Merge branch 'master' into philips-3.6.0

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

@@ -442,8 +442,6 @@ public class FhirContext {
 	 *
 	 * @throws DataFormatException If the resource name is not known
 	 */
-	// Multiple spots in HAPI FHIR and Smile CDR depend on DataFormatException being
-	// thrown by this method, don't change that.
 	public RuntimeResourceDefinition getResourceDefinition(String theResourceName) throws DataFormatException {
 		validateInitialized();
 		Validate.notBlank(theResourceName, "theResourceName must not be blank");
@@ -454,6 +452,10 @@ public class FhirContext {
 		if (retVal == null) {
 			Class<? extends IBaseResource> clazz = myNameToResourceType.get(resourceName.toLowerCase());
 			if (clazz == null) {
+				// ***********************************************************************
+				// Multiple spots in HAPI FHIR and Smile CDR depend on DataFormatException
+				// being thrown by this method, don't change that.
+				// ***********************************************************************
 				throw new DataFormatException(createUnknownResourceNameError(theResourceName, myVersion.getVersion()));
 			}
 			if (IBaseResource.class.isAssignableFrom(clazz)) {

hapi-fhir-base/src/main/java/ca/uhn/fhir/util/DatatypeUtil.java

@@ -22,6 +22,7 @@ package ca.uhn.fhir.util;
 
 import org.hl7.fhir.instance.model.api.IPrimitiveType;
 
+import java.util.ArrayList;
 import java.util.HashSet;
 import java.util.List;
 import java.util.Set;
@@ -35,7 +36,7 @@ public class DatatypeUtil {
 		HashSet<String> retVal = new HashSet<>();
 		if (theStringList != null) {
 			for (IPrimitiveType<?> string : theStringList) {
-				if (string != null && string.getValue()!=null) {
+				if (string != null && string.getValue() != null) {
 					retVal.add(string.getValueAsString());
 				}
 			}
@@ -44,7 +45,7 @@ public class DatatypeUtil {
 	}
 
 	/**
-	 * Joins a list of strings with a single space (' ') between each string 
+	 * Joins a list of strings with a single space (' ') between each string
 	 */
 	public static String joinStringsSpaceSeparated(List<? extends IPrimitiveType<String>> theStrings) {
 		StringBuilder b = new StringBuilder();

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

@@ -70,7 +70,7 @@ public abstract class BaseConfig implements SchedulingConfigurer {
 	@Autowired
 	protected Environment myEnv;
 
-	@Bean(name="myDaoRegistry")
+	@Bean(name = "myDaoRegistry")
 	public DaoRegistry daoRegistry() {
 		return new DaoRegistry();
 	}
@@ -141,13 +141,13 @@ public abstract class BaseConfig implements SchedulingConfigurer {
 		return b.getObject();
 	}
 
-	@Bean
+	@Bean(name="mySubscriptionTriggeringProvider")
 	@Lazy
-	public SubscriptionTriggeringProvider mySubscriptionTriggeringProvider() {
+	public SubscriptionTriggeringProvider subscriptionTriggeringProvider() {
 		return new SubscriptionTriggeringProvider();
 	}
 
-	@Bean(autowire = Autowire.BY_TYPE)
+	@Bean(autowire = Autowire.BY_TYPE, name = "mySearchCoordinatorSvc")
 	public ISearchCoordinatorSvc searchCoordinatorSvc() {
 		return new SearchCoordinatorSvcImpl();
 	}

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

@@ -832,6 +832,25 @@ public abstract class BaseHapiFhirResourceDao<T extends IBaseResource> extends B
 		return processMatchUrl(theMatchUrl, getResourceType());
 	}
 
