Merge branch 'master' of https://github.com/jamesagnew/hapi-fhir into jaxrs-sever-evolution

# Conflicts:
#	hapi-fhir-structures-dstu3/src/test/java/ca/uhn/fhir/parser/JsonParserDstu3Test.java

hapi-fhir-base/src/main/java/ca/uhn/fhir/context/BaseRuntimeElementCompositeDefinition.java

@@ -216,18 +216,6 @@ public abstract class BaseRuntimeElementCompositeDefinition<T extends IBase> ext
 			orderToElementDef = newOrderToExtensionDef;
 		}
 		
-		// while (orderToElementDef.size() > 0 && orderToElementDef.firstKey() <
-		// 0) {
-		// BaseRuntimeDeclaredChildDefinition elementDef =
-		// orderToElementDef.remove(orderToElementDef.firstKey());
-		// if (elementDef.getElementName().equals("identifier")) {
-		// orderToElementDef.put(theIdentifierOrder, elementDef);
-		// } else {
-		// throw new ConfigurationException("Don't know how to handle element: "
-		// + elementDef.getElementName());
-		// }
-		// }
-
 		TreeSet<Integer> orders = new TreeSet<Integer>();
 		orders.addAll(orderToElementDef.keySet());
 		orders.addAll(orderToExtensionDef.keySet());
@@ -372,7 +360,7 @@ public abstract class BaseRuntimeElementCompositeDefinition<T extends IBase> ext
 				def = new RuntimeChildDirectResource(nextField, childAnnotation, descriptionAnnotation, elementName);
 			} else {
 				childIsChoiceType |= choiceTypes.size() > 1;
-				if (childIsChoiceType && !BaseResourceReferenceDt.class.isAssignableFrom(nextElementType) && !IBaseReference.class.isAssignableFrom(nextElementType)) {
+				if (extensionAttr == null && childIsChoiceType && !BaseResourceReferenceDt.class.isAssignableFrom(nextElementType) && !IBaseReference.class.isAssignableFrom(nextElementType)) {
 					def = new RuntimeChildChoiceDefinition(nextField, elementName, childAnnotation, descriptionAnnotation, choiceTypes);
 				} else if (extensionAttr != null) {
 					/*

hapi-fhir-base/src/main/java/ca/uhn/fhir/context/RuntimeChildChoiceDefinition.java

@@ -38,6 +38,9 @@ public class RuntimeChildChoiceDefinition extends BaseRuntimeDeclaredChildDefini
 	private String myReferenceSuffix;
 	private List<Class<? extends IBaseResource>> myResourceTypes;
 
+	/**
+	 * Constructor
+	 */
 	public RuntimeChildChoiceDefinition(Field theField, String theElementName, Child theChildAnnotation, Description theDescriptionAnnotation, List<Class<? extends IBase>> theChoiceTypes) {
 		super(theField, theChildAnnotation, theDescriptionAnnotation, theElementName);
 
@@ -45,6 +48,8 @@ public class RuntimeChildChoiceDefinition extends BaseRuntimeDeclaredChildDefini
 	}
 
 	/**
+	 * Constructor
+	 * 
 	 * For extension, if myChoiceTypes will be set some other way
 	 */
 	RuntimeChildChoiceDefinition(Field theField, String theElementName, Child theChildAnnotation, Description theDescriptionAnnotation) {
@@ -143,6 +148,7 @@ public class RuntimeChildChoiceDefinition extends BaseRuntimeDeclaredChildDefini
 			if (IBaseResource.class.isAssignableFrom(next) || IBaseReference.class.isAssignableFrom(next)) {
 				next = theContext.getVersion().getResourceReferenceType();
 				elementName = getElementName() + myReferenceSuffix;
+				myNameToChildDefinition.put(elementName, nextDef);
 			}
 
 			myDatatypeToElementDefinition.put(next, nextDef);

hapi-fhir-base/src/main/java/ca/uhn/fhir/context/RuntimeChildDeclaredExtensionDefinition.java

@@ -22,32 +22,32 @@ package ca.uhn.fhir.context;
 import static org.apache.commons.lang3.StringUtils.isNotBlank;
 
 import java.lang.reflect.Field;
+import java.lang.reflect.Modifier;
 import java.util.ArrayList;
 import java.util.Collections;
 import java.util.HashMap;
 import java.util.List;
 import java.util.Map;
-import java.util.Set;
 
 import org.hl7.fhir.instance.model.api.IBase;
-import org.hl7.fhir.instance.model.api.IBaseResource;
 
-import ca.uhn.fhir.model.api.IResource;
+import ca.uhn.fhir.model.api.IElement;
 import ca.uhn.fhir.model.api.annotation.Child;
 import ca.uhn.fhir.model.api.annotation.Description;
 import ca.uhn.fhir.model.api.annotation.Extension;
+import ca.uhn.fhir.util.ReflectionUtil;
 
-public class RuntimeChildDeclaredExtensionDefinition extends BaseRuntimeDeclaredChildDefinition {
+public class RuntimeChildDeclaredExtensionDefinition extends RuntimeChildChoiceDefinition {
 
-	private BaseRuntimeElementDefinition<?> myChildDef;
-	private Class<? extends IBase> myChildType;
-	private String myDatatypeChildName;
 	private boolean myDefinedLocally;
 	private String myExtensionUrl;
 	private boolean myModifier;
 	private Map<String, RuntimeChildDeclaredExtensionDefinition> myUrlToChildExtension;
 	private volatile Object myInstanceConstructorArguments;
 	private Class<?> myEnumerationType;
+	private Class<? extends IBase> myChildType;
+	private RuntimeResourceBlockDefinition myChildResourceBlock;
+	private BaseRuntimeElementDefinition<?> myChildDef;
 
