e.conf = true;
                    if (be.getResource() instanceof org.hl7.fhir.r5.model.CanonicalResource)
                        e.canonical = ((org.hl7.fhir.r5.model.CanonicalResource) be.getResource()).getUrl();
                    res.add(e);
                }
            }
        }
    }
    return null;
}

Example 29 with org.hl7.fhir.r5.utils.validation

use of org.hl7.fhir.r5.utils.validation in project kindling by HL7.

the class DSTU3ValidationConvertor method convert.

public void convert(String bundleSource, String bundleTarget) throws Exception {
    System.out.println("Convert " + bundleSource);
    try {
        source = (Bundle) new XmlParser().parse(new FileInputStream(bundleSource));
        org.hl7.fhir.dstu3.model.Bundle target = Bundle30_50.convertBundle(source);
        new org.hl7.fhir.dstu3.formats.XmlParser().setOutputStyle(OutputStyle.PRETTY).compose(new FileOutputStream(bundleTarget), target);
    } catch (Exception e) {
        throw new Exception(e);
    }
}

Example 30 with org.hl7.fhir.r5.utils.validation

use of org.hl7.fhir.r5.utils.validation in project kindling by HL7.

the class SourceParser method loadCompositeType.

private String loadCompositeType(String n, Map<String, org.hl7.fhir.definitions.model.TypeDefn> map, String fmm, boolean isAbstract) throws Exception {
    TypeParser tp = new TypeParser(version.toString());
    List<TypeRef> ts = tp.parse(n, false, null, context, true);
    definitions.getKnownTypes().addAll(ts);
    StandardsStatus status = loadStatus(n);
    String nv = loadNormativeVersion(n);
    try {
        TypeRef t = ts.get(0);
        File csv = new CSFile(dtDir + t.getName().toLowerCase() + ".xml");
        if (csv.exists()) {
            OldSpreadsheetParser p = new OldSpreadsheetParser("core", new CSFileInputStream(csv), csv.getName(), csv.getAbsolutePath(), definitions, srcDir, logger, registry, version, context, genDate, isAbstract, page, true, ini, wg("fhir"), definitions.getProfileIds(), fpUsages, page.getConceptMaps(), exceptionIfExcelNotNormalised, page.packageInfo(), page.getRc());
            org.hl7.fhir.definitions.model.TypeDefn el = p.parseCompositeType();
            el.setFmmLevel(fmm);
            el.setStandardsStatus(status);
            el.setNormativeVersion(nv);
            map.put(t.getName(), el);
            genTypeProfile(el);
            errors.addAll(p.getErrors());
            return el.getName();
        } else {
            String p = ini.getStringProperty("types", n);
            csv = new CSFile(dtDir + p.toLowerCase() + ".xml");
            if (!csv.exists())
                throw new Exception("unable to find a definition for " + n + " in " + p);
            XLSXmlParser xls = new XLSXmlParser(new CSFileInputStream(csv), csv.getAbsolutePath());
            new XLSXmlNormaliser(csv.getAbsolutePath(), exceptionIfExcelNotNormalised).go();
            Sheet sheet = xls.getSheets().get("Restrictions");
            boolean found = false;
            for (int i = 0; i < sheet.rows.size(); i++) {
                if (sheet.getColumn(i, "Name").equals(n)) {
                    found = true;
                    Invariant inv = new Invariant();
                    inv.setId(n);
                    inv.setEnglish(sheet.getColumn(i, "Rules"));
                    inv.setOcl(sheet.getColumn(i, "OCL"));
                    inv.setXpath(sheet.getColumn(i, "XPath"));
                    inv.setExpression(sheet.getColumn(i, "Expression"));
                    inv.setExplanation(sheet.getColumn(i, "Explanation"));
                    inv.setTurtle(sheet.getColumn(i, "RDF"));
                    ProfiledType pt = new ProfiledType();
                    pt.setDefinition(sheet.getColumn(i, "Definition"));
                    pt.setDescription(sheet.getColumn(i, "Rules"));
                    String structure = sheet.getColumn(i, "Structure");
                    if (!Utilities.noString(structure)) {
                        String[] parts = structure.split("\\;");
                        for (String pp : parts) {
                            String[] words = pp.split("\\=");
                            pt.getRules().put(words[0], words[1]);
                        }
                    }
                    pt.setName(n);
                    pt.setBaseType(p);
                    pt.setInvariant(inv);
                    definitions.getConstraints().put(n, pt);
                }
            }
            if (!found)
                throw new Exception("Unable to find definition for " + n);
            return n;
        }
    } catch (Exception e) {
        throw new Exception("Unable to load " + n + ": " + e.getMessage(), e);
    }
}