+	@Override
+	public IBaseResource readByPid(Long thePid) {
+		StopWatch w = new StopWatch();
+
+		Optional<ResourceTable> entity = myResourceTableDao.findById(thePid);
+		if (!entity.isPresent()) {
+			throw new ResourceNotFoundException("No resource found with PID " + thePid);
+		}
+		if (entity.get().getDeleted() != null) {
+			throw new ResourceGoneException("Resource was deleted at " + new InstantType(entity.get().getDeleted()).getValueAsString());
+		}
+
+		T retVal = toResource(myResourceType, entity.get(), null, false);
+
+		ourLog.debug("Processed read on {} in {}ms", thePid, w.getMillis());
+		return retVal;
+	}
+
+
 	@Override
 	public T read(IIdType theId) {
 		return read(theId, null);

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

@@ -158,6 +158,11 @@ public interface IFhirResourceDao<T extends IBaseResource> extends IDao {
 	 */
 	T read(IIdType theId);
 
+	/**
+	 * Read a resource by its internal PID
+	 */
+	IBaseResource readByPid(Long thePid);
+
 	/**
 	 * @param theId
 	 * @param theRequestDetails TODO
@@ -239,6 +244,7 @@ public interface IFhirResourceDao<T extends IBaseResource> extends IDao {
 
 	RuntimeResourceDefinition validateCriteriaAndReturnResourceDefinition(String criteria);
 
+
 	// /**
 	// * Invoke the everything operation
 	// */

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/SubscriptionTriggeringProvider.java

@@ -21,64 +21,164 @@ package ca.uhn.fhir.jpa.provider;
  */
 
 import ca.uhn.fhir.context.FhirContext;
+import ca.uhn.fhir.context.RuntimeResourceDefinition;
+import ca.uhn.fhir.jpa.dao.BaseHapiFhirDao;
+import ca.uhn.fhir.jpa.dao.DaoRegistry;
 import ca.uhn.fhir.jpa.dao.IFhirResourceDao;
-import ca.uhn.fhir.jpa.dao.IFhirSystemDao;
+import ca.uhn.fhir.jpa.dao.SearchParameterMap;
+import ca.uhn.fhir.jpa.search.ISearchCoordinatorSvc;
+import ca.uhn.fhir.jpa.search.warm.CacheWarmingSvcImpl;
 import ca.uhn.fhir.jpa.subscription.BaseSubscriptionInterceptor;
 import ca.uhn.fhir.jpa.subscription.ResourceModifiedMessage;
 import ca.uhn.fhir.jpa.util.JpaConstants;
 import ca.uhn.fhir.rest.annotation.IdParam;
 import ca.uhn.fhir.rest.annotation.Operation;
 import ca.uhn.fhir.rest.annotation.OperationParam;
+import ca.uhn.fhir.rest.api.CacheControlDirective;
+import ca.uhn.fhir.rest.api.server.IBundleProvider;
+import ca.uhn.fhir.rest.param.StringParam;
 import ca.uhn.fhir.rest.param.UriParam;
 import ca.uhn.fhir.rest.server.IResourceProvider;
+import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
+import ca.uhn.fhir.rest.server.exceptions.PreconditionFailedException;
 import ca.uhn.fhir.util.ParametersUtil;
+import ca.uhn.fhir.util.StopWatch;
 import ca.uhn.fhir.util.ValidateUtil;
+import org.apache.commons.lang3.ObjectUtils;
+import org.apache.commons.lang3.Validate;
+import org.apache.commons.lang3.time.DateUtils;
 import org.hl7.fhir.instance.model.IdType;
 import org.hl7.fhir.instance.model.api.IBaseParameters;
 import org.hl7.fhir.instance.model.api.IBaseResource;
 import org.hl7.fhir.instance.model.api.IIdType;
 import org.hl7.fhir.instance.model.api.IPrimitiveType;
+import org.slf4j.Logger;
+import org.slf4j.LoggerFactory;
+import org.springframework.beans.BeansException;
 import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.context.ApplicationContext;
+import org.springframework.context.ApplicationContextAware;
+import org.springframework.scheduling.annotation.Scheduled;
 
-import java.util.List;
+import javax.annotation.PostConstruct;
+import java.util.*;
+import java.util.concurrent.TimeUnit;
+import java.util.stream.Collectors;
 