 	/**
 	 * @param theBoundTypeBinder
@@ -56,15 +56,32 @@ public class RuntimeChildDeclaredExtensionDefinition extends BaseRuntimeDeclared
 	 * @param theDefinedLocally
 	 *           See {@link Extension#definedLocally()}
 	 */
-	RuntimeChildDeclaredExtensionDefinition(Field theField, Child theChild, Description theDescriptionAnnotation, Extension theExtension, String theElementName, String theExtensionUrl, Class<? extends IBase> theChildType, Object theBoundTypeBinder)
+	RuntimeChildDeclaredExtensionDefinition(Field theField, Child theChild, Description theDescriptionAnnotation, Extension theExtension, String theElementName, String theExtensionUrl,
+			Class<? extends IBase> theChildType, Object theBoundTypeBinder)
 			throws ConfigurationException {
-		super(theField, theChild, theDescriptionAnnotation, theElementName);
+		super(theField, theElementName, theChild, theDescriptionAnnotation);
 		assert isNotBlank(theExtensionUrl);
 		myExtensionUrl = theExtensionUrl;
 		myChildType = theChildType;
 		myDefinedLocally = theExtension.definedLocally();
 		myModifier = theExtension.isModifier();
 		myInstanceConstructorArguments = theBoundTypeBinder;
+
+		List<Class<? extends IBase>> choiceTypes = new ArrayList<Class<? extends IBase>>();
+		for (Class<? extends IElement> next : theChild.type()) {
+			choiceTypes.add(next);
+		}
+
+		if (Modifier.isAbstract(theChildType.getModifiers()) == false) {
+			choiceTypes.add(theChildType);
+		}
+
+		setChoiceTypes(choiceTypes);
+	}
+
+	@Override
+	public String getElementName() {
+		return "value";
 	}
 
 	@Override
@@ -82,58 +99,66 @@ public class RuntimeChildDeclaredExtensionDefinition extends BaseRuntimeDeclared
 	}
 
 	@Override
-	public BaseRuntimeElementDefinition<?> getChildByName(String theName) {
+	public String getChildNameByDatatype(Class<? extends IBase> theDatatype) {
-		if (myDatatypeChildName != null) {
+
-			if (myDatatypeChildName.equals(theName)) {
+		String retVal = super.getChildNameByDatatype(theDatatype);
-				return myChildDef;
+
-			} else {
+		if (retVal != null) {
-				return null;
+			BaseRuntimeElementDefinition<?> childDef = super.getChildElementDefinitionByDatatype(theDatatype);
-			}
+			if (childDef instanceof RuntimeResourceBlockDefinition) {
-		} else {
+				// Child is a newted extension
-			return null;
+				retVal = null;
 			}
 		}
 
+		if (retVal == null) {
+			if (myModifier) {
+				return "modifierExtension";
+			} else {
+				return "extension";
+			}
+		}
+		return retVal;
+	}
+
 	@Override
-	public BaseRuntimeElementDefinition<?> getChildElementDefinitionByDatatype(Class<? extends IBase> theType) {
+	public BaseRuntimeElementDefinition<?> getChildByName(String theName) {
-		if (myChildType.equals(theType)) {
+		String name = theName;
+		if ("extension".equals(name)||"modifierExtension".equals(name)) {
+			if (myChildResourceBlock != null) {
+				return myChildResourceBlock;
+			}
+			if (myChildDef != null) {
 				return myChildDef;
 			}
+		}
+
+		if (getValidChildNames().contains(name) == false) {
 			return null;
 		}
 		
+		return super.getChildByName(name);
+	}
+
+	@Override
+	public BaseRuntimeElementDefinition<?> getChildElementDefinitionByDatatype(Class<? extends IBase> theDatatype) {
+		if (myChildResourceBlock != null) {
+			if (myChildResourceBlock.getImplementingClass().equals(theDatatype)) {
+				return myChildResourceBlock;
+			}
+		}
+		return super.getChildElementDefinitionByDatatype(theDatatype);
+	}
+
 	public RuntimeChildDeclaredExtensionDefinition getChildExtensionForUrl(String theUrl) {
 		return myUrlToChildExtension.get(theUrl);
 	}
 
-	@Override
-	public String getChildNameByDatatype(Class<? extends IBase> theDatatype) {
-		if (myChildType.equals(theDatatype) && myDatatypeChildName != null) {
-			return myDatatypeChildName;
-		} else {
-			return "extension";
-		}
-	}
-
-	public Class<? extends IBase> getChildType() {
-		return myChildType;
-	}
-
 	@Override
 	public String getExtensionUrl() {
 		return myExtensionUrl;
 	}
 
-	@Override
-	public BaseRuntimeElementDefinition<?> getSingleChildOrThrow() {
-		return myChildDef;
-	}
-
-	@Override
-	public Set<String> getValidChildNames() {
-		return Collections.emptySet();
-	}
-
 	public boolean isDefinedLocally() {
 		return myDefinedLocally;
 	}
@@ -143,16 +168,6 @@ public class RuntimeChildDeclaredExtensionDefinition extends BaseRuntimeDeclared
 		return myModifier;
 	}
 
-	public IBase newInstance() {
-		try {
-			return myChildType.newInstance();
-		} catch (InstantiationException e) {
-			throw new ConfigurationException("Failed to instantiate type:" + myChildType.getName(), e);
-		} catch (IllegalAccessException e) {
-			throw new ConfigurationException("Failed to instantiate type:" + myChildType.getName(), e);
-		}
-	}
-
 	@Override
 	void sealAndInitialize(FhirContext theContext, Map<Class<? extends IBase>, BaseRuntimeElementDefinition<?>> theClassToElementDefinitions) {
 		myUrlToChildExtension = new HashMap<String, RuntimeChildDeclaredExtensionDefinition>();
@@ -164,29 +179,41 @@ public class RuntimeChildDeclaredExtensionDefinition extends BaseRuntimeDeclared
 		 * built-in types, e.g. custom structures or custom extensions
 		 */
 		if (elementDef == null) {
+			if (Modifier.isAbstract(myChildType.getModifiers()) == false) {
 				elementDef = theContext.getElementDefinition(myChildType);
 			}
+		}
 
