Examples with DOCUMENT org.hl7.fhir.r4.model.Bundle.BundleType.DOCUMENT used on opensource projects

Example 6 with DOCUMENT

use of org.hl7.fhir.r4.model.Bundle.BundleType.DOCUMENT in project kindling by HL7.

the class PageProcessor method cloneToXhtml.

private void cloneToXhtml(String src, String dst, String name, String description, int level, boolean adorn, String pageType, String crumbTitle, ImplementationGuideDefn ig, ResourceDefn rd, WorkGroup wg) throws Exception {
    DocumentBuilderFactory factory = DocumentBuilderFactory.newInstance();
    factory.setNamespaceAware(true);
    DocumentBuilder builder = factory.newDocumentBuilder();
    Document xdoc = builder.parse(new CSFileInputStream(new CSFile(src)));
    // XhtmlGenerator xhtml = new XhtmlGenerator(null);
    // xhtml.generate(xdoc, new CSFile(dst), name, description, level, adorn);
    String n = new File(dst).getName();
    n = n.substring(0, n.length() - 9);
    XhtmlGenerator xhtml = new XhtmlGenerator(new ExampleAdorner(definitions, genlevel(level)));
    ByteArrayOutputStream b = new ByteArrayOutputStream();
    xhtml.generate(xdoc, b, name, description, level, adorn, n + ".xml.html");
    String html = ("<%setlevel " + Integer.toString(level) + "%>" + TextFile.fileToString(folders.srcDir + "template-example-xml.html")).replace("<%example%>", b.toString());
    html = processPageIncludes(n + ".xml.html", html, pageType, null, n + ".xml.html", null, null, crumbTitle, (adorn && hasNarrative(xdoc)) ? new Boolean(true) : null, ig, rd, wg);
    TextFile.stringToFile(html, dst);
    htmlchecker.registerExternal(dst);
}

Example 7 with DOCUMENT

use of org.hl7.fhir.r4.model.Bundle.BundleType.DOCUMENT in project kindling by HL7.

the class PageProcessor method processPageIncludes.