-public class SubscriptionTriggeringProvider implements IResourceProvider {
+import static org.apache.commons.lang3.StringUtils.isBlank;
+import static org.apache.commons.lang3.StringUtils.isNotBlank;
+
+public class SubscriptionTriggeringProvider implements IResourceProvider, ApplicationContextAware {
 
 	public static final String RESOURCE_ID = "resourceId";
+	public static final int DEFAULT_MAX_SUBMIT = 10000;
+	public static final String SEARCH_URL = "searchUrl";
+	private static final Logger ourLog = LoggerFactory.getLogger(SubscriptionTriggeringProvider.class);
+	private final List<SubscriptionTriggeringJobDetails> myActiveJobs = new ArrayList<>();
 	@Autowired
 	private FhirContext myFhirContext;
 	@Autowired
-	private IFhirSystemDao<?,?> mySystemDao;
+	private DaoRegistry myDaoRegistry;
-	@Autowired(required = false)
 	private List<BaseSubscriptionInterceptor<?>> mySubscriptionInterceptorList;
+	private int myMaxSubmitPerPass = DEFAULT_MAX_SUBMIT;
+	@Autowired
+	private ISearchCoordinatorSvc mySearchCoordinatorSvc;
+	private ApplicationContext myAppCtx;
 
-	@Operation(name= JpaConstants.OPERATION_TRIGGER_SUBSCRIPTION)
+	/**
+	 * Sets the maximum number of resources that will be submitted in a single pass
+	 */
+	public void setMaxSubmitPerPass(Integer theMaxSubmitPerPass) {
+		Integer maxSubmitPerPass = theMaxSubmitPerPass;
+		if (maxSubmitPerPass == null) {
+			maxSubmitPerPass = DEFAULT_MAX_SUBMIT;
+		}
+		Validate.isTrue(maxSubmitPerPass > 0, "theMaxSubmitPerPass must be > 0");
+		myMaxSubmitPerPass = maxSubmitPerPass;
+	}
+
+	@SuppressWarnings("unchecked")
+	@PostConstruct
+	public void start() {
+		mySubscriptionInterceptorList = ObjectUtils.defaultIfNull(mySubscriptionInterceptorList, Collections.emptyList());
+		mySubscriptionInterceptorList = new ArrayList<>();
+		Collection values1 = myAppCtx.getBeansOfType(BaseSubscriptionInterceptor.class).values();
+		Collection<BaseSubscriptionInterceptor<?>> values = (Collection<BaseSubscriptionInterceptor<?>>) values1;
+		mySubscriptionInterceptorList.addAll(values);
+	}
+
+	@Operation(name = JpaConstants.OPERATION_TRIGGER_SUBSCRIPTION)
+	public IBaseParameters triggerSubscription(
+		@OperationParam(name = RESOURCE_ID, min = 0, max = OperationParam.MAX_UNLIMITED) List<UriParam> theResourceIds,
+		@OperationParam(name = SEARCH_URL, min = 0, max = OperationParam.MAX_UNLIMITED) List<StringParam> theSearchUrls
+	) {
+		return doTriggerSubscription(theResourceIds, theSearchUrls, null);
+	}
+
+	@Operation(name = JpaConstants.OPERATION_TRIGGER_SUBSCRIPTION)
 	public IBaseParameters triggerSubscription(
 		@IdParam IIdType theSubscriptionId,
-		@OperationParam(name= RESOURCE_ID) UriParam theResourceId) {
+		@OperationParam(name = RESOURCE_ID, min = 0, max = OperationParam.MAX_UNLIMITED) List<UriParam> theResourceIds,
+		@OperationParam(name = SEARCH_URL, min = 0, max = OperationParam.MAX_UNLIMITED) List<StringParam> theSearchUrls
+	) {
 
