JPA server is now able to handle placeholder IDs (e.g. urn:uuid:00....000) being used in Bundle.entry.request.url as a part of the conditional URL within transactions.

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirSystemDaoDstu3.java

@@ -63,6 +63,7 @@ import ca.uhn.fhir.util.UrlUtil;
 import ca.uhn.fhir.util.UrlUtil.UrlParts;
 
 public class FhirSystemDaoDstu3 extends BaseHapiFhirSystemDao<Bundle, Meta> {
+
 	private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(FhirSystemDaoDstu3.class);
 
 	@Autowired
@@ -136,115 +137,6 @@ public class FhirSystemDaoDstu3 extends BaseHapiFhirSystemDao<Bundle, Meta> {
 		return resp;
 	}
 
-	private String extractTransactionUrlOrThrowException(BundleEntryComponent nextEntry, HTTPVerb verb) {
-		String url = nextEntry.getRequest().getUrl();
-		if (isBlank(url)) {
-			throw new InvalidRequestException(getContext().getLocalizer().getMessage(BaseHapiFhirSystemDao.class, "transactionMissingUrl", verb.name()));
-		}
-		return url;
-	}
-
-	/**
-	 * This method is called for nested bundles (e.g. if we received a transaction with an entry that
-	 * was a GET search, this method is called on the bundle for the search result, that will be placed in the
-	 * outer bundle). This method applies the _summary and _content parameters to the output of
-	 * that bundle.
-	 * 
-	 * TODO: This isn't the most efficient way of doing this.. hopefully we can come up with something better in the future.
-	 */
-	private IBaseResource filterNestedBundle(RequestDetails theRequestDetails, IBaseResource theResource) {
-		IParser p = getContext().newJsonParser();
-		RestfulServerUtils.configureResponseParser(theRequestDetails, p);
-		return p.parseResource(theResource.getClass(), p.encodeResourceToString(theResource));
-	}
-
-	private IFhirResourceDao<?> getDaoOrThrowException(Class<? extends IBaseResource> theClass) {
-		IFhirResourceDao<? extends IBaseResource> retVal = getDao(theClass);
-		if (retVal == null) {
-			throw new InvalidRequestException("Unable to process request, this server does not know how to handle resources of type " + getContext().getResourceDefinition(theClass).getName());
-		}
-		return retVal;
-	}
-
-	@Override
-	public Meta metaGetOperation(RequestDetails theRequestDetails) {
-		// Notify interceptors
-		ActionRequestDetails requestDetails = new ActionRequestDetails(theRequestDetails);
-		notifyInterceptors(RestOperationTypeEnum.META, requestDetails);
-
-		String sql = "SELECT d FROM TagDefinition d WHERE d.myId IN (SELECT DISTINCT t.myTagId FROM ResourceTag t)";
-		TypedQuery<TagDefinition> q = myEntityManager.createQuery(sql, TagDefinition.class);
-		List<TagDefinition> tagDefinitions = q.getResultList();
-
-		Meta retVal = toMeta(tagDefinitions);
-
-		return retVal;
-	}
-
-	protected Meta toMeta(Collection<TagDefinition> tagDefinitions) {
-		Meta retVal = new Meta();
-		for (TagDefinition next : tagDefinitions) {
-			switch (next.getTagType()) {
-			case PROFILE:
-				retVal.addProfile(next.getCode());
-				break;
-			case SECURITY_LABEL:
-				retVal.addSecurity().setSystem(next.getSystem()).setCode(next.getCode()).setDisplay(next.getDisplay());
-				break;
-			case TAG:
-				retVal.addTag().setSystem(next.getSystem()).setCode(next.getCode()).setDisplay(next.getDisplay());
-				break;
-			}
-		}
-		return retVal;
-	}
-
-	private ca.uhn.fhir.jpa.dao.IFhirResourceDao<? extends IBaseResource> toDao(UrlParts theParts, String theVerb, String theUrl) {
-		RuntimeResourceDefinition resType;
-		try {
-			resType = getContext().getResourceDefinition(theParts.getResourceType());
-		} catch (DataFormatException e) {
-			String msg = getContext().getLocalizer().getMessage(BaseHapiFhirSystemDao.class, "transactionInvalidUrl", theVerb, theUrl);
-			throw new InvalidRequestException(msg);
-		}
-		IFhirResourceDao<? extends IBaseResource> dao = null;
-		if (resType != null) {
-			dao = getDao(resType.getImplementingClass());
-		}
-		if (dao == null) {
-			String msg = getContext().getLocalizer().getMessage(BaseHapiFhirSystemDao.class, "transactionInvalidUrl", theVerb, theUrl);
-			throw new InvalidRequestException(msg);
-		}
-
-		// if (theParts.getResourceId() == null && theParts.getParams() == null) {
-		// String msg = getContext().getLocalizer().getMessage(BaseHapiFhirSystemDao.class, "transactionInvalidUrl", theVerb, theUrl);
-		// throw new InvalidRequestException(msg);
-		// }
-
-		return dao;
-	}
-
-	@Transactional(propagation = Propagation.REQUIRED)
-	@Override
-	public Bundle transaction(RequestDetails theRequestDetails, Bundle theRequest) {
-		if (theRequestDetails != null) {
-			ActionRequestDetails requestDetails = new ActionRequestDetails(theRequestDetails, theRequest, "Bundle", null);
-			notifyInterceptors(RestOperationTypeEnum.TRANSACTION, requestDetails);
-		}
-
-		String actionName = "Transaction";
-		return transaction((ServletRequestDetails) theRequestDetails, theRequest, actionName);
-	}
-
-	private Bundle transaction(ServletRequestDetails theRequestDetails, Bundle theRequest, String theActionName) {
-		super.markRequestAsProcessingSubRequest(theRequestDetails);
-		try {
-			return doTransaction(theRequestDetails, theRequest, theActionName);
-		} finally {
-			super.clearRequestAsProcessingSubRequest(theRequestDetails);
-		}
-	}
-
 	@SuppressWarnings("unchecked")
 	private Bundle doTransaction(ServletRequestDetails theRequestDetails, Bundle theRequest, String theActionName) {
 		BundleType transactionType = theRequest.getTypeElement().getValue();
@@ -299,7 +191,6 @@ public class FhirSystemDaoDstu3 extends BaseHapiFhirSystemDao<Bundle, Meta> {
 				getEntries.add(theRequest.getEntry().get(i));
 			}
 		}
-		Collections.sort(theRequest.getEntry(), new TransactionSorter());
 