public String processPageIncludes(String file, String src, String type, Map<String, String> others, String pagePath, Resource resource, List<String> tabs, String crumbTitle, Object object, ImplementationGuideDefn ig, ResourceDefn rd, WorkGroup wg) throws Exception {
    String workingTitle = null;
    int level = ig == null ? file.contains(File.separator) ? 1 : 0 : ig.isCore() ? 0 : 1;
    boolean even = false;
    String name = file.substring(0, file.lastIndexOf("."));
    String searchAdditions = "";
    while (src.contains("<%") || src.contains("[%")) {
        int i1 = src.indexOf("<%");
        int i2 = i1 == -1 ? -1 : src.substring(i1).indexOf("%>") + i1;
        if (i1 == -1) {
            i1 = src.indexOf("[%");
            i2 = i1 == -1 ? -1 : src.substring(i1).indexOf("%]") + i1;
        }
        String s1 = src.substring(0, i1);
        String s2 = src.substring(i1 + 2, i2).trim();
        String s3 = src.substring(i2 + 2);
        String[] com = s2.split(" ");
        if (s2.startsWith("!")) {
            src = s1 + s3;
        } else if (com.length == 4 && com[0].equals("edt")) {
            if (tabs != null)
                tabs.add("tabs-" + com[1]);
            src = s1 + orgDT(com[1], xmlForDt(com[1], com[2]), treeForDt(com[1]), umlForDt(com[1], com[3]), umlForDt(com[1], com[3] + "b"), profileRef(com[1]), tsForDt(com[1]), jsonForDt(com[1], com[2]), ttlForDt(com[1], com[2]), diffForDt(com[1], com[2])) + s3;
        } else if (com.length == 3 && com[0].equals("dt")) {
            if (tabs != null)
                tabs.add("tabs-" + com[1]);
            src = s1 + orgDT(com[1], xmlForDt(com[1], file), treeForDt(com[1]), umlForDt(com[1], com[2]), umlForDt(com[1], com[2] + "b"), profileRef(com[1]), tsForDt(com[1]), jsonForDt(com[1], file), ttlForDt(com[1], file), diffForDt(com[1], file)) + s3;
        } else if (com.length == 3 && com[0].equals("adt")) {
            if (tabs != null)
                tabs.add("tabs-" + com[1]);
            src = s1 + orgADT(com[1], treeForDt(com[1]), umlForDt(com[1], com[2]), umlForDt(com[1], com[2] + "b"), diffForDt(com[1], file)) + s3;
        } else if (com.length == 2 && com[0].equals("dt.constraints"))
            src = s1 + genConstraints(com[1], genlevel(level)) + s3;
        else if (com.length == 2 && com[0].equals("dt.restrictions"))
            src = s1 + genRestrictions(com[1]) + s3;
        else if (com.length == 2 && com[0].equals("dictionary"))
            src = s1 + dictForDt(com[1]) + s3;
        else if (com[0].equals("othertabs"))
            src = s1 + genOtherTabs(com[1], tabs) + s3;
        else if (com[0].equals("dtheader"))
            src = s1 + dtHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("atheader"))
            src = s1 + atHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("mdtheader"))
            src = s1 + mdtHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("edheader"))
            src = s1 + edHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("elheader"))
            src = s1 + elHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("belheader"))
            src = s1 + belHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("extheader"))
            src = s1 + extHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("mmheader"))
            src = s1 + mmHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("cdheader"))
            src = s1 + cdHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("diheader"))
            src = s1 + diHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("ctheader"))
            src = s1 + ctHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("ucheader"))
            src = s1 + ucHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("rrheader"))
            src = s1 + rrHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("drheader"))
            src = s1 + drHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("adheader"))
            src = s1 + adHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("pdheader"))
            src = s1 + pdHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("tdheader"))
            src = s1 + tdHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("narrheader"))
            src = s1 + narrHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("statheader"))
            src = s1 + statHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("ordistheader"))
            src = s1 + ordistHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("profilesheader"))
            src = s1 + profilesHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("refheader"))
            src = s1 + refHeader(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("resourcesheader"))
            src = s1 + resourcesHeader(com.length > 1 ? com[1] : null) + s3;
        else // src = s1+resourcesHeader(name, com.length > 1 ? com[1] : null)+s3;
        if (com[0].equals("txheader"))
            src = s1 + txHeader(name, com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("sct-vs-list"))
            src = s1 + getSnomedCTVsList() + s3;
        else if (com[0].equals("sct-concept-list"))
            src = s1 + getSnomedCTConceptList() + s3;
        else if (com[0].equals("txheader0"))
            src = s1 + (level > 0 ? "" : txHeader(name, com.length > 1 ? com[1] : null)) + s3;
        else if (com[0].equals("fmtheader"))
            src = s1 + fmtHeader(name, com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("cmpheader"))
            src = s1 + cmpHeader(name, com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("dictheader"))
            src = s1 + dictHeader(((Bundle) resource).getId().toLowerCase(), com.length > 1 ? com[1] : "") + s3;
        else // src = s1+atomHeader(name, com.length > 1 ? com[1] : null)+s3;
        if (com[0].equals("codelist"))
            src = s1 + codelist((CodeSystem) resource, com.length > 1 ? com[1] : null, false, true, file) + s3;
        else if (com[0].equals("codelist-nh"))
            src = s1 + codelist((CodeSystem) resource, com.length > 1 ? com[1] : null, false, false, file) + s3;
        else if (com[0].equals("linkcodelist"))
            src = s1 + codelist((CodeSystem) resource, com.length > 1 ? com[1] : null, true, false, file) + s3;
        else if (com[0].equals("toc"))
            src = s1 + generateToc() + s3;
        else if (com[0].equals("codetoc"))
            src = s1 + codetoc(com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("resheader")) {
            if (resource != null && resource instanceof StructureDefinition)
                src = s1 + resHeader(((StructureDefinition) resource).getId().toLowerCase(), ((StructureDefinition) resource).getId(), com.length > 1 ? com[1] : null) + s3;
            else if (rd != null) {