-		ValidateUtil.isTrueOrThrowInvalidRequest(theResourceId != null, RESOURCE_ID + " parameter not provided");
+		// Throw a 404 if the subscription doesn't exist
-		IdType resourceId = new IdType(theResourceId.getValue());
+		IFhirResourceDao<?> subscriptionDao = myDaoRegistry.getResourceDao("Subscription");
-		ValidateUtil.isTrueOrThrowInvalidRequest(resourceId.hasResourceType(), RESOURCE_ID + " parameter must have resource type");
+		IIdType subscriptionId = theSubscriptionId;
-		ValidateUtil.isTrueOrThrowInvalidRequest(resourceId.hasIdPart(), RESOURCE_ID + " parameter must have resource ID part");
+		if (subscriptionId.hasResourceType() == false) {
+			subscriptionId = subscriptionId.withResourceType("Subscription");
+		}
+		subscriptionDao.read(subscriptionId);
 
-		Class<? extends IBaseResource> resourceType = myFhirContext.getResourceDefinition(resourceId.getResourceType()).getImplementingClass();
+		return doTriggerSubscription(theResourceIds, theSearchUrls, subscriptionId);
-		IFhirResourceDao<? extends IBaseResource> dao = mySystemDao.getDao(resourceType);
-		IBaseResource resourceToTrigger = dao.read(resourceId);
 
-		ResourceModifiedMessage msg = new ResourceModifiedMessage();
+	}
-		msg.setId(resourceToTrigger.getIdElement());
-		msg.setOperationType(ResourceModifiedMessage.OperationTypeEnum.UPDATE);
-		msg.setSubscriptionId(theSubscriptionId.toUnqualifiedVersionless().getValue());
-		msg.setNewPayload(myFhirContext, resourceToTrigger);
 
-		for (BaseSubscriptionInterceptor<?> next :mySubscriptionInterceptorList) {
+	private IBaseParameters doTriggerSubscription(@OperationParam(name = RESOURCE_ID, min = 0, max = OperationParam.MAX_UNLIMITED) List<UriParam> theResourceIds, @OperationParam(name = SEARCH_URL, min = 0, max = OperationParam.MAX_UNLIMITED) List<StringParam> theSearchUrls, @IdParam IIdType theSubscriptionId) {
-			next.submitResourceModified(msg);
+		if (mySubscriptionInterceptorList.isEmpty()) {
+			throw new PreconditionFailedException("Subscription processing not active on this server");
 		}
 