 		Set<String> deletedResources = new HashSet<String>();
 		List<DeleteConflict> deleteConflicts = new ArrayList<DeleteConflict>();
@@ -307,17 +198,32 @@ public class FhirSystemDaoDstu3 extends BaseHapiFhirSystemDao<Bundle, Meta> {
 		Set<ResourceTable> nonUpdatedEntities = new HashSet<ResourceTable>();
 		Map<String, Class<? extends IBaseResource>> conditionalRequestUrls = new HashMap<String, Class<? extends IBaseResource>>();
 
+		List<BundleEntryComponent> entries = new ArrayList<BundleEntryComponent>(theRequest.getEntry());
+
+		/*
+		 * See FhirSystemDaoDstu3Test#testTransactionWithPlaceholderIdInMatchUrl
+		 * Basically if the resource has a match URL that references a placeholder,
+		 * we try to handle the resource with the placeholder first.
+		 */
+		Set<String> placeholderIds = new HashSet<String>();
+		for (BundleEntryComponent nextEntry : entries) {
+			if (isNotBlank(nextEntry.getFullUrl()) && nextEntry.getFullUrl().startsWith(IdType.URN_PREFIX)) {
+				placeholderIds.add(nextEntry.getFullUrl());
+			}
+		}
+		Collections.sort(entries, new TransactionSorter(placeholderIds));
+
 		/*
 		 * Loop through the request and process any entries of type
 		 * PUT, POST or DELETE
 		 */
-		for (int i = 0; i < theRequest.getEntry().size(); i++) {
+		for (int i = 0; i < entries.size(); i++) {
 
 			if (i % 100 == 0) {
-				ourLog.info("Processed {} non-GET entries out of {}", i, theRequest.getEntry().size());
+				ourLog.info("Processed {} non-GET entries out of {}", i, entries.size());
 			}
 
-			BundleEntryComponent nextReqEntry = theRequest.getEntry().get(i);
+			BundleEntryComponent nextReqEntry = entries.get(i);
 			Resource res = nextReqEntry.getResource();
 			IdType nextResourceId = null;
 			if (res != null) {
@@ -368,6 +274,7 @@ public class FhirSystemDaoDstu3 extends BaseHapiFhirSystemDao<Bundle, Meta> {
 				res.setId((String) null);
 				DaoMethodOutcome outcome;
 				String matchUrl = nextReqEntry.getRequest().getIfNoneExist();
+				matchUrl = performIdSubstitutionsInMatchUrl(idSubstitutions, matchUrl);
 				outcome = resourceDao.create(res, matchUrl, false, theRequestDetails);
 				if (nextResourceId != null) {
 					handleTransactionCreateOrUpdateOutcome(idSubstitutions, idToPersistedOutcome, nextResourceId, outcome, nextRespEntry, resourceType, res, theRequestDetails);
@@ -399,7 +306,9 @@ public class FhirSystemDaoDstu3 extends BaseHapiFhirSystemDao<Bundle, Meta> {
 						}
 					}
 				} else {
-					DeleteMethodOutcome deleteOutcome = dao.deleteByUrl(parts.getResourceType() + '?' + parts.getParams(), deleteConflicts, theRequestDetails);
+					String matchUrl = parts.getResourceType() + '?' + parts.getParams();
+					matchUrl = performIdSubstitutionsInMatchUrl(idSubstitutions, matchUrl);
+					DeleteMethodOutcome deleteOutcome = dao.deleteByUrl(matchUrl, deleteConflicts, theRequestDetails);
 					List<ResourceTable> allDeleted = deleteOutcome.getDeletedEntities();
 					for (ResourceTable deleted : allDeleted) {
 						deletedResources.add(deleted.getIdDt().toUnqualifiedVersionless().getValueAsString());
@@ -430,6 +339,7 @@ public class FhirSystemDaoDstu3 extends BaseHapiFhirSystemDao<Bundle, Meta> {
 				} else {
 					res.setId((String) null);
 					String matchUrl = parts.getResourceType() + '?' + parts.getParams();
+					matchUrl = performIdSubstitutionsInMatchUrl(idSubstitutions, matchUrl);
 					outcome = resourceDao.update(res, matchUrl, false, theRequestDetails);
 					if (Boolean.TRUE.equals(outcome.getCreated())) {
 						conditionalRequestUrls.put(matchUrl, res.getClass());
@@ -607,6 +517,131 @@ public class FhirSystemDaoDstu3 extends BaseHapiFhirSystemDao<Bundle, Meta> {
 		return response;
 	}
 
