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

Example 1 with ImplementationGuide

use of org.hl7.fhir.r5.model.ImplementationGuide in project kindling by HL7.

the class PageProcessor method genNSList.

private String genNSList() throws Exception {
    StringBuilder b = new StringBuilder();
    b.append("<p>Redirects on this page:</p>\r\n");
    b.append("<ul>\r\n");
    b.append(" <li>Resources</li>\r\n");
    b.append(" <li>Data Types</li>\r\n");
    b.append(" <li>Code Systems</li>\r\n");
    b.append(" <li>Value Sets</li>\r\n");
    b.append(" <li>Extensions</li>\r\n");
    b.append(" <li>Profiles</li>\r\n");
    b.append(" <li>Naming Systems</li>\r\n");
    b.append(" <li>Examples</li>\r\n");
    b.append(" <li>Compartments</li>\r\n");
    b.append(" <li>Data Elements</li>\r\n");
    b.append(" <li>Search Parameters</li>\r\n");
    b.append(" <li>Implementation Guides</li>\r\n");
    b.append(" <li>SIDs</li>\r\n");
    b.append(" <li>Others From publish.ini</li>\r\n");
    b.append("</ul>\r\n");
    b.append("<table class=\"grid\">\r\n");
    b.append(" <tr><td><b>URL</b></td><td><b>Thing</b></td><td><b>Page</b></td></tr>");
    for (String n : definitions.sortedResourceNames()) definitions.addNs("http://hl7.org/fhir/" + n, n + " Resource", n.toLowerCase() + ".html");
    for (String n : definitions.getTypes().keySet()) definitions.addNs("http://hl7.org/fhir/" + n, "Data Type " + n, definitions.getSrcFile(n) + ".html#" + n);
    for (String n : definitions.getPrimitives().keySet()) definitions.addNs("http://hl7.org/fhir/" + n, "Primitive Data Type " + n, definitions.getSrcFile(n) + ".html#" + n);
    for (String n : definitions.getConstraints().keySet()) definitions.addNs("http://hl7.org/fhir/" + n, "Data Type Profile " + n, definitions.getSrcFile(n) + ".html#" + n);
    for (String n : definitions.getInfrastructure().keySet()) definitions.addNs("http://hl7.org/fhir/" + n, "Data Type " + n, definitions.getSrcFile(n) + ".html#" + n);
    for (CodeSystem cs : getCodeSystems().getList()) if (cs != null && cs.getUrl().startsWith("http://hl7.org/fhir"))
        definitions.addNs(cs.getUrl(), "CodeSystem " + cs.getName(), cs.getUserString("path"));
    for (ValueSet vs : getValueSets().getList()) if (vs.getUrl().startsWith("http://hl7.org/fhir"))
        definitions.addNs(vs.getUrl(), "ValueSet " + vs.present(), vs.getUserString("path"));
    for (ConceptMap cm : getConceptMaps().getList()) if (cm.getUrl().startsWith("http://hl7.org/fhir"))
        definitions.addNs(cm.getUrl(), "Concept Map" + cm.getName(), cm.getUserString("path"));
    for (StructureDefinition sd : profiles.getList()) if (sd.getUrl().startsWith("http://hl7.org/fhir") && !definitions.getResourceTemplates().containsKey(sd.getName()))
        definitions.addNs(sd.getUrl(), "Profile " + sd.getName(), sd.getUserString("path"));
    for (StructureDefinition sd : workerContext.getExtensionDefinitions()) if (sd.getUrl().startsWith("http://hl7.org/fhir"))
        definitions.addNs(sd.getUrl(), "Profile " + sd.getName(), sd.getUserString("path"));
    for (NamingSystem nss : definitions.getNamingSystems()) {
        String url = null;
        definitions.addNs("http://hl7.org/fhir/NamingSystem/" + nss.getId(), "System " + nss.getName(), nss.getUserString("path"));
        for (NamingSystemUniqueIdComponent t : nss.getUniqueId()) {
            if (t.getType() == NamingSystemIdentifierType.URI)
                url = t.getValue();
        }
        if (url != null && url.startsWith("http://hl7.org/fhir"))
            definitions.addNs(url, "System " + nss.getName(), nss.getUserString("path"));
    }
    for (String n : ini.getPropertyNames("redirects")) {
        String[] parts = ini.getStringProperty("redirects", n).split("\\;");
        definitions.addNs(n, "System " + parts[0], parts[1]);
    }
    for (ImplementationGuideDefn ig : definitions.getIgs().values()) {
        if (!ig.isCore()) {
            definitions.addNs("http://hl7.org/fhir/ImplementationGuide/" + ig.getCode(), ig.getName(), ig.getHomePage());
            definitions.addNs("http://hl7.org/fhir/" + ig.getCode(), ig.getName(), ig.getHomePage());
        }
    }
    for (Compartment t : definitions.getCompartments()) {
        definitions.addNs(t.getUri(), t.getName(), "compartmentdefinition.html#" + t.getName());
    }
    List<String> list = new ArrayList<String>();
    list.addAll(definitions.getRedirectList().keySet());
    Collections.sort(list);
    for (String url : list) {
        NamespacePair p = definitions.getRedirectList().get(url);
        b.append(" <tr><td>" + Utilities.escapeXml(url) + "</td><td>" + hsplt(Utilities.escapeXml(p.desc)) + "</td><td><a href=\"" + p.page + "\">" + hsplt(Utilities.escapeXml(p.page)) + "</a></td></tr>\r\n");
    }
    b.append("</table>\r\n");
    b.append("<p>" + Integer.toString(list.size()) + " Entries</p>\r\n");
    return b.toString();
}