+		List<UriParam> resourceIds = ObjectUtils.defaultIfNull(theResourceIds, Collections.emptyList());
+		List<StringParam> searchUrls = ObjectUtils.defaultIfNull(theSearchUrls, Collections.emptyList());
+
+		// Make sure we have at least one resource ID or search URL
+		if (resourceIds.size() == 0 && searchUrls.size() == 0) {
+			throw new InvalidRequestException("No resource IDs or search URLs specified for triggering");
+		}
+
+		// Resource URLs must be compete
+		for (UriParam next : resourceIds) {
+			IdType resourceId = new IdType(next.getValue());
+			ValidateUtil.isTrueOrThrowInvalidRequest(resourceId.hasResourceType(), RESOURCE_ID + " parameter must have resource type");
+			ValidateUtil.isTrueOrThrowInvalidRequest(resourceId.hasIdPart(), RESOURCE_ID + " parameter must have resource ID part");
+		}
+
+		// Search URLs must be valid
+		for (StringParam next : searchUrls) {
+			if (next.getValue().contains("?") == false) {
+				throw new InvalidRequestException("Search URL is not valid (must be in the form \"[resource type]?[optional params]\")");
+			}
+		}
+
+		SubscriptionTriggeringJobDetails jobDetails = new SubscriptionTriggeringJobDetails();
+		jobDetails.setJobId(UUID.randomUUID().toString());
+		jobDetails.setRemainingResourceIds(resourceIds.stream().map(UriParam::getValue).collect(Collectors.toList()));
+		jobDetails.setRemainingSearchUrls(searchUrls.stream().map(StringParam::getValue).collect(Collectors.toList()));
+		if (theSubscriptionId != null) {
+			jobDetails.setSubscriptionId(theSubscriptionId.toUnqualifiedVersionless().getValue());
+		}
+
+		// Submit job for processing
+		synchronized (myActiveJobs) {
+			myActiveJobs.add(jobDetails);
+		}
+		ourLog.info("Subscription triggering requested for {} resource and {} search - Gave job ID: {}", resourceIds.size(), searchUrls.size(), jobDetails.getJobId());
+
+		// Create a parameters response
 		IBaseParameters retVal = ParametersUtil.newInstance(myFhirContext);
 		IPrimitiveType<?> value = (IPrimitiveType<?>) myFhirContext.getElementDefinition("string").newInstance();
-		value.setValueAsString("Triggered resource " + theResourceId.getValue() + " for subscription");
+		value.setValueAsString("Subscription triggering job submitted as JOB ID: " + jobDetails.myJobId);
 		ParametersUtil.addParameterToParameters(myFhirContext, retVal, "information", value);
 		return retVal;
 	}
@@ -87,4 +187,214 @@ public class SubscriptionTriggeringProvider implements IResourceProvider {
 	public Class<? extends IBaseResource> getResourceType() {
 		return myFhirContext.getResourceDefinition("Subscription").getImplementingClass();
 	}
+
+	@Scheduled(fixedDelay = DateUtils.MILLIS_PER_SECOND)
+	public void runDeliveryPass() {
+
+		synchronized (myActiveJobs) {
+			if (myActiveJobs.isEmpty()) {
+				return;
+			}
+
+			String activeJobIds = myActiveJobs.stream().map(t->t.getJobId()).collect(Collectors.joining(", "));
+			ourLog.info("Starting pass: currently have {} active job IDs: {}", myActiveJobs.size(), activeJobIds);
+
+			SubscriptionTriggeringJobDetails activeJob = myActiveJobs.get(0);
+
+			runJob(activeJob);
+
+			// If the job is complete, remove it from the queue
+			if (activeJob.getRemainingResourceIds().isEmpty()) {
+				if (activeJob.getRemainingSearchUrls().isEmpty()) {
+					if (isBlank(activeJob.myCurrentSearchUuid)) {
+						myActiveJobs.remove(0);
+						String remainingJobsMsg = "";
+						if (myActiveJobs.size() > 0) {
+							remainingJobsMsg = "(" + myActiveJobs.size() + " jobs remaining)";
+						}
+						ourLog.info("Subscription triggering job {} is complete{}", activeJob.getJobId(), remainingJobsMsg);
+					}
+				}
+			}
+
+		}
+
+	}
+
+	private void runJob(SubscriptionTriggeringJobDetails theJobDetails) {
+		StopWatch sw = new StopWatch();