 		if (elementDef instanceof RuntimePrimitiveDatatypeDefinition || elementDef instanceof RuntimeCompositeDatatypeDefinition) {
-			myDatatypeChildName = "value" + elementDef.getName().substring(0, 1).toUpperCase() + elementDef.getName().substring(1);
+//			myDatatypeChildName = "value" + elementDef.getName().substring(0, 1).toUpperCase() + elementDef.getName().substring(1);
-			if ("valueResourceReference".equals(myDatatypeChildName)) {
+//			if ("valueResourceReference".equals(myDatatypeChildName)) {
 				// Per one of the examples here: http://hl7.org/implement/standards/fhir/extensibility.html#extension
-				myDatatypeChildName = "valueResource";
+//				myDatatypeChildName = "valueResource";
-				List<Class<? extends IBaseResource>> types = new ArrayList<Class<? extends IBaseResource>>();
+//				List<Class<? extends IBaseResource>> types = new ArrayList<Class<? extends IBaseResource>>();
-				types.add(IResource.class);
+//				types.add(IBaseResource.class);
-				myChildDef = findResourceReferenceDefinition(theClassToElementDefinitions);
+//				myChildDef = findResourceReferenceDefinition(theClassToElementDefinitions);
-			} else {
+//			} else {
 				myChildDef = elementDef;
-			}
+//			}
-		} else {
+		} else if (elementDef instanceof RuntimeResourceBlockDefinition) {
 			RuntimeResourceBlockDefinition extDef = ((RuntimeResourceBlockDefinition) elementDef);
 			for (RuntimeChildDeclaredExtensionDefinition next : extDef.getExtensions()) {
 				myUrlToChildExtension.put(next.getExtensionUrl(), next);
 			}
-			myChildDef = extDef;
+			myChildResourceBlock = (RuntimeResourceBlockDefinition) elementDef;
 		}
 
 		myUrlToChildExtension = Collections.unmodifiableMap(myUrlToChildExtension);
+
+		super.sealAndInitialize(theContext, theClassToElementDefinitions);
+	}
+
+	public IBase newInstance() {
+		return ReflectionUtil.newInstance(myChildType);
+	}
+
+	public Class<? extends IBase> getChildType() {
+		return myChildType;
 	}
 
 }

hapi-fhir-base/src/main/java/ca/uhn/fhir/model/primitive/IdDt.java

@@ -1,5 +1,6 @@
 package ca.uhn.fhir.model.primitive;
 
+import static org.apache.commons.lang3.StringUtils.defaultString;
 /*
  * #%L
  * HAPI FHIR - Core Library
@@ -52,7 +53,7 @@ import ca.uhn.fhir.util.UrlUtil;
  * regex: [a-z-Z0-9\-\.]{1,36}
  * </p>
  */
-@DatatypeDef(name = "id", profileOf=StringDt.class)
+@DatatypeDef(name = "id", profileOf = StringDt.class)
 public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 
 	private String myBaseUrl;
@@ -202,34 +203,6 @@ public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 		return getIdPartAsBigDecimal();
 	}
 
-	private String determineLocalPrefix(String theValue) {
-		if (theValue == null || theValue.isEmpty()) {
-			return null;
-		}
-		if (theValue.startsWith("#")) {
-			return "#";
-		}
-		int lastPrefix = -1;
-		for (int i = 0; i < theValue.length(); i++) {
-			char nextChar = theValue.charAt(i);
-			if (nextChar == ':') {
-				lastPrefix = i;
-			} else if (!Character.isLetter(nextChar) || !Character.isLowerCase(nextChar)) {
-				break;
-			}
-		}
-		if (lastPrefix != -1) {
-			String candidate = theValue.substring(0, lastPrefix + 1);
-			if (candidate.startsWith("cid:") || candidate.startsWith("urn:")) {
-				return candidate;
-			} else {
-				return null;
-			}
-		} else {
-			return null;
-		}
-	}
-
 	@Override
 	public boolean equals(Object theArg0) {
 		if (!(theArg0 instanceof IdDt)) {
@@ -316,8 +289,8 @@ public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 	public String getValue() {
 		if (super.getValue() == null && myHaveComponentParts) {
 
-			if (determineLocalPrefix(myBaseUrl) != null && myResourceType == null && myUnqualifiedVersionId == null) {
+			if (isLocal() || isUrn()) {
-				return myBaseUrl + myUnqualifiedId;
+				return myUnqualifiedId;
 			}
 
 			StringBuilder b = new StringBuilder();
@@ -448,11 +421,16 @@ public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 	}
 
 	/**
-	 * Returns <code>true</code> if the ID is a local reference (in other words, it begins with the '#' character)
+	 * Returns <code>true</code> if the ID is a local reference (in other words,
+	 * it begins with the '#' character)
 	 */
 	@Override
 	public boolean isLocal() {
-		return "#".equals(myBaseUrl);
+		return defaultString(myUnqualifiedId).startsWith("#");
+	}
+
+	private boolean isUrn() {
+		return defaultString(myUnqualifiedId).startsWith("urn:");
 	}
 
 	@Override
@@ -468,6 +446,27 @@ public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 		setValue(theId.getValue());
 	}
 
+	@Override
+	public IIdType setParts(String theBaseUrl, String theResourceType, String theIdPart, String theVersionIdPart) {
+		if (isNotBlank(theVersionIdPart)) {
+			Validate.notBlank(theResourceType, "If theVersionIdPart is populated, theResourceType and theIdPart must be populated");
+			Validate.notBlank(theIdPart, "If theVersionIdPart is populated, theResourceType and theIdPart must be populated");
+		}
+		if (isNotBlank(theBaseUrl) && isNotBlank(theIdPart)) {
+			Validate.notBlank(theResourceType, "If theBaseUrl is populated and theIdPart is populated, theResourceType must be populated");
+		}
+
+		setValue(null);
+
+		myBaseUrl = theBaseUrl;
+		myResourceType = theResourceType;
+		myUnqualifiedId = theIdPart;
+		myUnqualifiedVersionId = StringUtils.defaultIfBlank(theVersionIdPart, null);
+		myHaveComponentParts = true;
+
+		return this;
+	}
+
 	/**
 	 * Set the value
 	 * 
@@ -485,8 +484,6 @@ public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 		super.setValue(theValue);
 		myHaveComponentParts = false;
 
-		String localPrefix = determineLocalPrefix(theValue);
-		
 		if (StringUtils.isBlank(theValue)) {
 			myBaseUrl = null;
 			super.setValue(null);
@@ -495,14 +492,14 @@ public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 			myResourceType = null;
 		} else if (theValue.charAt(0) == '#' && theValue.length() > 1) {
 			super.setValue(theValue);
-			myBaseUrl = "#";
+			myBaseUrl = null;
-			myUnqualifiedId = theValue.substring(1);
+			myUnqualifiedId = theValue;
 			myUnqualifiedVersionId = null;
 			myResourceType = null;
 			myHaveComponentParts = true;
-		} else if (localPrefix != null) {
+		} else if (theValue.startsWith("urn:")) {
-			myBaseUrl = localPrefix;
+			myBaseUrl = null;
-			myUnqualifiedId = theValue.substring(localPrefix.length());
+			myUnqualifiedId = theValue;
 			myUnqualifiedVersionId = null;
 			myResourceType = null;
 			myHaveComponentParts = true;
@@ -567,24 +564,33 @@ public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 	 */
 	@Override
 	public IdDt toUnqualified() {
+		if (isLocal() || isUrn()) {
+			return new IdDt(getValueAsString());
+		}
 		return new IdDt(getResourceType(), getIdPart(), getVersionIdPart());
 	}
 