+	private String extractTransactionUrlOrThrowException(BundleEntryComponent nextEntry, HTTPVerb verb) {
+		String url = nextEntry.getRequest().getUrl();
+		if (isBlank(url)) {
+			throw new InvalidRequestException(getContext().getLocalizer().getMessage(BaseHapiFhirSystemDao.class, "transactionMissingUrl", verb.name()));
+		}
+		return url;
+	}
+
+	/**
+	 * This method is called for nested bundles (e.g. if we received a transaction with an entry that
+	 * was a GET search, this method is called on the bundle for the search result, that will be placed in the
+	 * outer bundle). This method applies the _summary and _content parameters to the output of
+	 * that bundle.
+	 * 
+	 * TODO: This isn't the most efficient way of doing this.. hopefully we can come up with something better in the future.
+	 */
+	private IBaseResource filterNestedBundle(RequestDetails theRequestDetails, IBaseResource theResource) {
+		IParser p = getContext().newJsonParser();
+		RestfulServerUtils.configureResponseParser(theRequestDetails, p);
+		return p.parseResource(theResource.getClass(), p.encodeResourceToString(theResource));
+	}
+
+	private IFhirResourceDao<?> getDaoOrThrowException(Class<? extends IBaseResource> theClass) {
+		IFhirResourceDao<? extends IBaseResource> retVal = getDao(theClass);
+		if (retVal == null) {
+			throw new InvalidRequestException("Unable to process request, this server does not know how to handle resources of type " + getContext().getResourceDefinition(theClass).getName());
+		}
+		return retVal;
+	}
+
+	@Override
+	public Meta metaGetOperation(RequestDetails theRequestDetails) {
+		// Notify interceptors
+		ActionRequestDetails requestDetails = new ActionRequestDetails(theRequestDetails);
+		notifyInterceptors(RestOperationTypeEnum.META, requestDetails);
+
+		String sql = "SELECT d FROM TagDefinition d WHERE d.myId IN (SELECT DISTINCT t.myTagId FROM ResourceTag t)";
+		TypedQuery<TagDefinition> q = myEntityManager.createQuery(sql, TagDefinition.class);
+		List<TagDefinition> tagDefinitions = q.getResultList();
+
+		Meta retVal = toMeta(tagDefinitions);
+
+		return retVal;
+	}
+
+	private String performIdSubstitutionsInMatchUrl(Map<IdType, IdType> theIdSubstitutions, String theMatchUrl) {
+		String matchUrl = theMatchUrl;
+		if (isNotBlank(matchUrl)) {
+			for (Entry<IdType, IdType> nextSubstitutionEntry : theIdSubstitutions.entrySet()) {
+				IdType nextTemporaryId = nextSubstitutionEntry.getKey();
+				IdType nextReplacementId = nextSubstitutionEntry.getValue();
+				String nextTemporaryIdPart = nextTemporaryId.getIdPart();
+				String nextReplacementIdPart = nextReplacementId.getValueAsString();
+				if (nextTemporaryId.isUrn() && nextTemporaryIdPart.length() > IdType.URN_PREFIX.length()) {
+					matchUrl = matchUrl.replace(nextTemporaryIdPart, nextReplacementIdPart);
+				}
+			}
+		}
+		return matchUrl;
+	}
+
+	private ca.uhn.fhir.jpa.dao.IFhirResourceDao<? extends IBaseResource> toDao(UrlParts theParts, String theVerb, String theUrl) {
+		RuntimeResourceDefinition resType;
+		try {
+			resType = getContext().getResourceDefinition(theParts.getResourceType());
+		} catch (DataFormatException e) {
+			String msg = getContext().getLocalizer().getMessage(BaseHapiFhirSystemDao.class, "transactionInvalidUrl", theVerb, theUrl);
+			throw new InvalidRequestException(msg);
+		}
+		IFhirResourceDao<? extends IBaseResource> dao = null;
+		if (resType != null) {
+			dao = getDao(resType.getImplementingClass());
+		}
+		if (dao == null) {
+			String msg = getContext().getLocalizer().getMessage(BaseHapiFhirSystemDao.class, "transactionInvalidUrl", theVerb, theUrl);
+			throw new InvalidRequestException(msg);
+		}
+
+		// if (theParts.getResourceId() == null && theParts.getParams() == null) {
+		// String msg = getContext().getLocalizer().getMessage(BaseHapiFhirSystemDao.class, "transactionInvalidUrl", theVerb, theUrl);
+		// throw new InvalidRequestException(msg);
+		// }
+
+		return dao;
+	}
+
+	protected Meta toMeta(Collection<TagDefinition> tagDefinitions) {
+		Meta retVal = new Meta();
+		for (TagDefinition next : tagDefinitions) {
+			switch (next.getTagType()) {
+			case PROFILE:
+				retVal.addProfile(next.getCode());
+				break;
+			case SECURITY_LABEL:
+				retVal.addSecurity().setSystem(next.getSystem()).setCode(next.getCode()).setDisplay(next.getDisplay());
+				break;
+			case TAG:
+				retVal.addTag().setSystem(next.getSystem()).setCode(next.getCode()).setDisplay(next.getDisplay());
+				break;
+			}
+		}
+		return retVal;
+	}
+
+	@Transactional(propagation = Propagation.REQUIRED)
+	@Override
+	public Bundle transaction(RequestDetails theRequestDetails, Bundle theRequest) {
+		if (theRequestDetails != null) {
+			ActionRequestDetails requestDetails = new ActionRequestDetails(theRequestDetails, theRequest, "Bundle", null);
+			notifyInterceptors(RestOperationTypeEnum.TRANSACTION, requestDetails);
+		}
+
+		String actionName = "Transaction";
+		return transaction((ServletRequestDetails) theRequestDetails, theRequest, actionName);
+	}
+
+	private Bundle transaction(ServletRequestDetails theRequestDetails, Bundle theRequest, String theActionName) {
+		super.markRequestAsProcessingSubRequest(theRequestDetails);
+		try {
+			return doTransaction(theRequestDetails, theRequest, theActionName);
+		} finally {
+			super.clearRequestAsProcessingSubRequest(theRequestDetails);
+		}
+	}
+
 	private static void handleTransactionCreateOrUpdateOutcome(Map<IdType, IdType> idSubstitutions, Map<IdType, DaoMethodOutcome> idToPersistedOutcome, IdType nextResourceId, DaoMethodOutcome outcome,
 			BundleEntryComponent newEntry, String theResourceType, IBaseResource theRes, ServletRequestDetails theRequestDetails) {
 		IdType newId = (IdType) outcome.getId().toUnqualifiedVersionless();
@@ -655,7 +690,6 @@ public class FhirSystemDaoDstu3 extends BaseHapiFhirSystemDao<Bundle, Meta> {
 		return Integer.toString(theStatusCode) + " " + defaultString(Constants.HTTP_STATUS_NAMES.get(theStatusCode));
 	}
 