                src = s1 + resHeader(rd.getName().toLowerCase(), rd.getName(), com.length > 1 ? com[1] : null) + s3;
            } else
                src = s1 + s3;
        } else if (com[0].equals("aresheader"))
            src = s1 + abstractResHeader("document", "Document", com.length > 1 ? com[1] : null) + s3;
        else if (com[0].equals("onthispage"))
            src = s1 + onThisPage(s2.substring(com[0].length() + 1)) + s3;
        else if (com[0].equals("maponthispage"))
            src = s1 + mapOnThisPage(null) + s3;
        else if (com[0].equals("res-category")) {
            even = false;
            src = s1 + resCategory(s2.substring(com[0].length() + 1)) + s3;
        } else if (com[0].equals("res-item")) {
            even = !even;
            src = s1 + resItem(com[1], even) + s3;
        } else if (com[0].equals("resdesc")) {
            src = s1 + resDesc(com[1]) + s3;
        } else if (com[0].equals("rescat")) {
            src = s1 + resCat(com.length == 1 ? null : s2.substring(7)) + s3;
        } else if (com[0].equals("svg"))
            src = s1 + svgs.get(com[1]) + s3;
        else if (com[0].equals("diagram"))
            src = s1 + new SvgGenerator(this, genlevel(level), null, false, file.contains("datatypes"), version).generate(folders.srcDir + com[1], com[2]) + s3;
        else if (com[0].equals("file")) {
            if (new File(folders.templateDir + com[1] + ".html").exists()) {
                src = s1 + TextFile.fileToString(folders.templateDir + com[1] + ".html") + s3;
            } else {
                src = s1 + TextFile.fileToString(folders.srcDir + com[1] + ".html") + s3;
            }
        } else if (com[0].equals("v2xref"))
            src = s1 + xreferencesForV2(name, com[1]) + s3;
        else if (com[0].equals("vs-warning"))
            src = s1 + vsWarning((ValueSet) resource) + s3;
        else if (com[0].equals("res-status-special"))
            src = s1 + vsSpecialStatus((DomainResource) resource) + s3;
        else if (com[0].equals("conceptmaplistv2"))
            src = s1 + conceptmaplist("http://terminology.hl7.org/ValueSet/v2-" + (name.contains("|") ? name.substring(0, name.indexOf("|")) : name), com[1]) + s3;
        else if (com[0].equals("conceptmaplistv3"))
            src = s1 + conceptmaplist("http://terminology.hl7.org/ValueSet/v3-" + (name.contains("|") ? name.substring(0, name.indexOf("|")) : name), com[1]) + s3;
        else if (com[0].equals("conceptmaplistvs")) {
            ValueSet vs = (ValueSet) resource;
            String ref;
            if (vs == null) {
                ref = "http://hl7.org/fhir/ValueSet/" + Utilities.fileTitle(file);
            } else {
                ref = vs.getUrl();
            }
            src = s1 + conceptmaplist(ref, com[1]) + s3;
        } else if (com[0].equals("settitle")) {
            workingTitle = s2.substring(9).replace("{", "<%").replace("}", "%>");
            src = s1 + s3;
        } else if (com[0].equals("igregistries")) {
            src = s1 + igRegistryList(com[1], com[2]) + s3;
        } else if (com[0].equals("dtmappings")) {
            src = s1 + genDataTypeMappings(com[1]) + s3;
        } else if (com[0].equals("dtusage")) {
            src = s1 + genDataTypeUsage(com[1]) + s3;
        } else if (com[0].equals("v3xref")) {
            src = s1 + xreferencesForV3(name) + s3;
        } else if (com[0].equals("setlevel")) {
            level = Integer.parseInt(com[1]);
            src = s1 + s3;
        } else if (com[0].equals("w5")) {
            src = s1 + genW5("true".equals(com[1])) + s3;
        } else if (com[0].equals("res-ref-list")) {
            src = s1 + genResRefList(com[1]) + s3;
        } else if (com[0].equals("sclist")) {
            src = s1 + genScList(com[1]) + s3;
        } else if (com[0].equals("xcm")) {
            src = s1 + getXcm(com[1]) + s3;
        } else if (com[0].equals("xcmchk")) {
            src = s1 + getXcmChk(com[1]) + s3;
        } else if (com[0].equals("sstatus")) {
            if (com.length == 1) {
                StandardsStatus ss = ToolingExtensions.getStandardsStatus((DomainResource) resource);
                if (ss == null)
                    ss = StandardsStatus.INFORMATIVE;
                if (ss == StandardsStatus.NORMATIVE && ToolingExtensions.hasExtension((DomainResource) resource, ToolingExtensions.EXT_NORMATIVE_VERSION))
                    src = s1 + "<a href=\"" + genlevel(level) + "versions.html#std-process\">" + ss.toDisplay() + "</a> (from v" + ToolingExtensions.readStringExtension((DomainResource) resource, ToolingExtensions.EXT_NORMATIVE_VERSION) + ")" + s3;
                else
                    src = s1 + "<a href=\"" + genlevel(level) + "versions.html#std-process\">" + ss.toDisplay() + "</a>" + s3;
            } else
                src = s1 + getStandardsStatus(com[1]) + s3;
        } else if (com[0].equals("wg")) {
            src = s1 + getWgLink(file, wg == null && com.length > 1 ? wg(com[1]) : wg) + s3;
        } else if (com[0].equals("wgt")) {
            src = s1 + getWgTitle(wg == null && com.length > 1 ? wg(com[1]) : wg) + s3;
        } else if (com[0].equals("ig.registry")) {
            src = s1 + buildIgRegistry(ig, com[1]) + s3;
        } else if (com[0].equals("search-link")) {
            src = s1 + searchLink(s2) + s3;
        } else if (com[0].equals("search-footer")) {
            src = s1 + searchFooter(level) + s3;
        } else if (com[0].equals("search-header")) {
            src = s1 + searchHeader(level) + s3;
        } else if (com[0].equals("profileheader")) {
            src = s1 + profileHeader(((StructureDefinition) resource).getId().toLowerCase(), com[1], hasExamples((StructureDefinition) resource, ig)) + s3;
        } else if (com[0].equals("resource-table")) {
            src = s1 + genResourceTable(definitions.getResourceByName(com[1]), genlevel(level)) + s3;
        } else if (com[0].equals("dtextras")) {
            src = s1 + produceDataTypeExtras(com[1], false) + s3;
        } else if (com[0].equals("dtextensions")) {
            src = s1 + produceDataTypeExtras(com[1], true) + s3;
        } else if (com[0].equals("tx")) {
            src = s1 + produceDataTypeTx(com[1]) + s3;
        } else if (com[0].equals("extension-diff")) {
            StructureDefinition ed = workerContext.fetchResource(StructureDefinition.class, com[1]);
            src = s1 + generateExtensionTable(ed, "extension-" + com[1], "false", genlevel(level)) + s3;
        } else if (com[0].equals("profile-diff")) {
            ConstraintStructure p = definitions.findProfile(com[1]);
            src = s1 + generateProfileStructureTable(p, true, com[1] + ".html", com[1], genlevel(level)) + s3;
        } else if (com[0].equals("example")) {
            String[] parts = com[1].split("\\/");
            Example e = findExample(parts[0], parts[1]);