 	@Override
 	public IdDt toUnqualifiedVersionless() {
-		if (isLocal()) {
+		if (isLocal() || isUrn()) {
-			return toVersionless();
+			return new IdDt(getValueAsString());
 		}
 		return new IdDt(getResourceType(), getIdPart());
 	}
 
 	@Override
 	public IdDt toVersionless() {
+		if (isLocal() || isUrn()) {
+			return new IdDt(getValueAsString());
+		}
 		return new IdDt(getBaseUrl(), getResourceType(), getIdPart(), null);
 	}
 
 	@Override
 	public IdDt withResourceType(String theResourceName) {
+		if (isLocal() || isUrn()) {
+			return new IdDt(getValueAsString());
+		}
 		return new IdDt(theResourceName, getIdPart(), getVersionIdPart());
 	}
 
@@ -600,6 +606,9 @@ public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 	 */
 	@Override
 	public IdDt withServerBase(String theServerBase, String theResourceType) {
+		if (isLocal() || isUrn()) {
+			return new IdDt(getValueAsString());
+		}
 		return new IdDt(theServerBase, theResourceType, getIdPart(), getVersionIdPart());
 	}
 
@@ -610,9 +619,14 @@ public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 	 *           The actual version string, e.g. "1"
 	 * @return A new instance of IdDt which is identical, but refers to the specific version of this resource ID noted by theVersion.
 	 */
+	@Override
 	public IdDt withVersion(String theVersion) {
 		Validate.notBlank(theVersion, "Version may not be null or empty");
 
+		if (isLocal() || isUrn()) {
+			return new IdDt(getValueAsString());
+		}
+
 		String existingValue = getValue();
 
 		int i = existingValue.indexOf(Constants.PARAM_HISTORY);
@@ -678,25 +692,4 @@ public class IdDt extends UriDt implements IPrimitiveDatatype<String>, IIdType {
 		return theIdPart.toString();
 	}
 
-	@Override
-	public IIdType setParts(String theBaseUrl, String theResourceType, String theIdPart, String theVersionIdPart) {
-		if (isNotBlank(theVersionIdPart)) {
-			Validate.notBlank(theResourceType, "If theVersionIdPart is populated, theResourceType and theIdPart must be populated");
-			Validate.notBlank(theIdPart, "If theVersionIdPart is populated, theResourceType and theIdPart must be populated");
-		}
-		if (isNotBlank(theBaseUrl) && isNotBlank(theIdPart)) {
-			Validate.notBlank(theResourceType, "If theBaseUrl is populated and theIdPart is populated, theResourceType must be populated");
-		}
-		
-		setValue(null);
-		
-		myBaseUrl = theBaseUrl;
-		myResourceType = theResourceType;
-		myUnqualifiedId = theIdPart;
-		myUnqualifiedVersionId = StringUtils.defaultIfBlank(theVersionIdPart, null);
-		myHaveComponentParts = true;
-		
-		return this;
-	}
-
 }

hapi-fhir-base/src/main/java/ca/uhn/fhir/parser/JsonParser.java

@@ -347,7 +347,7 @@ public class JsonParser extends BaseParser implements IJsonLikeParser {
 		for (BundleEntry nextEntry : theBundle.getEntries()) {
 			theEventWriter.beginObject();
 
-			if (nextEntry.getResource() != null && nextEntry.getResource().getId().getBaseUrl() != null) {
+			if (nextEntry.getResource() != null && isNotBlank(nextEntry.getResource().getIdElement().getValue()) && (nextEntry.getResource().getId().getBaseUrl() != null || nextEntry.getResource().getId().getValueAsString().startsWith("urn:"))) {
 				writeOptionalTagWithTextNode(theEventWriter, "fullUrl", nextEntry.getResource().getId().getValue());
 			}
 

hapi-fhir-base/src/main/java/ca/uhn/fhir/parser/ParserState.java

@@ -721,7 +721,6 @@ class ParserState<T> {
 			myInstance = theInstance;
 		}
 
-		@SuppressWarnings("unchecked")
 		@Override
 		public void wereBack() {
 
@@ -2090,17 +2089,32 @@ class ParserState<T> {
 			final boolean bundle = "Bundle".equals(myContext.getResourceDefinition(myInstance).getName());
 			if (bundle) {
 
+				FhirTerser t = myContext.newTerser();
+				
+				Map<String, IBaseResource> idToResource = new HashMap<String, IBaseResource>();
+				if (myContext.getVersion().getVersion().isNewerThan(FhirVersionEnum.DSTU1)) {
+					List<IBase> entries = t.getValues(myInstance, "Bundle.entry", IBase.class);
+					for (IBase nextEntry : entries) {
+						IPrimitiveType<?> fullUrl = t.getSingleValueOrNull(nextEntry, "fullUrl", IPrimitiveType.class);
+						if (fullUrl != null && isNotBlank(fullUrl.getValueAsString())) {
+							IBaseResource resource = t.getSingleValueOrNull(nextEntry, "resource", IBaseResource.class);
+							if (resource != null) {
+								idToResource.put(fullUrl.getValueAsString(), resource);
+							}
+						}
+					}
+				}
+				
 				/*
 				 * Stitch together resource references
 				 */
-				Map<IIdType, IBaseResource> idToResource = new HashMap<IIdType, IBaseResource>();
-				FhirTerser t = myContext.newTerser();
 				List<IBaseResource> resources = t.getAllPopulatedChildElementsOfType(myInstance, IBaseResource.class);
 				for (IBaseResource next : resources) {
 					IIdType id = next.getIdElement();
 					if (id != null && id.isEmpty() == false) {
 						String resName = myContext.getResourceDefinition(next).getName();
-						idToResource.put(id.withResourceType(resName).toUnqualifiedVersionless(), next);
+						IIdType idType = id.withResourceType(resName).toUnqualifiedVersionless();
+						idToResource.put(idType.getValueAsString(), next);
 					}
 				}
 