-	//@formatter:off
 	/**
 	 * Transaction Order, per the spec:
 	 * 
@@ -664,37 +698,94 @@ public class FhirSystemDaoDstu3 extends BaseHapiFhirSystemDao<Bundle, Meta> {
 	 * Process any PUT interactions
 	 * Process any GET interactions
 	 */
-	//@formatter:off
 	public class TransactionSorter implements Comparator<BundleEntryComponent> {
 
+		private Set<String> myPlaceholderIds;
+
+		public TransactionSorter(Set<String> thePlaceholderIds) {
+			myPlaceholderIds = thePlaceholderIds;
+		}
+
 		@Override
-		public int compare(BundleEntryComponent theO1, BundleEntryComponent theO2) {			
+		public int compare(BundleEntryComponent theO1, BundleEntryComponent theO2) {
 			int o1 = toOrder(theO1);
 			int o2 = toOrder(theO2);
 
+			if (o1 == o2) {
+				String matchUrl1 = toMatchUrl(theO1);
+				String matchUrl2 = toMatchUrl(theO2);
+				if (isBlank(matchUrl1) && isBlank(matchUrl2)) {
+					return 0;
+				}
+				if (isBlank(matchUrl1)) {
+					return -1;
+				}
+				if (isBlank(matchUrl2)) {
+					return 1;
+				}
+
+				boolean match1containsSubstitutions = false;
+				boolean match2containsSubstitutions = false;
+				for (String nextPlaceholder : myPlaceholderIds) {
+					if (matchUrl1.contains(nextPlaceholder)) {
+						match1containsSubstitutions = true;
+					}
+					if (matchUrl2.contains(nextPlaceholder)) {
+						match2containsSubstitutions = true;
+					}
+				}
+
+				if (match1containsSubstitutions && match2containsSubstitutions) {
+					return 0;
+				}
+				if (!match1containsSubstitutions && !match2containsSubstitutions) {
+					return 0;
+				}
+				if (match1containsSubstitutions) {
+					return 1;
+				} else {
+					return -1;
+				}
+			}
+
 			return o1 - o2;
 		}
 
+		private String toMatchUrl(BundleEntryComponent theEntry) {
+			HTTPVerb verb = theEntry.getRequest().getMethod();
+			if (verb == HTTPVerb.POST) {
+				return theEntry.getRequest().getIfNoneExist();
+			}
+			if (verb == HTTPVerb.PUT || verb == HTTPVerb.DELETE) {
+				String url = extractTransactionUrlOrThrowException(theEntry, verb);
+				UrlParts parts = UrlUtil.parseUrl(url);
+				if (isBlank(parts.getResourceId())) {
+					return parts.getResourceType() + '?' + parts.getParams();
+				}
+			}
+			return null;
+		}
+
 		private int toOrder(BundleEntryComponent theO1) {
 			int o1 = 0;
 			if (theO1.getRequest().getMethodElement().getValue() != null) {
-			switch (theO1.getRequest().getMethodElement().getValue()) {
+				switch (theO1.getRequest().getMethodElement().getValue()) {
-			case DELETE:
+				case DELETE:
-				o1 = 1;
+					o1 = 1;
-				break;
+					break;
-			case POST:
+				case POST:
-				o1 = 2;
+					o1 = 2;
-				break;
+					break;
-			case PUT:
+				case PUT:
-				o1 = 3;
+					o1 = 3;
-				break;
+					break;
-			case GET:
+				case GET:
-				o1 = 4;
+					o1 = 4;
-				break;
+					break;
-			case NULL:
+				case NULL:
-				o1 = 0;
+					o1 = 0;
-				break;
+					break;
-			}
+				}
 			}
 			return o1;
 		}

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirSystemDaoDstu3Test.java

@@ -7,12 +7,21 @@ import static org.mockito.Mockito.times;
 import static org.mockito.Mockito.verify;
 
 import java.io.*;
+import java.io.IOException;
+import java.io.InputStream;
+import java.io.UnsupportedEncodingException;
+import java.math.BigDecimal;
 import java.nio.charset.StandardCharsets;
 import java.util.*;
 
 import org.apache.commons.io.IOUtils;
 import org.hl7.fhir.dstu3.model.*;
 import org.hl7.fhir.dstu3.model.Bundle.*;
+import org.hl7.fhir.dstu3.model.Bundle.BundleEntryComponent;
+import org.hl7.fhir.dstu3.model.Bundle.BundleEntryRequestComponent;
+import org.hl7.fhir.dstu3.model.Bundle.BundleEntryResponseComponent;
+import org.hl7.fhir.dstu3.model.Bundle.BundleType;
+import org.hl7.fhir.dstu3.model.Bundle.HTTPVerb;
 import org.hl7.fhir.dstu3.model.Observation.ObservationStatus;
 import org.hl7.fhir.dstu3.model.OperationOutcome.IssueSeverity;
 import org.hl7.fhir.instance.model.api.IAnyResource;
@@ -51,6 +60,100 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 		myDaoConfig.setReuseCachedSearchResultsForMillis(null);
 	}
 