            src = s1 + genExample(e, com.length > 2 ? Integer.parseInt(com[2]) : 0, genlevel(level)) + s3;
        } else if (com[0].equals("r3r4transform")) {
            src = s1 + dtR3R4Transform(com[1]) + s3;
        } else if (com[0].equals("fmm-style")) {
            String fmm = resource == null ? "N/A" : ToolingExtensions.readStringExtension((DomainResource) resource, ToolingExtensions.EXT_FMM_LEVEL);
            StandardsStatus ss = ToolingExtensions.getStandardsStatus((DomainResource) resource);
            src = s1 + fmmBarColorStyle(ss, fmm) + s3;
        } else if (com[0].equals("fmm")) {
            String fmm = resource == null || !(resource instanceof CanonicalResource) ? getFmm(com[1], false) : ToolingExtensions.readStringExtension((DomainResource) resource, ToolingExtensions.EXT_FMM_LEVEL);
            StandardsStatus ss = ToolingExtensions.getStandardsStatus((DomainResource) resource);
            if (StandardsStatus.EXTERNAL == ss)
                src = s1 + getFmmFromlevel(genlevel(level), "N/A") + s3;
            else if (StandardsStatus.NORMATIVE == ss)
                src = s1 + getFmmFromlevel(genlevel(level), "<a href=\"" + genlevel(level) + "versions.html#std-process\">N</a>") + s3;
            else
                src = s1 + getFmmFromlevel(genlevel(level), fmm) + s3;
        } else if (com[0].equals("fmmna")) {
            String fmm = "N/A";
            src = s1 + getFmmFromlevel(genlevel(level), fmm) + s3;
        } else if (com[0].equals("mostlynormative")) {
            String p = null;
            String wt = workingTitle;
            if (com.length >= 3) {
                if (!com[2].equals("%check"))
                    p = com[2];
                else if (StandardsStatus.NORMATIVE == ToolingExtensions.getStandardsStatus((DomainResource) resource)) {
                    p = resource.getUserString("ballot.package");
                    wt = ((CanonicalResource) resource).fhirType() + " " + ((CanonicalResource) resource).present();
                }
            }
            src = s1 + (p == null ? "" : getMostlyNormativeNote(genlevel(level), p, com[1], wt, file)) + s3;
        } else if (com[0].equals("mixednormative")) {
            String p = null;
            String wt = workingTitle;
            if (com.length >= 3) {
                if (!com[2].equals("%check"))
                    p = com[2];
                else if (StandardsStatus.NORMATIVE == ToolingExtensions.getStandardsStatus((DomainResource) resource)) {
                    p = resource.getUserString("ballot.package");
                    wt = ((CanonicalResource) resource).fhirType() + " " + ((CanonicalResource) resource).present();
                }
            }
            src = s1 + (p == null ? "" : getMixedNormativeNote(genlevel(level), p, com[1], wt, file)) + s3;
        } else if (com[0].equals("normative")) {
            String p = object instanceof Object ? rd.getNormativePackage() : null;
            String wt = object instanceof Object ? rd.getName() + " Operation " + ((Operation) object).getName() : workingTitle;
            if (com.length >= 3) {
                if (!com[2].equals("%check"))
                    p = com[2];
                else if (StandardsStatus.NORMATIVE == ToolingExtensions.getStandardsStatus((DomainResource) resource)) {
                    p = resource.getUserString("ballot.package");
                    wt = ((CanonicalResource) resource).fhirType() + " " + ((CanonicalResource) resource).present();
                }
            }
            src = s1 + (p == null && com.length != 2 ? "" : getNormativeNote(genlevel(level), p, com[1], wt, file)) + s3;
        } else if (com[0].equals("normative-op")) {
            String p = rd.getNormativePackage();
            String wt = rd.getName() + " Operation " + ((Operation) object).getName();
            StandardsStatus st = ((Operation) object).getStandardsStatus();
            if (st == null)
                st = ToolingExtensions.getStandardsStatus((DomainResource) resource);
            src = s1 + (st == StandardsStatus.NORMATIVE ? getNormativeNote(genlevel(level), p, com[1], wt, file) : "") + s3;
        } else if (com[0].equals("fmmshort")) {
            String fmm = resource == null || !(resource instanceof CanonicalResource) ? getFmm(com[1], true) : ToolingExtensions.readStringExtension((DomainResource) resource, ToolingExtensions.EXT_FMM_LEVEL);
            String npr = resource == null || !(resource instanceof CanonicalResource) ? getNormativePackageRef(com[1]) : "";
            src = s1 + getFmmShortFromlevel(genlevel(level), fmm) + npr + s3;
        } else if (com[0].equals("normative-pages")) {
            src = s1 + getNormativeList(genlevel(level), com[1]) + s3;
        } else if (s2.startsWith("search-additions\r\n")) {
            searchAdditions = s2.substring(16).trim();
            src = s1 + s3;
        } else if (com[0].equals("complinks")) {
            src = s1 + (rd == null ? "" : getCompLinks(rd, com.length > 1 ? com[1] : null)) + s3;
        } else if (com[0].equals("diff")) {
            String p = com[1];
            String pd = p.contains("#") ? p.substring(0, p.indexOf("#")) : p;
            String t = s2.substring(com[0].length() + com[1].length() + 2);
            src = s1 + "<a href=\"" + p + "\">" + t + "</a> <a href=\"http://services.w3.org/htmldiff?doc1=http%3A%2F%2Fhl7.org%2Ffhir%2F2018May%2F" + pd + "&amp;doc2=http%3A%2F%2Fbuild.fhir.org%2F" + pd + "\" no-external=\"true\" style=\"border: 1px solid lightgrey; white-space: nowrap; background-color: #EDFDFE; padding: 2px 2px 2px 2px\">&Delta;B</a>" + s3;
        } else if (com[0].equals("diffx")) {
            String p1 = com[1];
            String pd = p1.contains("#") ? p1.substring(0, p1.indexOf("#")) : p1;
            String p2 = com[2];
            String t = s2.substring(com[0].length() + com[1].length() + 2);
            src = s1 + "<a href=\"" + p1 + "\">" + t + "</a> <a href=\"http://services.w3.org/htmldiff?doc1=http%3A%2F%2Fhl7.org%2Ffhir%2F2018May%2F" + p2 + "&amp;doc2=http%3A%2F%2Fbuild.fhir.org%2F" + pd + "\" no-external=\"true\" style=\"border: 1px solid lightgrey; white-space: nowrap; background-color: #EDFDFE; padding: 2px 2px 2px 2px\">&Delta;B</a>" + s3;
        } else if (com[0].equals("StandardsStatus")) {
            src = s1 + getStandardsStatusNote(genlevel(level), com[1], com[2], com.length == 4 ? com[3] : null) + s3;
        } else if (com[0].equals("circular-references")) {
            src = s1 + buildCircularReferenceList(com[1].equals("null") ? null : Boolean.valueOf(com[1])) + s3;
        } else if (com[0].equals("shortparameterlist")) {
            src = s1 + buildShortParameterList(com[1]) + s3;
        } else if (com[0].equals("op-example-link")) {
            src = s1 + buildOpReferenceList(com[1]) + s3;