@@ -2108,7 +2122,8 @@ class ParserState<T> {
 					List<IBaseReference> refs = myContext.newTerser().getAllPopulatedChildElementsOfType(next, IBaseReference.class);
 					for (IBaseReference nextRef : refs) {
 						if (nextRef.isEmpty() == false && nextRef.getReferenceElement() != null) {
-							IBaseResource target = idToResource.get(nextRef.getReferenceElement().toUnqualifiedVersionless());
+							IIdType unqualifiedVersionless = nextRef.getReferenceElement().toUnqualifiedVersionless();
+							IBaseResource target = idToResource.get(unqualifiedVersionless.getValueAsString());
 							if (target != null) {
 								nextRef.setResource(target);
 							}

hapi-fhir-base/src/main/java/ca/uhn/fhir/parser/XmlParser.java

@@ -446,7 +446,7 @@ public class XmlParser extends BaseParser implements IParser {
 
 			writeBundleResourceLink(theEventWriter, "alternate", nextEntry.getLinkAlternate());
 
-			if (nextEntry.getResource() != null && nextEntry.getResource().getId().getBaseUrl() != null) {
+			if (nextEntry.getResource() != null && isNotBlank(nextEntry.getResource().getIdElement().getValue()) && (nextEntry.getResource().getId().getBaseUrl() != null || nextEntry.getResource().getId().getValueAsString().startsWith("urn:"))) {
 				writeOptionalTagWithValue(theEventWriter, "fullUrl", nextEntry.getResource().getId().getValue());
 			}
 

hapi-fhir-base/src/main/java/ca/uhn/fhir/rest/server/RestfulServer.java

@@ -75,6 +75,7 @@ import ca.uhn.fhir.rest.server.exceptions.AuthenticationException;
 import ca.uhn.fhir.rest.server.exceptions.BaseServerResponseException;
 import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
 import ca.uhn.fhir.rest.server.exceptions.NotModifiedException;
+import ca.uhn.fhir.rest.server.exceptions.ResourceNotFoundException;
 import ca.uhn.fhir.rest.server.interceptor.ExceptionHandlingInterceptor;
 import ca.uhn.fhir.rest.server.interceptor.IServerInterceptor;
 import ca.uhn.fhir.rest.server.interceptor.ResponseHighlighterInterceptor;
@@ -253,7 +254,7 @@ public class RestfulServer extends HttpServlet implements IRestfulServer<Servlet
 		} else {
 			resourceBinding = myResourceNameToBinding.get(resourceName);
 			if (resourceBinding == null) {
-				throw new InvalidRequestException("Unknown resource type '" + resourceName + "' - Server knows how to handle: " + myResourceNameToBinding.keySet());
+				throw new ResourceNotFoundException("Unknown resource type '" + resourceName + "' - Server knows how to handle: " + myResourceNameToBinding.keySet());
 			}
 		}
 

hapi-fhir-base/src/main/java/ca/uhn/fhir/rest/server/interceptor/IServerOperationInterceptor.java

@@ -24,6 +24,13 @@ import org.hl7.fhir.instance.model.api.IBaseResource;
 
 import ca.uhn.fhir.rest.method.RequestDetails;
 
+/**
+ * Server interceptor with added methods which can be called within the lifecycle of 
+ * write operations (create/update/delete) or within transaction and batch
+ * operations that call these sub-operations.
+ * 
+ * @see ServerOperationInterceptorAdapter
+ */
 public interface IServerOperationInterceptor extends IServerInterceptor {
 
 	/**

hapi-fhir-base/src/main/java/ca/uhn/fhir/rest/server/interceptor/ResponseHighlighterInterceptor.java

@@ -69,6 +69,7 @@ public class ResponseHighlighterInterceptor extends InterceptorAdapter {
 	public static final String PARAM_RAW_TRUE = "true";
 
 	public static final String PARAM_TRUE = "true";
+
 	private String format(String theResultBody, EncodingEnum theEncodingEnum) {
 		String str = StringEscapeUtils.escapeHtml4(theResultBody);
 		if (str == null || theEncodingEnum == null) {
@@ -181,7 +182,8 @@ public class ResponseHighlighterInterceptor extends InterceptorAdapter {
 	}
 
 	@Override
-	public boolean handleException(RequestDetails theRequestDetails, BaseServerResponseException theException, HttpServletRequest theServletRequest, HttpServletResponse theServletResponse) throws ServletException, IOException {
+	public boolean handleException(RequestDetails theRequestDetails, BaseServerResponseException theException, HttpServletRequest theServletRequest, HttpServletResponse theServletResponse)
+			throws ServletException, IOException {
 		/*
 		 * It's not a browser...
 		 */
@@ -209,13 +211,14 @@ public class ResponseHighlighterInterceptor extends InterceptorAdapter {
 			return super.handleException(theRequestDetails, theException, theServletRequest, theServletResponse);
 		}
 
-		streamResponse(theRequestDetails, theServletResponse, theException.getOperationOutcome(), theServletRequest);
+		streamResponse(theRequestDetails, theServletResponse, theException.getOperationOutcome(), theServletRequest, theException.getStatusCode());
 
 		return false;
 	}
 
 	@Override
-	public boolean outgoingResponse(RequestDetails theRequestDetails, IBaseResource theResponseObject, HttpServletRequest theServletRequest, HttpServletResponse theServletResponse) throws AuthenticationException {
+	public boolean outgoingResponse(RequestDetails theRequestDetails, IBaseResource theResponseObject, HttpServletRequest theServletRequest, HttpServletResponse theServletResponse)
+			throws AuthenticationException {
 
 		/*
 		 * Request for _raw
@@ -264,7 +267,6 @@ public class ResponseHighlighterInterceptor extends InterceptorAdapter {
 			return super.outgoingResponse(theRequestDetails, theResponseObject, theServletRequest, theServletResponse);
 		}
 
-
 		/*
 		 * Not a GET
 		 */
@@ -279,12 +281,12 @@ public class ResponseHighlighterInterceptor extends InterceptorAdapter {
 			return super.outgoingResponse(theRequestDetails, theResponseObject, theServletRequest, theServletResponse);
 		}
 