Example 2 with ImplementationGuide

use of org.hl7.fhir.r5.model.ImplementationGuide in project kindling by HL7.

the class SpreadSheetReloader method processPack.

private void processPack(XSSFSheet src, String ref) throws FHIRFormatError, FileNotFoundException, IOException {
    ImplementationGuide ig = (ImplementationGuide) parseXml(fnIG(resourceName + "-" + ref));
    ig.getDefinition().getResource().clear();
    XSSFRow cols = src.getRow(0);
    for (int i = 1; i <= src.getLastRowNum(); i++) {
        XSSFRow row = src.getRow(i);
        String n = getValue(row, cols, CN_NAME);
        String v = getValue(row, cols, CN_VALUE);
        if (Utilities.noString(v)) {
            v = null;
        }
        switch(n) {
            case CN_ID:
                ig.setId(v);
                break;
            case CN_CODE:
                readExt(ig, v, BuildExtensions.EXT_CODE, ExtensionType.Code);
            case CN_NAME:
                ig.setName(v);
                break;
            case CN_TITLE:
                ig.setTitle(v);
                break;
            case CN_VERSION:
                ig.setVersion(v);
                break;
            case CN_DESCRIPTION:
                ig.setDescription(v);
                break;
            case CN_PUBLISHER:
                ig.setPublisher(v);
                break;
            case CN_STATUS:
                ig.setStatus(PublicationStatus.fromCode(v));
                break;
            case CN_EXPERIMENTAL:
                ig.getExperimentalElement().setValueAsString(v);
                break;
            case CN_DATE:
                ig.getDateElement().setValueAsString(v);
                break;
            case CN_FMM:
                readExt(ig, v, BuildExtensions.EXT_FMM_LEVEL, ExtensionType.Integer);
                break;
            case CN_WORK_GROUP:
                readExt(ig, v, BuildExtensions.EXT_WORKGROUP, ExtensionType.Code);
                break;
            case CN_INTRODUCTION:
                readExt(ig, v, BuildExtensions.EXT_INTRODUCTION, ExtensionType.String);
                break;
            case CN_NOTES:
                readExt(ig, v, BuildExtensions.EXT_NOTES, ExtensionType.String);
                break;
            case CN_EXTENSION:
                if (v != null) {
                    ig.getDefinition().addResource().getReference().setReference("StructureDefinition/" + v);
                }
                break;
            case CN_PROFILE:
                if (v != null) {
                    ig.getDefinition().addResource().getReference().setReference("StructureDefinition/" + v);
                }
                break;
            case CN_EXAMPLE:
                if (v != null) {
                    ig.getDefinition().addResource().getReference().setReference(v);
                }
                break;
            case CN_SEARCH_PARAMETER:
                if (v != null) {
                    ig.getDefinition().addResource().getReference().setReference("SearchParameter/" + v);
                }
                break;
        }
    }
    saveXml(fnIG(resourceName + "-" + ref), ig);
}

Example 3 with ImplementationGuide

use of org.hl7.fhir.r5.model.ImplementationGuide in project kindling by HL7.

the class SpreadSheetReloader method processPacks.

private void processPacks(XSSFWorkbook excel) throws FHIRFormatError, FileNotFoundException, IOException {
    ListResource list = (ListResource) parseXml(fnPacks());
    list.getEntry().clear();
    for (int i = 0; i < excel.getNumberOfSheets(); i++) {
        XSSFSheet sheet = excel.getSheetAt(i);
        if (sheet.getSheetName().startsWith("Pack ")) {
            String n = sheet.getSheetName().substring(5);
            list.addEntry().getItem().setReference("ImplementationGuide/" + resourceName + "-" + n);
            processPack(sheet, n);
        }
    }
    saveXml(fnPacks(), list);
}

Example 4 with ImplementationGuide

use of org.hl7.fhir.r5.model.ImplementationGuide in project kindling by HL7.

the class Regenerator method generateCP.