        } else if (com[0].equals("pattern-impls")) {
            src = s1 + buildPatternList(com[1]) + s3;
        } else if (com[0].equals("diff-analysis")) {
            if ("*".equals(com[1])) {
                updateDiffEngineDefinitions();
                src = s1 + diffEngine.getDiffAsHtml(this) + s3;
            } else {
                StructureDefinition sd = workerContext.fetchTypeDefinition(com[1]);
                if (sd == null)
                    throw new Exception("diff-analysis not found: " + com[1]);
                src = s1 + diffEngine.getDiffAsHtml(this, sd) + s3;
            }
        } else if (com.length != 1)
            throw new Exception("Instruction <%" + s2 + "%> not understood parsing page " + file);
        else if (com[0].equals("pageheader"))
            src = s1 + pageHeader(name.toUpperCase().substring(0, 1) + name.substring(1)) + s3;
        else if (com[0].equals("newheader"))
            src = s1 + TextFile.fileToString(folders.srcDir + "newheader.html") + s3;
        else if (com[0].equals("newheader1"))
            src = s1 + TextFile.fileToString(folders.srcDir + "newheader1.html") + s3;
        else if (com[0].equals("footer"))
            src = s1 + TextFile.fileToString(folders.srcDir + "footer.html") + s3;
        else if (com[0].equals("newfooter"))
            src = s1 + TextFile.fileToString(folders.srcDir + "newfooter.html") + s3;
        else if (com[0].equals("footer1"))
            src = s1 + TextFile.fileToString(folders.srcDir + "footer1.html") + s3;
        else if (com[0].equals("footer2"))
            src = s1 + TextFile.fileToString(folders.srcDir + "footer2.html") + s3;
        else if (com[0].equals("footer3"))
            src = s1 + TextFile.fileToString(folders.srcDir + "footer3.html") + s3;
        else if (com[0].equals("title"))
            src = s1 + (workingTitle == null ? Utilities.escapeXml(name.toUpperCase().substring(0, 1) + name.substring(1)) : workingTitle) + s3;
        else if (com[0].equals("xtitle"))
            src = s1 + Utilities.escapeXml(name.toUpperCase().substring(0, 1) + name.substring(1)) + s3;
        else if (com[0].equals("name"))
            src = s1 + name + s3;
        else if (com[0].equals("name.tail"))
            src = s1 + fileTail(name) + s3;
        else if (com[0].equals("piperesources"))
            src = s1 + pipeResources() + s3;
        else if (com[0].equals("enteredInErrorTable"))
            src = s1 + enteredInErrorTable() + s3;
        else if (com[0].equals("canonicalname"))
            src = s1 + makeCanonical(name) + s3;
        else if (com[0].equals("prettyname"))
            src = s1 + makePretty(name) + s3;
        else if (com[0].equals("jsonldname"))
            src = s1 + makeJsonld(name) + s3;
        else if (com[0].equals("version"))
            src = s1 + version + s3;
        else if (com[0].equals("gendate"))
            src = s1 + Config.DATE_FORMAT().format(new Date()) + s3;
        else if (com[0].equals("maindiv"))
            src = s1 + "<div class=\"content\">" + s3;
        else if (com[0].equals("/maindiv"))
            src = s1 + "</div>" + s3;
        else if (com[0].equals("mappings-table"))
            src = s1 + genMappingsTable() + s3;
        else if (com[0].equals("id"))
            src = s1 + (name.contains("|") ? name.substring(0, name.indexOf("|")) : name) + s3;
        else if (com[0].equals("ver"))
            src = s1 + (name.contains("|") ? name.substring(name.indexOf("|") + 1) : "??") + s3;
        else if (com[0].equals("events"))
            src = s1 + getEventsTable(pagePath) + s3;
        else if (com[0].equals("resourcecodes"))
            src = s1 + genResCodes() + s3;
        else if (com[0].equals("datatypecodes"))
            src = s1 + genDTCodes() + s3;
        else if (com[0].equals("allparams"))
            src = s1 + allParamlist() + s3;
        else // src = s1 + genBindingsTable() + s3;
        if (com[0].equals("codeslist"))
            src = s1 + genCodeSystemsTable() + s3;
        else if (com[0].equals("valuesetslist"))
            src = s1 + genValueSetsTable(ig) + s3;
        else if (com[0].equals("namespacelist"))
            src = s1 + genNSList() + s3;
        else if (com[0].equals("extensionslist"))
            src = s1 + genExtensionsTable() + s3;
        else if (com[0].equals("igvaluesetslist"))
            src = s1 + genIGValueSetsTable() + s3;
        else if (com[0].equals("conceptmapslist"))
            src = s1 + genConceptMapsTable() + s3;
        else // src = s1 + genBindingTable(false) + s3;
        if (com[0].equals("resimplall"))
            src = s1 + genResImplList() + s3;
        else if (com[0].equals("txurl"))
            src = s1 + "http://hl7.org/fhir/" + Utilities.fileTitle(file) + s3;
        else if (com[0].equals("vstxurl"))
            src = s1 + "http://hl7.org/fhir/ValueSet/" + Utilities.fileTitle(file) + s3;
        else if (com[0].equals("csurl")) {
            if (resource instanceof CodeSystem)
                src = s1 + ((CodeSystem) resource).getUrl() + s3;
            else {
                CodeSystem cs = (CodeSystem) ((ValueSet) resource).getUserData("cs");
                src = s1 + (cs == null ? "" : cs.getUrl()) + s3;
            }
        } else if (com[0].equals("vsurl")) {
            if (resource == null)
                src = s1 + s3;
            else if (resource instanceof CodeSystem)
                src = s1 + ((CodeSystem) resource).getUrl() + s3;
            else
                src = s1 + ((ValueSet) resource).getUrl() + s3;
        } else if (com[0].equals("txdef"))
            src = s1 + generateCodeDefinition(Utilities.fileTitle(file)) + s3;
        else if (com[0].equals("vsdef"))
            if (resource instanceof CodeSystem)
                src = s1 + processMarkdown("vsdef", ((CodeSystem) resource).getDescription(), genlevel(level)) + s3;
            else
                src = s1 + processMarkdown("vsdef", ((ValueSet) resource).getDescription(), genlevel(level)) + s3;
        else if (com[0].equals("txoid"))
            src = s1 + generateOID((CodeSystem) resource) + s3;
        else if (com[0].equals("vsoid"))
            src = s1 + generateOID((ValueSet) resource) + s3;
        else if (com[0].equals("txname"))
            src = s1 + Utilities.fileTitle(file) + s3;
        else if (com[0].equals("vsname"))
            if (resource instanceof CodeSystem)
                src = s1 + ((CodeSystem) resource).present() + s3;
            else
                src = s1 + ((ValueSet) resource).present() + s3;
        else if (com[0].equals("vsnamed"))
            if (resource instanceof CodeSystem)
                src = s1 + ((CodeSystem) resource).getName() + s3;
            else
                src = s1 + ((ValueSet) resource).getName() + s3;
        else if (com[0].equals("vstitle"))