+	private Bundle createInputTransactionWithPlaceholderIdInMatchUrl(HTTPVerb theVerb) {
+
+		Patient pat = new Patient();
+		pat
+				.addIdentifier()
+				.setSystem("http://acme.org")
+				.setValue("ID1");
+
+		Observation obs = new Observation();
+		obs
+				.getCode()
+				.addCoding()
+				.setSystem("http://loinc.org")
+				.setCode("29463-7");
+		obs.setEffective(new DateTimeType("2011-09-03T11:13:00-04:00"));
+		obs.setValue(new Quantity()
+				.setValue(new BigDecimal("123.4"))
+				.setCode("kg")
+				.setSystem("http://unitsofmeasure.org")
+				.setUnit("kg"));
+		obs.getSubject().setReference("urn:uuid:0001");
+
+		Observation obs2 = new Observation();
+		obs2
+				.getCode()
+				.addCoding()
+				.setSystem("http://loinc.org")
+				.setCode("29463-7");
+		obs2.setEffective(new DateTimeType("2017-09-03T11:13:00-04:00"));
+		obs2.setValue(new Quantity()
+				.setValue(new BigDecimal("123.4"))
+				.setCode("kg")
+				.setSystem("http://unitsofmeasure.org")
+				.setUnit("kg"));
+		obs2.getSubject().setReference("urn:uuid:0001");
+
+		/*
+		 * Put one observation before the patient it references, and
+		 * one after it just to make sure that order doesn't matter
+		 */
+		Bundle input = new Bundle();
+		input.setType(BundleType.TRANSACTION);
+
+		if (theVerb == HTTPVerb.PUT) {
+			input
+					.addEntry()
+					.setFullUrl("urn:uuid:0002")
+					.setResource(obs)
+					.getRequest()
+					.setMethod(HTTPVerb.PUT)
+					.setUrl("Observation?subject=urn:uuid:0001&code=http%3A%2F%2Floinc.org|29463-7&date=2011-09-03T11:13:00-04:00");
+			input
+					.addEntry()
+					.setFullUrl("urn:uuid:0001")
+					.setResource(pat)
+					.getRequest()
+					.setMethod(HTTPVerb.PUT)
+					.setUrl("Patient?identifier=http%3A%2F%2Facme.org|ID1");
+			input
+					.addEntry()
+					.setFullUrl("urn:uuid:0003")
+					.setResource(obs2)
+					.getRequest()
+					.setMethod(HTTPVerb.PUT)
+					.setUrl("Observation?subject=urn:uuid:0001&code=http%3A%2F%2Floinc.org|29463-7&date=2017-09-03T11:13:00-04:00");
+		} else if (theVerb == HTTPVerb.POST) {
+			input
+					.addEntry()
+					.setFullUrl("urn:uuid:0002")
+					.setResource(obs)
+					.getRequest()
+					.setMethod(HTTPVerb.POST)
+					.setUrl("Observation")
+					.setIfNoneExist("Observation?subject=urn:uuid:0001&code=http%3A%2F%2Floinc.org|29463-7&date=2011-09-03T11:13:00-04:00");
+			input
+					.addEntry()
+					.setFullUrl("urn:uuid:0001")
+					.setResource(pat)
+					.getRequest()
+					.setMethod(HTTPVerb.POST)
+					.setUrl("Patient")
+					.setIfNoneExist("Patient?identifier=http%3A%2F%2Facme.org|ID1");
+			input
+					.addEntry()
+					.setFullUrl("urn:uuid:0003")
+					.setResource(obs2)
+					.getRequest()
+					.setMethod(HTTPVerb.POST)
+					.setUrl("Observation")
+					.setIfNoneExist("Observation?subject=urn:uuid:0001&code=http%3A%2F%2Floinc.org|29463-7&date=2017-09-03T11:13:00-04:00");
+		}
+		return input;
+	}
+
 	@SuppressWarnings("unchecked")
 	private <T extends org.hl7.fhir.dstu3.model.Resource> T find(Bundle theBundle, Class<T> theType, int theIndex) {
 		int count = 0;
@@ -200,36 +303,36 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 		rpt = myDiagnosticReportDao.read(rptId);
 		assertThat(rpt.getResult(), empty());
 	}
-	
+
 	@Test
 	public void testMultipleUpdatesWithNoChangesDoesNotResultInAnUpdateForTransaction() {
 		Bundle bundle;
-		
+
 		// First time
 		Patient p = new Patient();
 		p.setActive(true);
 		bundle = new Bundle();
 		bundle.setType(BundleType.TRANSACTION);
 		bundle
-			.addEntry()
+				.addEntry()
-			.setResource(p)
+				.setResource(p)
-			.setFullUrl("Patient/A")
+				.setFullUrl("Patient/A")
-			.getRequest()
+				.getRequest()
 				.setMethod(HTTPVerb.PUT)
 				.setUrl("Patient/A");
 		Bundle resp = mySystemDao.transaction(mySrd, bundle);
 		assertThat(resp.getEntry().get(0).getResponse().getLocation(), endsWith("Patient/A/_history/1"));
-		
+
 		// Second time should not result in an update
 		p = new Patient();
 		p.setActive(true);
 		bundle = new Bundle();
 		bundle.setType(BundleType.TRANSACTION);
 		bundle
-			.addEntry()
+				.addEntry()
-			.setResource(p)
+				.setResource(p)
-			.setFullUrl("Patient/A")
+				.setFullUrl("Patient/A")
-			.getRequest()
+				.getRequest()
 				.setMethod(HTTPVerb.PUT)
 				.setUrl("Patient/A");
 		resp = mySystemDao.transaction(mySrd, bundle);
@@ -241,10 +344,10 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 		bundle = new Bundle();
 		bundle.setType(BundleType.TRANSACTION);
 		bundle
-			.addEntry()
+				.addEntry()
-			.setResource(p)
+				.setResource(p)
-			.setFullUrl("Patient/A")
+				.setFullUrl("Patient/A")
-			.getRequest()
+				.getRequest()
 				.setMethod(HTTPVerb.PUT)
 				.setUrl("Patient/A");
 		resp = mySystemDao.transaction(mySrd, bundle);
@@ -256,13 +359,13 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 			myPatientDao.read(new IdType("Patient/A/_history/2"));
 			fail();
 		} catch (ResourceNotFoundException e) {
-			//good
+			// good
 		}
 		try {
 			myPatientDao.read(new IdType("Patient/A/_history/3"));
 			fail();
 		} catch (ResourceNotFoundException e) {
-			//good
+			// good
 		}
 	}
 