+		ourLog.info("Starting pass of subscription triggering job {}", theJobDetails.getJobId());
+
+		// Submit individual resources
+		int totalSubmitted = 0;
+		while (theJobDetails.getRemainingResourceIds().size() > 0 && totalSubmitted < myMaxSubmitPerPass) {
+			totalSubmitted++;
+			String nextResourceId = theJobDetails.getRemainingResourceIds().remove(0);
+			submitResource(theJobDetails.getSubscriptionId(), nextResourceId);
+		}
+
+		// If we don't have an active search started, and one needs to be.. start it
+		if (isBlank(theJobDetails.getCurrentSearchUuid()) && theJobDetails.getRemainingSearchUrls().size() > 0 && totalSubmitted < myMaxSubmitPerPass) {
+			String nextSearchUrl = theJobDetails.getRemainingSearchUrls().remove(0);
+			RuntimeResourceDefinition resourceDef = CacheWarmingSvcImpl.parseUrlResourceType(myFhirContext, nextSearchUrl);
+			String queryPart = nextSearchUrl.substring(nextSearchUrl.indexOf('?'));
+			String resourceType = resourceDef.getName();
+
+			IFhirResourceDao<?> callingDao = myDaoRegistry.getResourceDao(resourceType);
+			SearchParameterMap params = BaseHapiFhirDao.translateMatchUrl(callingDao, myFhirContext, queryPart, resourceDef);
+
+			ourLog.info("Triggering job[{}] is starting a search for {}", theJobDetails.getJobId(), nextSearchUrl);
+
+			IBundleProvider search = mySearchCoordinatorSvc.registerSearch(callingDao, params, resourceType, new CacheControlDirective());
+			theJobDetails.setCurrentSearchUuid(search.getUuid());
+			theJobDetails.setCurrentSearchResourceType(resourceType);
+			theJobDetails.setCurrentSearchCount(params.getCount());
+			theJobDetails.setCurrentSearchLastUploadedIndex(-1);
+		}
+
+		// If we have an active search going, submit resources from it
+		if (isNotBlank(theJobDetails.getCurrentSearchUuid()) && totalSubmitted < myMaxSubmitPerPass) {
+			int fromIndex = theJobDetails.getCurrentSearchLastUploadedIndex() + 1;
+
+			IFhirResourceDao<?> resourceDao = myDaoRegistry.getResourceDao(theJobDetails.getCurrentSearchResourceType());
+
+			int maxQuerySize = myMaxSubmitPerPass - totalSubmitted;
+			int toIndex = fromIndex + maxQuerySize;
+			if (theJobDetails.getCurrentSearchCount() != null) {
+				toIndex = Math.min(toIndex, theJobDetails.getCurrentSearchCount());
+			}
+			ourLog.info("Triggering job[{}] search {} requesting resources {} - {}", theJobDetails.getJobId(), theJobDetails.getCurrentSearchUuid(), fromIndex, toIndex);
+			List<Long> resourceIds = mySearchCoordinatorSvc.getResources(theJobDetails.getCurrentSearchUuid(), fromIndex, toIndex);
+
+			ourLog.info("Triggering job[{}] delivering {} resources", theJobDetails.getJobId(), theJobDetails.getCurrentSearchUuid(), fromIndex, toIndex);
+			for (Long next : resourceIds) {
+				IBaseResource nextResource = resourceDao.readByPid(next);
+				submitResource(theJobDetails.getSubscriptionId(), nextResource);
+				totalSubmitted++;
+				theJobDetails.setCurrentSearchLastUploadedIndex(theJobDetails.getCurrentSearchLastUploadedIndex()+1);
+			}
+
+			int expectedCount = toIndex - fromIndex;
+			if (resourceIds.size() == 0 || (theJobDetails.getCurrentSearchCount() != null && toIndex >= theJobDetails.getCurrentSearchCount())) {
+				ourLog.info("Triggering job[{}] search {} has completed ", theJobDetails.getJobId(), theJobDetails.getCurrentSearchUuid());
+				theJobDetails.setCurrentSearchResourceType(null);
+				theJobDetails.setCurrentSearchUuid(null);
+				theJobDetails.setCurrentSearchLastUploadedIndex(-1);
+				theJobDetails.setCurrentSearchCount(null);
+			}
+		}
+
+		ourLog.info("Subscription trigger job[{}] triggered {} resources in {}ms ({} res / second)", theJobDetails.getJobId(), totalSubmitted, sw.getMillis(), sw.getThroughput(totalSubmitted, TimeUnit.SECONDS));
+	}
+