-		streamResponse(theRequestDetails, theServletResponse, theResponseObject, theServletRequest);
+		streamResponse(theRequestDetails, theServletResponse, theResponseObject, theServletRequest, 200);
 
 		return false;
 	}
 
-	private void streamResponse(RequestDetails theRequestDetails, HttpServletResponse theServletResponse, IBaseResource resource, ServletRequest theServletRequest) {
+	private void streamResponse(RequestDetails theRequestDetails, HttpServletResponse theServletResponse, IBaseResource resource, ServletRequest theServletRequest, int theStatusCode) {
 		IParser p;
 		Map<String, String[]> parameters = theRequestDetails.getParameters();
 		if (parameters.containsKey(Constants.PARAM_FORMAT)) {
@@ -308,10 +310,14 @@ public class ResponseHighlighterInterceptor extends InterceptorAdapter {
 			p.setPrettyPrint(prettyPrintResponse);
 		}
 
-		
 		EncodingEnum encoding = p.getEncoding();
 		String encoded = p.encodeResourceToString(resource);
 
+		try {
+
+			if (theStatusCode > 299) {
+				theServletResponse.setStatus(theStatusCode);
+			}
 			theServletResponse.setContentType(Constants.CT_HTML_WITH_UTF8);
 
 			StringBuilder b = new StringBuilder();
@@ -386,7 +392,6 @@ public class ResponseHighlighterInterceptor extends InterceptorAdapter {
 				b.append("ms.");
 			}
 
-		
 			b.append("</p>");
 
 			b.append("\n");
@@ -410,7 +415,6 @@ public class ResponseHighlighterInterceptor extends InterceptorAdapter {
 		String out = b.toString();
 		//@formatter:on
 
-		try {
 			theServletResponse.getWriter().append(out);
 			theServletResponse.getWriter().close();
 		} catch (IOException e) {

hapi-fhir-base/src/main/java/ca/uhn/fhir/rest/server/interceptor/ServerOperationInterceptorAdapter.java

@@ -0,0 +1,47 @@
+package ca.uhn.fhir.rest.server.interceptor;
+
+/*
+ * #%L
+ * HAPI FHIR - Core Library
+ * %%
+ * Copyright (C) 2014 - 2017 University Health Network
+ * %%
+ * Licensed under the Apache License, Version 2.0 (the "License");
+ * you may not use this file except in compliance with the License.
+ * You may obtain a copy of the License at
+ * 
+ *      http://www.apache.org/licenses/LICENSE-2.0
+ * 
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS,
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ * See the License for the specific language governing permissions and
+ * limitations under the License.
+ * #L%
+ */
+
+import org.hl7.fhir.instance.model.api.IBaseResource;
+
+import ca.uhn.fhir.rest.method.RequestDetails;
+
+/**
+ * NOP implementation of {@link IServerOperationInterceptor}
+ */
+public class ServerOperationInterceptorAdapter extends InterceptorAdapter implements IServerOperationInterceptor {
+
+	@Override
+	public void resourceDeleted(RequestDetails theRequest, IBaseResource theResource) {
+		// nothing
+	}
+
+	@Override
+	public void resourceCreated(RequestDetails theRequest, IBaseResource theResource) {
+		// nothing
+	}
+
+	@Override
+	public void resourceUpdated(RequestDetails theRequest, IBaseResource theResource) {
+		// nothing
+	}
+
+}

hapi-fhir-base/src/main/java/org/hl7/fhir/instance/model/api/IIdType.java

@@ -130,10 +130,41 @@ public interface IIdType extends IPrimitiveType<String> {
 
 	IIdType toVersionless();
 
+	/**
+	 * Returns a copy of this object, but with a different {@link #getResourceType() resource type} 
+	 * (or if this object does not have a resource type currently, returns a copy of this object with
+	 * the given resource type).
+	 * <p>
+	 * Note that if this object represents a local reference (e.g. <code>#foo</code>) or
+	 * a URN (e.g. <code>urn:oid:1.2.3.4</code>) this method will simply return a copy
+	 * of this object with no modifications.
+	 * </p>
+	 */
 	IIdType withResourceType(String theResName);
 	
+	/**
+	 * Returns a copy of this object, but with a different {@link #getResourceType() resource type} 
+	 * and {@link #getBaseUrl() base URL}
+	 * (or if this object does not have a resource type currently, returns a copy of this object with
+	 * the given server base and resource type).
+	 * <p>
+	 * Note that if this object represents a local reference (e.g. <code>#foo</code>) or
+	 * a URN (e.g. <code>urn:oid:1.2.3.4</code>) this method will simply return a copy
+	 * of this object with no modifications.
+	 * </p>
+	 */
 	IIdType withServerBase(String theServerBase, String theResourceName);
 
+	/**
+	 * Returns a copy of this object, but with a different {@link #getVersionIdPart() version ID} 
+	 * (or if this object does not have a resource type currently, returns a copy of this object with
+	 * the given version).
+	 * <p>
+	 * Note that if this object represents a local reference (e.g. <code>#foo</code>) or
+	 * a URN (e.g. <code>urn:oid:1.2.3.4</code>) this method will simply return a copy
+	 * of this object with no modifications.
+	 * </p>
+	 */
 	IIdType withVersion(String theVersion);
 
 	/**

hapi-fhir-client-okhttp/src/main/java/ca/uhn/fhir/okhttp/client/OkHttpRestfulClient.java

@@ -15,7 +15,7 @@ import org.hl7.fhir.instance.model.api.IBaseBinary;
  * #%L
  * HAPI FHIR OkHttp Client
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-client-okhttp/src/main/java/ca/uhn/fhir/okhttp/client/OkHttpRestfulClientFactory.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.okhttp.client;
  * #%L
  * HAPI FHIR OkHttp Client
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-client-okhttp/src/main/java/ca/uhn/fhir/okhttp/client/OkHttpRestfulRequest.java

@@ -8,7 +8,7 @@ import java.util.Map;
  * #%L
  * HAPI FHIR OkHttp Client
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-client-okhttp/src/main/java/ca/uhn/fhir/okhttp/client/OkHttpRestfulResponse.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.okhttp.client;
  * #%L
  * HAPI FHIR OkHttp Client
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-client-okhttp/src/main/java/ca/uhn/fhir/okhttp/utils/UrlStringUtils.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.okhttp.utils;
  * #%L
  * HAPI FHIR OkHttp Client
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/client/JaxRsHttpClient.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.client;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/client/JaxRsHttpRequest.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.client;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/client/JaxRsHttpResponse.java