@@ -487,60 +590,6 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 		}
 	}
 
-	@Test
-	public void testTransactionWithReferenceUuid() {
-		Bundle request = new Bundle();
-
-		Patient p = new Patient();
-		p.setActive(true);
-		p.setId(IdType.newRandomUuid());
-		request.addEntry().setResource(p).getRequest().setMethod(HTTPVerb.POST).setUrl(p.getId());
-		
-		Observation o = new Observation();
-		o.getCode().setText("Some Observation");
-		o.getSubject().setReference(p.getId());
-		request.addEntry().setResource(o).getRequest().setMethod(HTTPVerb.POST);
-
-		Bundle resp = mySystemDao.transaction(mySrd, request);
-		ourLog.info(myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(resp));
-		
-		String patientId = new IdType(resp.getEntry().get(0).getResponse().getLocation()).toUnqualifiedVersionless().getValue();
-		assertThat(patientId, startsWith("Patient/"));
-		
-		SearchParameterMap params = new SearchParameterMap();
-		params.setLoadSynchronous(true);
-		params.add("subject", new ReferenceParam(patientId));
-		IBundleProvider found = myObservationDao.search(params);
-		assertEquals(1, found.size().intValue());
-	}
-
-	@Test
-	public void testTransactionWithReferenceResource() {
-		Bundle request = new Bundle();
-
-		Patient p = new Patient();
-		p.setActive(true);
-		p.setId(IdType.newRandomUuid());
-		request.addEntry().setResource(p).getRequest().setMethod(HTTPVerb.POST).setUrl(p.getId());
-		
-		Observation o = new Observation();
-		o.getCode().setText("Some Observation");
-		o.getSubject().setResource(p);
-		request.addEntry().setResource(o).getRequest().setMethod(HTTPVerb.POST);
-
-		Bundle resp = mySystemDao.transaction(mySrd, request);
-		ourLog.info(myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(resp));
-		
-		String patientId = new IdType(resp.getEntry().get(0).getResponse().getLocation()).toUnqualifiedVersionless().getValue();
-		assertThat(patientId, startsWith("Patient/"));
-		
-		SearchParameterMap params = new SearchParameterMap();
-		params.setLoadSynchronous(true);
-		params.add("subject", new ReferenceParam(patientId));
-		IBundleProvider found = myObservationDao.search(params);
-		assertEquals(1, found.size().intValue());
-	}
-
 	@Test
 	public void testTransactionCreateInlineMatchUrlWithOneMatch() {
 		String methodName = "testTransactionCreateInlineMatchUrlWithOneMatch";
@@ -1335,7 +1384,8 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 			mySystemDao.transaction(mySrd, inputBundle);
 			fail();
 		} catch (InvalidRequestException e) {
-			assertEquals("Unable to process Transaction - Request would cause multiple resources to match URL: \"Encounter?identifier=urn:foo|12345\". Does transaction request contain duplicates?", e.getMessage());
+			assertEquals("Unable to process Transaction - Request would cause multiple resources to match URL: \"Encounter?identifier=urn:foo|12345\". Does transaction request contain duplicates?",
+					e.getMessage());
 		}
 	}
 
@@ -1365,9 +1415,10 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 			mySystemDao.transaction(mySrd, inputBundle);
 			fail();
 		} catch (InvalidRequestException e) {
-			assertEquals("Unable to process Transaction - Request would cause multiple resources to match URL: \"Encounter?identifier=urn:foo|12345\". Does transaction request contain duplicates?", e.getMessage());
+			assertEquals("Unable to process Transaction - Request would cause multiple resources to match URL: \"Encounter?identifier=urn:foo|12345\". Does transaction request contain duplicates?",
+					e.getMessage());
 		}
-		
+
 	}
 
 	@Test(expected = InvalidRequestException.class)
@@ -2026,8 +2077,7 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 		ourLog.info(myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(resp));
 
 		assertEquals("201 Created", resp.getEntry().get(0).getResponse().getStatus());
-		
+
-		
 		new TransactionTemplate(myTxManager).execute(new TransactionCallbackWithoutResult() {
 			@Override
 			protected void doInTransactionWithoutResult(TransactionStatus theStatus) {
@@ -2040,7 +2090,7 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 				}
 			}
 		});
-		
+
 	}
 
 	@Test
@@ -2101,6 +2151,66 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 		assertEquals(id0.toUnqualifiedVersionless().getValue(), app2.getParticipant().get(1).getActor().getReference());
 	}
 