            if (resource instanceof CodeSystem)
                src = s1 + checkTitle(((CodeSystem) resource).getTitle()) + s3;
            else
                src = s1 + checkTitle(((ValueSet) resource).getTitle()) + s3;
        else if (com[0].equals("vsver"))
            if (resource instanceof CodeSystem)
                src = s1 + ((CodeSystem) resource).getVersion() + s3;
            else
                src = s1 + ((ValueSet) resource).getVersion() + s3;
        else if (com[0].equals("vsref")) {
            src = s1 + Utilities.fileTitle((String) resource.getUserData("filename")) + s3;
        } else if (com[0].equals("vsdesc"))
            src = s1 + (resource != null ? new XhtmlComposer(XhtmlComposer.HTML).compose(((ValueSet) resource).getText().getDiv()) : generateVSDesc(Utilities.fileTitle(file))) + s3;
        else if (com[0].equals("txusage"))
            src = s1 + generateValueSetUsage((ValueSet) resource, genlevel(level), true) + s3;
        else if (com[0].equals("vsusage"))
            src = s1 + generateValueSetUsage((ValueSet) resource, genlevel(level), true) + s3;
        else if (com[0].equals("csusage"))
            src = s1 + generateCSUsage((CodeSystem) resource, genlevel(level)) + s3;
        else if (com[0].equals("vssummary"))
            src = s1 + "todo" + s3;
        else if (com[0].equals("compartmentlist"))
            src = s1 + compartmentlist() + s3;
        else if (com[0].equals("qa"))
            src = s1 + qa.report(this, validationErrors) + s3;
        else if (com[0].equals("comp-title"))
            src = s1 + compTitle(name) + s3;
        else if (com[0].equals("comp-name"))
            src = s1 + compName(name) + s3;
        else if (com[0].equals("comp-desc"))
            src = s1 + compDesc(name) + s3;
        else if (com[0].equals("comp-uri"))
            src = s1 + compUri(name) + s3;
        else if (com[0].equals("comp-identity"))
            src = s1 + compIdentity(name) + s3;
        else if (com[0].equals("comp-membership"))
            src = s1 + compMembership(name) + s3;
        else if (com[0].equals("comp-resources"))
            src = s1 + compResourceMap(name) + s3;
        else if (com[0].equals("breadcrumb"))
            src = s1 + breadCrumbManager.make(name) + s3;
        else if (com[0].equals("navlist"))
            src = s1 + breadCrumbManager.navlist(name, genlevel(level)) + s3;
        else if (com[0].equals("breadcrumblist")) {
            if (object instanceof Operation)
                src = s1 + ((ig == null || ig.isCore()) ? breadCrumbManager.makelist(rd.getName().toLowerCase(), type, genlevel(level), crumbTitle) : ig.makeList(name, type, genlevel(level), crumbTitle)) + s3;
            else
                src = s1 + ((ig == null || ig.isCore()) ? breadCrumbManager.makelist(name, type, genlevel(level), crumbTitle) : ig.makeList(name, type, genlevel(level), crumbTitle)) + s3;
        } else if (com[0].equals("year"))
            src = s1 + new SimpleDateFormat("yyyy").format(new Date()) + s3;
        else if (com[0].equals("buildId"))
            src = s1 + buildId + s3;
        else if (com[0].equals("pub-type"))
            src = s1 + publicationType + s3;
        else if (com[0].equals("pub-notice"))
            src = s1 + publicationNotice + s3;
        else if (com[0].equals("vssource"))
            if (resource instanceof CodeSystem)
                src = s1 + csSource((CodeSystem) resource) + s3;
            else
                src = s1 + vsSource((ValueSet) resource) + s3;
        else if (com[0].equals("vsxref"))
            src = s1 + xreferencesForFhir(name) + s3;
        else if (com[0].equals("vsexpansion"))
            src = s1 + expandValueSet(Utilities.fileTitle(file), resource == null ? null : ((ValueSet) resource), genlevel(level)) + s3;
        else if (com[0].equals("vscld"))
            src = s1 + vsCLD(Utilities.fileTitle(file), resource == null ? null : ((ValueSet) resource), genlevel(level)) + s3;
        else if (com[0].equals("cs-content"))
            src = s1 + csContent(Utilities.fileTitle(file), ((CodeSystem) resource), genlevel(level)) + s3;
        else if (com[0].equals("vsexpansionig"))
            src = s1 + expandValueSetIG((ValueSet) resource, true) + s3;
        else if (com[0].equals("level"))
            src = s1 + genlevel(level) + s3;
        else if (com[0].equals("archive"))
            src = s1 + makeArchives() + s3;
        else if (com[0].equals("pagepath"))
            src = s1 + pagePath + s3;
        else if (com[0].equals("rellink")) {
            if (!pagePath.contains(".html"))
                throw new Error("Invalid link: " + pagePath + " at " + workingTitle);
            src = s1 + Utilities.URLEncode(pagePath) + s3;
        } else if (com[0].equals("baseURL"))
            src = s1 + Utilities.URLEncode(baseURL) + s3;
        else if (com[0].equals("baseURLn"))
            src = s1 + Utilities.appendForwardSlash(baseURL) + s3;
        else if (com[0].equals("profilelist"))
            src = s1 + genProfilelist() + s3;
        else if (com[0].equals("igprofileslist"))
            src = s1 + genIGProfilelist() + s3;
        else if (com[0].equals("operationslist"))
            src = s1 + genOperationList() + s3;
        else if (com[0].equals("example.profile.link"))
            src = s1 + genExampleProfileLink(resource) + s3;
        else if (com[0].equals("id_regex"))
            src = s1 + FormatUtilities.ID_REGEX + s3;
        else if (com[0].equals("resourcecount"))
            src = s1 + Integer.toString(definitions.getResources().size()) + s3;
        else if (others != null && others.containsKey(com[0]))
            src = s1 + others.get(com[0]) + s3;
        else if (com[0].equals("status-codes"))
            src = s1 + genStatusCodes() + s3;
        else if (com[0].equals("dictionary.name")) {
            String n = name.contains(File.separator) ? name.substring(name.lastIndexOf(File.separator) + 1) : name;
            src = s1 + definitions.getDictionaries().get(n).getName() + s3;
        // } else if (com[0].equals("dictionary.view"))
        // src = s1 + ResourceUtilities.representDataElementCollection(this.workerContext, (Bundle) resource, true, "hspc-qnlab-de") + s3;
        } else if (com[0].equals("search-param-pack") && resource instanceof SearchParameter)
            src = s1 + ((SearchParameter) resource).getUserData("pack") + s3;
        else if (com[0].equals("search-param-name") && resource instanceof SearchParameter)
            src = s1 + ((SearchParameter) resource).getName() + s3;
        else if (com[0].equals("search-param-url") && resource instanceof SearchParameter)
            src = s1 + ((SearchParameter) resource).getUrl() + s3;
        else if (com[0].equals("search-param-type") && resource instanceof SearchParameter)
            src = s1 + ((SearchParameter) resource).getType().toCode() + s3;