@@ -6,7 +6,7 @@ import java.io.IOException;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/client/JaxRsRestfulClientFactory.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.client;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/server/AbstractJaxRsBundleProvider.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.server;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/server/AbstractJaxRsConformanceProvider.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.server;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/server/AbstractJaxRsPageProvider.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.server;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/server/AbstractJaxRsProvider.java

@@ -5,7 +5,7 @@ import java.io.IOException;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/server/AbstractJaxRsResourceProvider.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.server;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/server/interceptor/JaxRsExceptionInterceptor.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.server.interceptor;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/server/interceptor/JaxRsResponseException.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.server.interceptor;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/server/util/JaxRsMethodBindings.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.server.util;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/server/util/JaxRsRequest.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jaxrs.server.util;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jaxrsserver-base/src/main/java/ca/uhn/fhir/jaxrs/server/util/JaxRsResponse.java

@@ -6,7 +6,7 @@ import static org.apache.commons.lang3.StringUtils.isNotBlank;
  * #%L
  * HAPI FHIR JAX-RS Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/BaseConfig.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.config;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/BaseDstu1Config.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.config;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/BaseDstu2Config.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.config;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/WebsocketDstu2Config.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.config;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/WebsocketDstu2DispatcherConfig.java

@@ -1,5 +1,25 @@
 package ca.uhn.fhir.jpa.config;
 
+/*
+ * #%L
+ * HAPI FHIR JPA Server
+ * %%
+ * Copyright (C) 2014 - 2017 University Health Network
+ * %%
+ * Licensed under the Apache License, Version 2.0 (the "License");
+ * you may not use this file except in compliance with the License.
+ * You may obtain a copy of the License at
+ * 
+ *      http://www.apache.org/licenses/LICENSE-2.0
+ * 
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS,
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ * See the License for the specific language governing permissions and
+ * limitations under the License.
+ * #L%
+ */
+
 import javax.annotation.PostConstruct;
 
 import org.springframework.beans.factory.annotation.Autowired;

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/dstu3/BaseDstu3Config.java

@@ -8,7 +8,7 @@ import org.hl7.fhir.dstu3.validation.IResourceValidator.BestPracticeWarningLevel
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/dstu3/WebsocketDstu3Config.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.config.dstu3;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/dstu3/WebsocketDstu3DispatcherConfig.java

@@ -1,5 +1,25 @@
 package ca.uhn.fhir.jpa.config.dstu3;
 
+/*
+ * #%L
+ * HAPI FHIR JPA Server
+ * %%
+ * Copyright (C) 2014 - 2017 University Health Network
+ * %%
+ * Licensed under the Apache License, Version 2.0 (the "License");
+ * you may not use this file except in compliance with the License.
+ * You may obtain a copy of the License at
+ * 
+ *      http://www.apache.org/licenses/LICENSE-2.0
+ * 
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS,
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ * See the License for the specific language governing permissions and
+ * limitations under the License.
+ * #L%
+ */
+
 import javax.annotation.PostConstruct;
 
 import org.hl7.fhir.dstu3.model.Subscription;

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/BaseHapiFhirDao.java

@@ -5,7 +5,7 @@ import static org.apache.commons.lang3.StringUtils.defaultIfBlank;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.
@@ -667,12 +667,16 @@ public abstract class BaseHapiFhirDao<T extends IBaseResource> implements IDao {
 	}
 
 	protected void markRequestAsProcessingSubRequest(ServletRequestDetails theRequestDetails) {
+		if (theRequestDetails != null) {
 			theRequestDetails.getUserData().put(PROCESSING_SUB_REQUEST, Boolean.TRUE);
 		}
+	}
 
 	protected void clearRequestAsProcessingSubRequest(ServletRequestDetails theRequestDetails) {
+		if (theRequestDetails != null) {
 			theRequestDetails.getUserData().remove(PROCESSING_SUB_REQUEST);
 		}
+	}
 	
 	public String parseContentTextIntoWords(IBaseResource theResource) {
 		StringBuilder retVal = new StringBuilder();
@@ -1427,6 +1431,8 @@ public abstract class BaseHapiFhirDao<T extends IBaseResource> implements IDao {
 			for (ResourceLink next : links) {
 				myEntityManager.persist(next);
 			}
+			// make sure links are indexed
+			theEntity.setResourceLinks(links);
 
 			theEntity.toString();
 			

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/BaseHapiFhirResourceDao.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/BaseHapiFhirSystemDao.java

@@ -6,7 +6,7 @@ import static org.apache.commons.lang3.StringUtils.isBlank;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/BaseSearchParamExtractor.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/DaoConfig.java

@@ -10,7 +10,7 @@ import org.apache.commons.lang3.time.DateUtils;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.
@@ -53,8 +53,6 @@ public class DaoConfig {
 	// ***
 	private long myExpireSearchResultsAfterMillis = DateUtils.MILLIS_PER_HOUR;
 	
-	private int myHardSearchLimit = 1000;
-	
 	private int myHardTagListLimit = 1000;
 	
 	private int myIncludeLimit = 2000;
@@ -325,8 +323,17 @@ public class DaoConfig {
 		myExpireSearchResultsAfterMillis = theExpireSearchResultsAfterMillis;
 	}
 
-	public void setHardSearchLimit(int theHardSearchLimit) {
+	/**
-		myHardSearchLimit = theHardSearchLimit;
+	 * Do not call this method, it exists only for legacy reasons. It
+	 * will be removed in a future version. Configure the page size on your
+	 * paging provider instead.
+	 * 
+	 * @deprecated This method does not do anything. Configure the page size on your
+	 * paging provider instead. Deprecated in HAPI FHIR 2.3 (Jan 2017) 
+	 */
+	@Deprecated
+	public void setHardSearchLimit(@SuppressWarnings("unused") int theHardSearchLimit) {
+		// this method does nothing
 	}
 
 	/**

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/DaoMethodOutcome.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoBundleDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoDstu1.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoDstu2.java