+	/*
+	 * Make sure we are able to handle placeholder IDs in match URLs, e.g.
+	 * 
+	 * "request": {
+	 * "method": "PUT",
+	 * "url": "Observation?subject=urn:uuid:8dba64a8-2aca-48fe-8b4e-8c7bf2ab695a&code=http%3A%2F%2Floinc.org|29463-7&date=2011-09-03T11:13:00-04:00"
+	 * }
+	 * </pre>
+	 */
+	@Test
+	public void testTransactionWithPlaceholderIdInMatchUrlPut() {
+
+		Bundle input = createInputTransactionWithPlaceholderIdInMatchUrl(HTTPVerb.PUT);
+		Bundle output = mySystemDao.transaction(null, input);
+
+		assertEquals("201 Created", output.getEntry().get(0).getResponse().getStatus());
+		assertEquals("201 Created", output.getEntry().get(1).getResponse().getStatus());
+		assertEquals("201 Created", output.getEntry().get(2).getResponse().getStatus());
+
+		Bundle input2 = createInputTransactionWithPlaceholderIdInMatchUrl(HTTPVerb.PUT);
+		Bundle output2 = mySystemDao.transaction(null, input2);
+
+		ourLog.info(myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(output2));
+
+		assertEquals("200 OK", output2.getEntry().get(0).getResponse().getStatus());
+		assertEquals("200 OK", output2.getEntry().get(1).getResponse().getStatus());
+		assertEquals("200 OK", output2.getEntry().get(2).getResponse().getStatus());
+
+	}
+
+	/*
+	 * Make sure we are able to handle placeholder IDs in match URLs, e.g.
+	 * 
+	 * "request": {
+	 * "method": "PUT",
+	 * "url": "Observation?subject=urn:uuid:8dba64a8-2aca-48fe-8b4e-8c7bf2ab695a&code=http%3A%2F%2Floinc.org|29463-7&date=2011-09-03T11:13:00-04:00"
+	 * }
+	 * </pre>
+	 */
+	@Test
+	public void testTransactionWithPlaceholderIdInMatchUrlPost() {
+
+		Bundle input = createInputTransactionWithPlaceholderIdInMatchUrl(HTTPVerb.POST);
+		Bundle output = mySystemDao.transaction(null, input);
+
+		assertEquals("201 Created", output.getEntry().get(0).getResponse().getStatus());
+		assertEquals("201 Created", output.getEntry().get(1).getResponse().getStatus());
+		assertEquals("201 Created", output.getEntry().get(2).getResponse().getStatus());
+
+		Bundle input2 = createInputTransactionWithPlaceholderIdInMatchUrl(HTTPVerb.POST);
+		Bundle output2 = mySystemDao.transaction(null, input2);
+
+		ourLog.info(myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(output2));
+
+		assertEquals("200 OK", output2.getEntry().get(0).getResponse().getStatus());
+		assertEquals("200 OK", output2.getEntry().get(1).getResponse().getStatus());
+		assertEquals("200 OK", output2.getEntry().get(2).getResponse().getStatus());
+
+	}
+
 	/**
 	 * Per a message on the mailing list
 	 */
@@ -2137,6 +2247,86 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 		assertEquals("Joshua", patient.getNameFirstRep().getGivenAsSingleString());
 	}
 
+	@Test
+	public void testTransactionWithReferenceResource() {
+		Bundle request = new Bundle();
+
+		Patient p = new Patient();
+		p.setActive(true);
+		p.setId(IdType.newRandomUuid());
+		request.addEntry().setResource(p).getRequest().setMethod(HTTPVerb.POST).setUrl(p.getId());
+
+		Observation o = new Observation();
+		o.getCode().setText("Some Observation");
+		o.getSubject().setResource(p);
+		request.addEntry().setResource(o).getRequest().setMethod(HTTPVerb.POST);
+
+		Bundle resp = mySystemDao.transaction(mySrd, request);
+		ourLog.info(myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(resp));
+
+		String patientId = new IdType(resp.getEntry().get(0).getResponse().getLocation()).toUnqualifiedVersionless().getValue();
+		assertThat(patientId, startsWith("Patient/"));
+
+		SearchParameterMap params = new SearchParameterMap();
+		params.setLoadSynchronous(true);
+		params.add("subject", new ReferenceParam(patientId));
+		IBundleProvider found = myObservationDao.search(params);
+		assertEquals(1, found.size().intValue());
+	}
+
+	@Test
+	public void testTransactionWithReferenceToCreateIfNoneExist() {
+		Bundle bundle = new Bundle();
+		bundle.setType(BundleType.TRANSACTION);
+
+		Medication med = new Medication();
+		IdType medId = IdType.newRandomUuid();
+		med.setId(medId);
+		med.getCode().addCoding().setSystem("billscodes").setCode("theCode");
+		bundle.addEntry().setResource(med).setFullUrl(medId.getValue()).getRequest().setMethod(HTTPVerb.POST).setIfNoneExist("Medication?code=billscodes|theCode");
+
+		MedicationRequest mo = new MedicationRequest();
+		mo.setMedication(new Reference(medId));
+		bundle.addEntry().setResource(mo).setFullUrl(mo.getIdElement().getValue()).getRequest().setMethod(HTTPVerb.POST);
+
+		ourLog.info("Request:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(bundle));
+
+		Bundle outcome = mySystemDao.transaction(mySrd, bundle);
+		ourLog.info("Response:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(outcome));
+
+		IdType medId1 = new IdType(outcome.getEntry().get(0).getResponse().getLocation());
+		IdType medOrderId1 = new IdType(outcome.getEntry().get(1).getResponse().getLocation());
+
+		/*
+		 * Again!
+		 */
+
+		bundle = new Bundle();
+		bundle.setType(BundleType.TRANSACTION);
+
+		med = new Medication();
+		medId = IdType.newRandomUuid();
+		med.getCode().addCoding().setSystem("billscodes").setCode("theCode");
+		bundle.addEntry().setResource(med).setFullUrl(medId.getValue()).getRequest().setMethod(HTTPVerb.POST).setIfNoneExist("Medication?code=billscodes|theCode");
+
+		mo = new MedicationRequest();
+		mo.setMedication(new Reference(medId));
+		bundle.addEntry().setResource(mo).setFullUrl(mo.getIdElement().getValue()).getRequest().setMethod(HTTPVerb.POST);
+
+		outcome = mySystemDao.transaction(mySrd, bundle);
+
+		IdType medId2 = new IdType(outcome.getEntry().get(0).getResponse().getLocation());
+		IdType medOrderId2 = new IdType(outcome.getEntry().get(1).getResponse().getLocation());
+
+		assertTrue(medId1.isIdPartValidLong());
+		assertTrue(medId2.isIdPartValidLong());
+		assertTrue(medOrderId1.isIdPartValidLong());
+		assertTrue(medOrderId2.isIdPartValidLong());
+
+		assertEquals(medId1, medId2);
+		assertNotEquals(medOrderId1, medOrderId2);
+	}
+
 	//
 	//
 	// /**
@@ -2240,59 +2430,32 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 	// }
 