        else if (com[0].equals("search-param-definition") && resource instanceof SearchParameter)
            src = s1 + ((SearchParameter) resource).getDescription() + s3;
        else if (com[0].equals("search-param-paths") && resource instanceof SearchParameter)
            src = s1 + (((SearchParameter) resource).hasXpath() ? ((SearchParameter) resource).getXpath() : "") + s3;
        else if (com[0].equals("search-param-targets") && resource instanceof SearchParameter) {
            CommaSeparatedStringBuilder b = new CommaSeparatedStringBuilder();
            for (CodeType t : ((SearchParameter) resource).getTarget()) b.append(t.asStringValue());
            src = s1 + b.toString() + s3;
        } else if (com[0].startsWith("!"))
            src = s1 + s3;
        else if (com[0].equals("txsummary"))
            if (resource instanceof CodeSystem)
                src = s1 + txsummary((CodeSystem) resource, genlevel(level)) + s3;
            else
                src = s1 + txsummary((ValueSet) resource, genlevel(level)) + s3;
        else if (com[0].equals("identifierlist"))
            src = s1 + genIdentifierList() + s3;
        else if (com[0].equals("allsearchparams"))
            src = s1 + genAllSearchParams() + s3;
        else if (com[0].equals("internalsystemlist"))
            src = s1 + genCSList() + s3;
        else if (com[0].equals("internalsystemlistx"))
            src = s1 + genCSListX() + s3;
        else if (com[0].equals("example-usage"))
            src = s1 + s3;
        else if (com[0].equals("ig.title"))
            src = s1 + ig.getName() + s3;
        else if (com[0].equals("ig.wglink"))
            src = s1 + igLink(ig) + s3;
        else if (com[0].equals("ig.wgt"))
            src = s1 + ig.getCommittee() + s3;
        else if (com[0].equals("ig.fmm"))
            src = s1 + getFmmFromlevel(genlevel(level), ig.getFmm()) + s3;
        else if (com[0].equals("ig.ballot"))
            src = s1 + ig.getBallot() + s3;
        else if (com[0].equals("operations")) {
            Profile p = (Profile) object;
            src = s1 + genOperations(p.getOperations(), p.getTitle(), p.getId(), false, null, "../", "") + s3;
        } else if (com[0].equals("operations-summary"))
            src = s1 + genOperationsSummary(((Profile) object).getOperations(), rd) + s3;
        else if (com[0].equals("ig.opcount"))
            src = s1 + genOpCount(((Profile) object).getOperations()) + s3;
        else if (com[0].equals("ig-toc"))
            src = s1 + genIgToc(ig) + s3;
        else if (com[0].equals("fhir-path"))
            src = s1 + "../" + s3;
        else if (com[0].equals("vscommittee"))
            src = s1 + vscommittee(resource) + s3;
        else if (com[0].equals("modifier-list"))
            src = s1 + genModifierList() + s3;
        else if (com[0].equals("missing-element-list"))
            src = s1 + genMeaningWhenMissingList() + s3;
        else if (com[0].equals("wgreport"))
            src = s1 + genWGReport() + s3;
        else if (com[0].equals("r3maps-summary"))
            src = s1 + genR3MapsSummary() + s3;
        else if (com[0].equals("wg")) {
            src = s1 + (wg == null || !definitions.getWorkgroups().containsKey(wg) ? "(No assigned work group) (" + wg + " (1))" : "<a _target=\"blank\" href=\"" + definitions.getWorkgroups().get(wg).getUrl() + "\">" + definitions.getWorkgroups().get(wg).getName() + "</a> Work Group") + s3;
        } else if (com[0].equals("profile-context"))
            src = s1 + getProfileContext((CanonicalResource) resource, genlevel(level)) + s3;
        else if (com[0].equals("res-list-maturity"))
            src = s1 + buildResListByMaturity() + s3;
        else if (com[0].equals("res-list-security"))
            src = s1 + buildResListBySecurity() + s3;
        else if (com[0].equals("res-list-fmg"))
            src = s1 + buildResListByFMG() + s3;
        else if (com[0].equals("res-list-ballot"))
            src = s1 + buildResListByBallot() + s3;
        else if (com[0].equals("res-list-committee"))
            src = s1 + buildResListByCommittee() + s3;
        else if (com[0].equals("wglist"))
            src = s1 + buildCommitteeList() + s3;
        else if (com[0].equals("opName"))
            src = s1 + ((Operation) object).getName() + s3;
        else if (com[0].equals("rName"))
            src = s1 + rd.getName() + s3;
        else if (com[0].equals("operation-summary"))
            src = s1 + ((Operation) object).getName() + " summary" + s3;
        else if (com[0].equals("extension-type-list"))
            src = s1 + genExtensionTypeList() + s3;
        else if (com[0].equals("best-practice-list"))
            src = s1 + genBestPracticeList() + s3;
        else if (com[0].equals("wildcard-type-list"))
            src = s1 + genWildcardTypeList() + s3;
        else if (com[0].startsWith("GF#"))
            src = s1 + "<a href=\"https://gforge.hl7.org/gf/project/fhir/tracker/?action=TrackerItemEdit&amp;tracker_item_id=" + com[0].substring(3) + "\">" + com[0] + "</a>" + s3;
        else if (com[0].startsWith("GFT#"))
            src = s1 + "<a href=\"https://gforge.hl7.org/gf/project/fhir/tracker/?action=TrackerItemEdit&amp;tracker_item_id=" + com[0].substring(3) + "\">Task</a>" + s3;
        else if (com[0].equals("operation")) {
            Operation op = (Operation) object;
            src = s1 + genOperation(op, rd.getName(), rd.getName().toLowerCase(), false, rd.getStatus(), genlevel(level), rd.getNormativePackage()) + s3;
        } else if (com[0].equals("past-narrative-link")) {
            if (object == null || !(object instanceof Boolean))
                src = s1 + s3;
            else
                src = s1 + "<p><a href=\"#DomainResource.text.div-end\">Jump past Narrative</a></p>" + s3;
        } else if (others != null && others.containsKey(s2))
            src = s1 + others.get(s2) + s3;
        else if (com[0].equals("canonical-resources"))
            src = s1 + listCanonicalResources() + s3;
        else if (com[0].equals("metadata-resources"))
            src = s1 + listCanonicalResources() + s3;
        else if (com[0].equals("special-search-parameters")) {
            src = s1 + listSpecialParameters() + s3;
        } else if (com[0].equals("diff-links-all")) {
            src = s1 + genDiffLinks() + s3;
        } else if (com[0].equals("res-type-count")) {
            src = s1 + definitions.getResources().size() + s3;
        } else if (com[0].equals("patterns-analysis")) {
            src = s1 + patternFinder.generateReport() + s3;
        } else if (macros.containsKey(com[0])) {
            src = s1 + macros.get(com[0]) + s3;
        } else
            throw new Exception("Instruction <%" + s2 + "%> not understood parsing page " + file);
    }
    return src;
}

