embed anchors at end of narrative for JSON & XML

org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/elementmodel/JsonParser.java

@@ -486,6 +486,8 @@ public class JsonParser extends ParserBase {
 			if (element.hasValue())
 				primitiveValue(name, element);
 			name = "_"+name;
+			if (element.getType().equals("xhtml"))
+			  json.anchor("end-xhtml");
 		}
 		if (element.hasChildren()) {
 			open(name, linkResolver == null ? null : linkResolver.resolveProperty(element.getProperty()));

org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/elementmodel/XmlParser.java

@@ -501,8 +501,10 @@ public class XmlParser extends ParserBase {
         String rawXhtml = element.getValue();
         if (isCdaText(element.getProperty())) {
           new CDANarrativeFormat().convert(xml, element.getXhtml());
-        } else
+        } else {
           xml.escapedText(rawXhtml);
+          xml.anchor("end-xhtml");
+        }
       } else if (isText(element.getProperty())) {
         if (linkResolver != null)
           xml.link(linkResolver.resolveProperty(element.getProperty()));

org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/formats/JsonCreator.java

@@ -59,4 +59,5 @@ public interface JsonCreator {
 
   // only used by an creator that actually produces xhtml
   void link(String href);
+  void anchor(String string);
 }

org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/formats/JsonCreatorCanonical.java

@@ -262,5 +262,10 @@ public class JsonCreatorCanonical implements JsonCreator {
     // not used
   }
        
+  @Override
+  public void anchor(String name) {
+    // not used
+  }
+       
     
 }

org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/formats/JsonCreatorDirect.java

@@ -189,4 +189,10 @@ public class JsonCreatorDirect implements JsonCreator {
     
   }
 
+  @Override
+  public void anchor(String name) {
+    // not used
+  }
+       
+
 }

org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/formats/JsonCreatorGson.java

@@ -106,4 +106,9 @@ public class JsonCreatorGson implements JsonCreator {
     value(new BigDecimal(value));    
   }
 
+  @Override
+  public void anchor(String name) {
+    // not used
+  }
+       
 }

org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/NPMPackageGenerator.java

@@ -283,7 +283,7 @@ public class NPMPackageGenerator {
     // also, for cache management on current builds, generate a little manifest
     Gson gson = new GsonBuilder().setPrettyPrinting().create();
     String json = gson.toJson(packageManifest);
-    TextFile.stringToFile(json, Utilities.changeFileExt(destFile, ".manifest.json"));
+    TextFile.stringToFile(json, Utilities.changeFileExt(destFile, ".manifest.json"), false);
   }
 
   public String filename() {

org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/StructureMapUtilities.java

@@ -1363,12 +1363,28 @@ public class StructureMapUtilities {
 		vars.add(VariableMode.INPUT, getInputName(g, StructureMapInputMode.SOURCE, "source"), source);
 		if (target != null)
   		vars.add(VariableMode.OUTPUT, getInputName(g, StructureMapInputMode.TARGET, "target"), target);
+		else if (getInputName(g, StructureMapInputMode.TARGET, null) != null) {
+		  String type = getInputType(g, StructureMapInputMode.TARGET);
+		  throw new Error("not handled yet: creating a type of "+type);
+		}
 
     executeGroup("", context, map, vars, g, true);
     if (target instanceof Element)
       ((Element) target).sort();
 	}
 
+	private String getInputType(StructureMapGroupComponent g, StructureMapInputMode mode) {
+    String type = null;
+    for (StructureMapGroupInputComponent inp : g.getInput()) {
+      if (inp.getMode() == mode)
+        if (type != null)
+          throw new DefinitionException("This engine does not support multiple source inputs");
+        else
+          type = inp.getType();
+    }
+    return type;
+  }
+
   private String getInputName(StructureMapGroupComponent g, StructureMapInputMode mode, String def) throws DefinitionException {
 	  String name = null;
     for (StructureMapGroupInputComponent inp : g.getInput()) {

org.hl7.fhir.utilities/src/main/java/org/hl7/fhir/utilities/TextFile.java

@@ -200,5 +200,12 @@ public class TextFile {
     return streamToString(new ByteArrayInputStream(bs));
   }
 
+  public static String bytesToString(byte[] bs, boolean removeBOM) throws IOException {
+    if (removeBOM)
+      return streamToString(new ByteArrayInputStream(bs)).replace("\uFEFF", "");
+    else
+      return streamToString(new ByteArrayInputStream(bs));
+  }
+
 
 }

org.hl7.fhir.utilities/src/main/java/org/hl7/fhir/utilities/xml/IXMLWriter.java

@@ -119,5 +119,5 @@ public interface IXMLWriter {
 	
 	// this is only implemented by an implementation that is producing an xhtml representation, and is able to render elements as hyperlinks 
   public abstract void link(String href);
-  
+  public abstract void anchor(String name);
 }

org.hl7.fhir.utilities/src/main/java/org/hl7/fhir/utilities/xml/XMLWriter.java

@@ -902,6 +902,11 @@ public class XMLWriter extends OutputStreamWriter implements IXMLWriter {
     
   }
 
+  @Override
+  public void anchor(String name) {
+    // ignore this    
+  }
+
   @Override
   public void decorate(ElementDecoration element) throws IOException {
     // nothing...