private void generateCP(String root, ResourceDefn r, Profile p) throws IOException {
    ImplementationGuide ig = new ImplementationGuide();
    ig.setId(r.getName() + "-" + p.getCategory());
    ig.setTitle(p.getTitle());
    ig.setStatus(PublicationStatus.ACTIVE);
    ig.setDate(new Date(r.getTimestamp()));
    for (String s : p.getMetadata().keySet()) {
        List<String> vl = p.getMetadata().get(s);
        for (String v : vl) {
            if (!Utilities.noString(v)) {
                switch(s) {
                    // case "id": ig.setId(v); break;
                    case "name":
                        ig.setName(v);
                        break;
                    case "author.name":
                        ig.setPublisher(v);
                        break;
                    case "code":
                        ig.addExtension(BuildExtensions.EXT_CODE, new CodeType(v));
                        break;
                    case "fmm":
                        ig.addExtension(ToolingExtensions.EXT_FMM_LEVEL, new CodeType(v));
                        break;
                    case "description":
                        ig.setDescription(v);
                        break;
                    case "status":
                        ig.setStatus(PublicationStatus.fromCode(v));
                        break;
                    case "publication.status":
                        break;
                    case "version":
                        ig.setVersion(v);
                        break;
                    case "display":
                        ig.setTitle(v);
                        break;
                    case "workgroup":
                        ig.addExtension(ToolingExtensions.EXT_WORKGROUP, new CodeType(v));
                        break;
                    case "date":
                        ig.getDateElement().setValueAsString(v);
                        break;
                    case "Experimental":
                        ig.setExperimental(Utilities.existsInList(v.toLowerCase(), "y", "yes", "1", "true"));
                        break;
                    default:
                        if (s.startsWith("fmm-") || Utilities.existsInList(s, "extension.uri", "author.reference", "published.structure", "notes", "introduction") || s.startsWith("!")) {
                        // ignore these
                        } else if (s.startsWith("summary-")) {
                            String n = s.substring(8);
                            for (ConstraintStructure cs : p.getProfiles()) {
                                if (n.equals(cs.getTitle()) || n.equals(cs.getId())) {
                                    cs.setSummary(v);
                                }
                            }
                        } else {
                            System.out.println("Unknown metadata item: " + s + "=" + v);
                        }
                }
            }
        }
    }
    if (!Utilities.noString(p.getIntroduction())) {
        ig.addExtension(BuildExtensions.EXT_INTRODUCTION, new StringType(p.getIntroduction()));
    }
    if (!Utilities.noString(p.getNotes())) {
        ig.addExtension(BuildExtensions.EXT_NOTES, new StringType(p.getNotes()));
    }
    for (ConstraintStructure cs : p.getProfiles()) {
        CanonicalResource cr = generateProfile(root, r, p, cs);
        ImplementationGuideDefinitionResourceComponent res = ig.getDefinition().addResource();
        res.getReference().setReference(cr.fhirType() + "/" + cr.getId());
    }
    for (StructureDefinition cs : p.getExtensions()) {
        CanonicalResource cr = generateExtension(root, r, p, cs.copy());
        ImplementationGuideDefinitionResourceComponent res = ig.getDefinition().addResource();
        res.getReference().setReference(cr.fhirType() + "/" + cr.getId());
    }
    for (SearchParameter cs : p.getSearchParameters()) {
        CanonicalResource cr = generateSearchParameter(root, r, p, cs);
        ImplementationGuideDefinitionResourceComponent res = ig.getDefinition().addResource();
        res.getReference().setReference(cr.fhirType() + "/" + cr.getId());
    }
    for (Example cs : p.getExamples()) {
        ImplementationGuideDefinitionResourceComponent res = ig.getDefinition().addResource();
        generateExample(root, r, p, cs, res);
    }
    File fn = new File(Utilities.path(root, ig.fhirType().toLowerCase() + "-" + ig.getId() + ".gen.xml"));
    new XmlParser().setOutputStyle(OutputStyle.PRETTY).compose(new FileOutputStream(fn), ig);
    fn.setLastModified(r.getTimestamp());
}

Example 5 with ImplementationGuide

use of org.hl7.fhir.r5.model.ImplementationGuide in project kindling by HL7.

the class ResourceParser method parsePacks.

private void parsePacks(ResourceDefn r, String n, String t) throws Exception {
    Set<String> codes = new HashSet<>();
    ListResource list = (ListResource) parseXml("list-" + t + "-packs.xml");
    for (ListResourceEntryComponent le : list.getEntry()) {
        String id = le.getItem().getReference().substring(le.getItem().getReference().indexOf("/") + 1);
        if (codes.contains(id)) {
            throw new FHIRException("Duplicate code " + id + " for resource " + n);
        }
        codes.add(id);
        ImplementationGuide ig = (ImplementationGuide) parseXml("implementationguide-" + id + ".xml");
        if (!id.startsWith(r.getName() + "-")) {
            throw new FHIRException("Illegal ig name " + id + " - should start with " + r.getName() + "-");
        }
        id = id.substring(t.length() + 1);
        r.getConformancePackages().add(convertPack(ig, id, r.getWg()));
    }
}