Example 8 with DOCUMENT

use of org.hl7.fhir.r4.model.Bundle.BundleType.DOCUMENT in project kindling by HL7.

the class CDAGenerator method processDataTypes.

private void processDataTypes(String filename) throws FileNotFoundException, ParserConfigurationException, SAXException, IOException, FHIRFormatError, DefinitionException {
    System.out.println("Process Data Types");
    Document dtMif = XMLUtil.parseFileToDom(filename);
    List<Element> dts = new ArrayList<Element>();
    XMLUtil.getNamedChildren(dtMif.getDocumentElement(), "mif:datatype", dts);
    for (Element dt : dts) {
        String n = dt.getAttribute("name");
        types.put(n, dt);
        if (n.equals("IVL")) {
            processDataType(dt, n + "_TS", "TS");
            processDataType(dt, n + "_PQ", "PQ");
            processDataType(dt, n + "_INT", "INT");
        } else if (n.equals("PIVL")) {
            processDataType(dt, n + "_TS", null);
        } else if (n.equals("EIVL")) {
            processDataType(dt, n + "_TS", null);
        } else if (n.equals("RTO")) {
            processDataType(dt, n + "_PQ_PQ", "PQ");
        } else if (!"Binding".equals(dt.getAttribute("datatypeKind")))
            processDataType(dt, n, null);
    }
    buildSXPR();
    buildInfrastructureRoot();
    for (StructureDefinition sd : structures) {
        // if (!sd.getAbstract())
        generateSnapShot(sd);
    }
    System.out.println(" ... done");
}

Example 9 with DOCUMENT

use of org.hl7.fhir.r4.model.Bundle.BundleType.DOCUMENT in project kindling by HL7.

the class CKMImporter method downloadArchetype.

private void downloadArchetype(String id) throws Exception {
    String destFn = Utilities.path(dest, id + ".xml");
    if (new File(destFn).exists())
        System.out.println(id + " already fetched");
    else {
        System.out.println("Fetch " + id);
        Document sxml = loadXml(ckm + "/services/ArchetypeFinderBean/getArchetypeInXML?archetypeId=" + id);
        Element e = XMLUtil.getFirstChild(sxml.getDocumentElement());
        String src = Utilities.path("c:\\temp", id + ".xml");
        TextFile.stringToFile(e.getTextContent(), src);
    }
}

Example 10 with DOCUMENT

use of org.hl7.fhir.r4.model.Bundle.BundleType.DOCUMENT in project kindling by HL7.

the class BuildWorkerContext method queryForTerm.

private SnomedServerResponse queryForTerm(String code) throws Exception {
    if (!triedServer || serverOk) {
        triedServer = true;
        HttpClient httpclient = new DefaultHttpClient();
        HttpGet httpget = new HttpGet("http://tx.fhir.org/snomed/tool/" + SNOMED_EDITION + "/" + URLEncoder.encode(code, "UTF-8").replace("+", "%20"));
        // HttpGet httpget = new HttpGet("http://local.fhir.org:960/r4/snomed/tool/"+SNOMED_EDITION+"/"+URLEncoder.encode(code, "UTF-8").replace("+", "%20")); // don't like the url encoded this way
        HttpResponse response = httpclient.execute(httpget);
        HttpEntity entity = response.getEntity();
        InputStream instream = entity.getContent();
        try {
            DocumentBuilderFactory factory = DocumentBuilderFactory.newInstance();
            DocumentBuilder builder = factory.newDocumentBuilder();
            Document xdoc = builder.parse(instream);
            // we always get back a version, and a type. What we do depends on the type
            String t = xdoc.getDocumentElement().getAttribute("type");
            serverOk = true;
            if (t.equals("error"))
                throw new Exception(xdoc.getDocumentElement().getAttribute("message"));
            if (t.equals("description"))
                throw new Exception("The Snomed code (\"" + code + "\") is a description id not a concept id which is not valid");
            if (t.equals("concept")) {
                Concept c = new Concept();
                c.display = xdoc.getDocumentElement().getAttribute("display");
                Element child = XMLUtil.getFirstChild(xdoc.getDocumentElement());
                while (child != null) {
                    c.displays.add(child.getAttribute("value"));
                    child = XMLUtil.getNextSibling(child);
                }
                snomedCodes.put(code, c);
                return null;
            }
            if (t.equals("expression")) {
                SnomedServerResponse resp = new SnomedServerResponse();
                resp.correctExpression = xdoc.getDocumentElement().getAttribute("expressionMinimal");
                resp.display = xdoc.getDocumentElement().getAttribute("display");
                if (!snomedCodes.containsKey(resp.correctExpression)) {
                    Concept c = new Concept();
                    c.display = resp.display;
                    snomedCodes.put(resp.correctExpression, c);
                }
                return resp;
            }
            throw new Exception("Unrecognised response from server");
        } finally {
            instream.close();
        }
    } else
        return null;
}