 	@Test
-	public void testTransactionWithReferenceToCreateIfNoneExist() {
+	public void testTransactionWithReferenceUuid() {
-		Bundle bundle = new Bundle();
+		Bundle request = new Bundle();
-		bundle.setType(BundleType.TRANSACTION);
 
-		Medication med = new Medication();
+		Patient p = new Patient();
-		IdType medId = IdType.newRandomUuid();
+		p.setActive(true);
-		med.setId(medId);
+		p.setId(IdType.newRandomUuid());
-		med.getCode().addCoding().setSystem("billscodes").setCode("theCode");
+		request.addEntry().setResource(p).getRequest().setMethod(HTTPVerb.POST).setUrl(p.getId());
-		bundle.addEntry().setResource(med).setFullUrl(medId.getValue()).getRequest().setMethod(HTTPVerb.POST).setIfNoneExist("Medication?code=billscodes|theCode");
 
-		MedicationRequest mo = new MedicationRequest();
+		Observation o = new Observation();
-		mo.setMedication(new Reference(medId));
+		o.getCode().setText("Some Observation");
-		bundle.addEntry().setResource(mo).setFullUrl(mo.getIdElement().getValue()).getRequest().setMethod(HTTPVerb.POST);
+		o.getSubject().setReference(p.getId());
+		request.addEntry().setResource(o).getRequest().setMethod(HTTPVerb.POST);
 
-		ourLog.info("Request:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(bundle));
+		Bundle resp = mySystemDao.transaction(mySrd, request);
+		ourLog.info(myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(resp));
 
-		Bundle outcome = mySystemDao.transaction(mySrd, bundle);
+		String patientId = new IdType(resp.getEntry().get(0).getResponse().getLocation()).toUnqualifiedVersionless().getValue();
-		ourLog.info("Response:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(outcome));
+		assertThat(patientId, startsWith("Patient/"));
 
-		IdType medId1 = new IdType(outcome.getEntry().get(0).getResponse().getLocation());
+		SearchParameterMap params = new SearchParameterMap();
-		IdType medOrderId1 = new IdType(outcome.getEntry().get(1).getResponse().getLocation());
+		params.setLoadSynchronous(true);
-
+		params.add("subject", new ReferenceParam(patientId));
-		/*
+		IBundleProvider found = myObservationDao.search(params);
-		 * Again!
+		assertEquals(1, found.size().intValue());
-		 */
-
-		bundle = new Bundle();
-		bundle.setType(BundleType.TRANSACTION);
-
-		med = new Medication();
-		medId = IdType.newRandomUuid();
-		med.getCode().addCoding().setSystem("billscodes").setCode("theCode");
-		bundle.addEntry().setResource(med).setFullUrl(medId.getValue()).getRequest().setMethod(HTTPVerb.POST).setIfNoneExist("Medication?code=billscodes|theCode");
-
-		mo = new MedicationRequest();
-		mo.setMedication(new Reference(medId));
-		bundle.addEntry().setResource(mo).setFullUrl(mo.getIdElement().getValue()).getRequest().setMethod(HTTPVerb.POST);
-
-		outcome = mySystemDao.transaction(mySrd, bundle);
-
-		IdType medId2 = new IdType(outcome.getEntry().get(0).getResponse().getLocation());
-		IdType medOrderId2 = new IdType(outcome.getEntry().get(1).getResponse().getLocation());
-
-		assertTrue(medId1.isIdPartValidLong());
-		assertTrue(medId2.isIdPartValidLong());
-		assertTrue(medOrderId1.isIdPartValidLong());
-		assertTrue(medOrderId2.isIdPartValidLong());
-
-		assertEquals(medId1, medId2);
-		assertNotEquals(medOrderId1, medOrderId2);
 	}
-	
+
-	
 	@Test
 	public void testTransactionWithRelativeOidIds() throws Exception {
 		Bundle res = new Bundle();
@@ -2330,7 +2493,6 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest {
 		assertThat(o2.getSubject().getReferenceElement().getValue(), endsWith("Patient/" + p1.getIdElement().getIdPart()));
 
 	}
-	
 
 	/**
 	 * This is not the correct way to do it, but we'll allow it to be lenient

hapi-fhir-structures-dstu3/src/main/java/org/hl7/fhir/dstu3/model/IdType.java

@@ -86,6 +86,8 @@ import ca.uhn.fhir.model.api.annotation.DatatypeDef;
  */
 @DatatypeDef(name = "id", profileOf=StringType.class)
 public final class IdType extends UriType implements IPrimitiveType<String>, IIdType {
+  public static final String URN_PREFIX = "urn:";
+
   /**
    * This is the maximum length for the ID
    */
@@ -486,8 +488,8 @@ public final class IdType extends UriType implements IPrimitiveType<String>, IId
     return defaultString(myUnqualifiedId).startsWith("#");
   }
 
-  private boolean isUrn() {
+  public boolean isUrn() {
-    return defaultString(myUnqualifiedId).startsWith("urn:");
+    return defaultString(myUnqualifiedId).startsWith(URN_PREFIX);
   }
 
   @Override
@@ -526,7 +528,7 @@ public final class IdType extends UriType implements IPrimitiveType<String>, IId
       myUnqualifiedVersionId = null;
       myResourceType = null;
       myHaveComponentParts = true;
-    } else if (theValue.startsWith("urn:")) {
+    } else if (theValue.startsWith(URN_PREFIX)) {
       myBaseUrl = null;
       myUnqualifiedId = theValue;
       myUnqualifiedVersionId = null;

src/changes/changes.xml

@@ -13,6 +13,11 @@
 				meant that any project using ookhttp would import both structures
 				JARs. This has been removed.
 			</action>
+			<action type="add">
+				JPA server is now able to handle placeholder IDs (e.g. urn:uuid:00....000)
+				being used in Bundle.entry.request.url as a part of the conditional URL 
+				within transactions.
+			</action>
 		</release
 		<release version="2.6" date="TBD">
 			<action type="add">