@@ -8,7 +8,7 @@ import java.util.ArrayList;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoEncounterDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoPatientDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoQuestionnaireResponseDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoSearchParameterDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoSubscriptionDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoValueSetDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirSystemDaoDstu1.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.
@@ -164,7 +164,7 @@ public class FhirSystemDaoDstu1 extends BaseHapiFhirSystemDao<List<IResource>, M
 				entity = toEntity(nextResource);
 				entity.setUpdated(updateTime);
 				entity.setPublished(updateTime);
-				if (nextId.isEmpty() == false && "cid:".equals(nextId.getBaseUrl())) {
+				if (nextId.getIdPart() != null && nextId.getIdPart().startsWith("cid:")) {
 					ourLog.debug("Resource in transaction has ID[{}], will replace with server assigned ID", nextId.getIdPart());
 				} else if (nextResouceOperationIn == BundleEntryTransactionMethodEnum.POST) {
 					if (nextId.isEmpty() == false) {
@@ -282,7 +282,7 @@ public class FhirSystemDaoDstu1 extends BaseHapiFhirSystemDao<List<IResource>, M
 	}
 
 	private static boolean isPlaceholder(IdDt theId) {
-		if ("cid:".equals(theId.getBaseUrl())) {
+		if (theId.getIdPart() != null && theId.getIdPart().startsWith("cid:")) {
 			return true;
 		}
 		return false;

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirSystemDaoDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.
@@ -40,7 +40,6 @@ import java.util.Set;
 import javax.persistence.TypedQuery;
 
 import org.apache.http.NameValuePair;
-import org.hl7.fhir.dstu3.model.Bundle.BundleEntryComponent;
 import org.hl7.fhir.instance.model.api.IBaseResource;
 import org.hl7.fhir.instance.model.api.IIdType;
 import org.springframework.beans.factory.annotation.Autowired;
@@ -634,9 +633,11 @@ public class FhirSystemDaoDstu2 extends BaseHapiFhirSystemDao<Bundle, MetaDt> {
 	}
 
 	private static boolean isPlaceholder(IdDt theId) {
-		if ("urn:oid:".equals(theId.getBaseUrl()) || "urn:uuid:".equals(theId.getBaseUrl())) {
+		if (theId.getValue() != null) {
+			if (theId.getValue().startsWith("urn:oid:") || theId.getValue().startsWith("urn:uuid:")) {
 				return true;
 			}
+		}
 		return false;
 	}
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FulltextSearchSvcImpl.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/GZipUtil.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IDao.java

@@ -16,7 +16,7 @@ import ca.uhn.fhir.model.api.ResourceMetadataKeyEnum.ResourceMetadataKeySupporti
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IFhirResourceDao.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IFhirResourceDaoCodeSystem.java

@@ -6,7 +6,7 @@ import java.util.List;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IFhirResourceDaoEncounter.java

@@ -6,7 +6,7 @@ import javax.servlet.http.HttpServletRequest;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IFhirResourceDaoPatient.java

@@ -6,7 +6,7 @@ import javax.servlet.http.HttpServletRequest;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IFhirResourceDaoSearchParameter.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IFhirResourceDaoSubscription.java

@@ -6,7 +6,7 @@ import java.util.List;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IFhirResourceDaoValueSet.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IFhirSystemDao.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IFulltextSearchSvc.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IJpaValidationSupportDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/ISearchParamExtractor.java

@@ -6,7 +6,7 @@ import java.util.List;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IndexedParam.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/JpaValidationSupportDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/PathAndRef.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/SearchBuilder.java

@@ -6,7 +6,7 @@ import static org.apache.commons.lang3.StringUtils.defaultString;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/SearchParamExtractorDstu1.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/SearchParamExtractorDstu2.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/SearchParameterMap.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/IForcedIdDao.java

@@ -6,7 +6,7 @@ import java.util.List;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/IResourceHistoryTableDao.java

@@ -8,7 +8,7 @@ import javax.persistence.TemporalType;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/IResourceIndexedSearchParamUriDao.java

@@ -6,7 +6,7 @@ import java.util.Collection;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/IResourceTableDao.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.data;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/ISearchDao.java

@@ -7,7 +7,7 @@ import java.util.Date;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/ISearchIncludeDao.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.data;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/ISearchResultDao.java

@@ -9,7 +9,7 @@ import org.springframework.data.domain.Pageable;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/ISubscriptionFlaggedResourceDataDao.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.data;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/ISubscriptionTableDao.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.data;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/ITermCodeSystemDao.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.data;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/ITermCodeSystemVersionDao.java

@@ -6,7 +6,7 @@ import java.util.List;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/ITermConceptDao.java

@@ -9,7 +9,7 @@ import org.springframework.data.domain.Pageable;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/data/ITermConceptParentChildLinkDao.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.data;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/CustomObservationDstu3.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.dstu3;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoBundleDstu3.java

@@ -7,7 +7,7 @@ import org.hl7.fhir.dstu3.model.Bundle.BundleType;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoCodeSystemDstu3.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.dstu3;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.
@@ -119,21 +119,12 @@ public class FhirResourceDaoCodeSystemDstu3 extends FhirResourceDaoDstu3<CodeSys
 			system = theSystem.getValue();
 		}
 
-		// CodeValidationResult validateOutcome = myJpaValidationSupport.validateCode(getContext(), system, code, null);
+		ourLog.info("Looking up {} / {}", system, code);
-		//
-		// LookupCodeResult result = new LookupCodeResult();
-		// result.setSearchedForCode(code);
-		// result.setSearchedForSystem(system);
-		// result.setFound(false);
-		// if (validateOutcome.isOk()) {
-		// result.setFound(true);
-		// result.setCodeIsAbstract(validateOutcome.asConceptDefinition().getAbstract());
-		// result.setCodeDisplay(validateOutcome.asConceptDefinition().getDisplay());
-		// }
-		// return result;
 		
 		if (myValidationSupport.isCodeSystemSupported(getContext(), system)) {
 
+			ourLog.info("Code system {} is supported", system);
+
 			CodeValidationResult result = myValidationSupport.validateCode(getContext(), system, code, null);
 			if (result != null) {
 				if (result.isOk()) {

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.dstu3;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoEncounterDstu3.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.dstu3;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoPatientDstu3.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.dstu3;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoQuestionnaireResponseDstu3.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.dstu3;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoSearchParameterDstu3.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.dstu3;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoSubscriptionDstu3.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.dstu3;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoValueSetDstu3.java

@@ -4,7 +4,7 @@ package ca.uhn.fhir.jpa.dao.dstu3;
  * #%L
  * HAPI FHIR JPA Server
  * %%
- * Copyright (C) 2014 - 2016 University Health Network
+ * Copyright (C) 2014 - 2017 University Health Network
  * %%
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.