+	private void submitResource(String theSubscriptionId, String theResourceIdToTrigger) {
+		org.hl7.fhir.r4.model.IdType resourceId = new org.hl7.fhir.r4.model.IdType(theResourceIdToTrigger);
+		IFhirResourceDao<? extends IBaseResource> dao = myDaoRegistry.getResourceDao(resourceId.getResourceType());
+		IBaseResource resourceToTrigger = dao.read(resourceId);
+
+		submitResource(theSubscriptionId, resourceToTrigger);
+	}
+
+	private void submitResource(String theSubscriptionId, IBaseResource theResourceToTrigger) {
+
+		ourLog.info("Submitting resource {} to subscription {}", theResourceToTrigger.getIdElement().toUnqualifiedVersionless().getValue(), theSubscriptionId);
+
+		ResourceModifiedMessage msg = new ResourceModifiedMessage();
+		msg.setId(theResourceToTrigger.getIdElement());
+		msg.setOperationType(ResourceModifiedMessage.OperationTypeEnum.UPDATE);
+		msg.setSubscriptionId(new IdType(theSubscriptionId).toUnqualifiedVersionless().getValue());
+		msg.setNewPayload(myFhirContext, theResourceToTrigger);
+
+		for (BaseSubscriptionInterceptor<?> next : mySubscriptionInterceptorList) {
+			next.submitResourceModified(msg);
+		}
+	}
+
+	public void cancelAll() {
+		synchronized (myActiveJobs) {
+			myActiveJobs.clear();
+		}
+	}
+
+	@Override
+	public void setApplicationContext(ApplicationContext applicationContext) throws BeansException {
+		myAppCtx = applicationContext;
+	}
+
+	private static class SubscriptionTriggeringJobDetails {
+
+		private String myJobId;
+		private String mySubscriptionId;
+		private List<String> myRemainingResourceIds;
+		private List<String> myRemainingSearchUrls;
+		private String myCurrentSearchUuid;
+		private Integer myCurrentSearchCount;
+		private String myCurrentSearchResourceType;
+		private int myCurrentSearchLastUploadedIndex;
+
+		public Integer getCurrentSearchCount() {
+			return myCurrentSearchCount;
+		}
+
+		public void setCurrentSearchCount(Integer theCurrentSearchCount) {
+			myCurrentSearchCount = theCurrentSearchCount;
+		}
+
+		public String getCurrentSearchResourceType() {
+			return myCurrentSearchResourceType;
+		}
+
+		public void setCurrentSearchResourceType(String theCurrentSearchResourceType) {
+			myCurrentSearchResourceType = theCurrentSearchResourceType;
+		}
+
+		public String getJobId() {
+			return myJobId;
+		}
+
+		public void setJobId(String theJobId) {
+			myJobId = theJobId;
+		}
+
+		public String getSubscriptionId() {
+			return mySubscriptionId;
+		}
+
+		public void setSubscriptionId(String theSubscriptionId) {
+			mySubscriptionId = theSubscriptionId;
+		}
+
+		public List<String> getRemainingResourceIds() {
+			return myRemainingResourceIds;
+		}
+
+		public void setRemainingResourceIds(List<String> theRemainingResourceIds) {
+			myRemainingResourceIds = theRemainingResourceIds;
+		}
+
+		public List<String> getRemainingSearchUrls() {
+			return myRemainingSearchUrls;
+		}
+
+		public void setRemainingSearchUrls(List<String> theRemainingSearchUrls) {
+			myRemainingSearchUrls = theRemainingSearchUrls;
+		}
+
+		public String getCurrentSearchUuid() {
+			return myCurrentSearchUuid;
+		}
+
+		public void setCurrentSearchUuid(String theCurrentSearchUuid) {
+			myCurrentSearchUuid = theCurrentSearchUuid;
+		}
+
+		public int getCurrentSearchLastUploadedIndex() {
+			return myCurrentSearchLastUploadedIndex;
+		}
+
+		public void setCurrentSearchLastUploadedIndex(int theCurrentSearchLastUploadedIndex) {
+			myCurrentSearchLastUploadedIndex = theCurrentSearchLastUploadedIndex;
+		}
+	}
+
 }

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/search/PersistedJpaBundleProvider.java

@@ -117,7 +117,7 @@ public class PersistedJpaBundleProvider implements IBundleProvider {
 
 		results = query.getResultList();
 
-		ArrayList<IBaseResource> retVal = new ArrayList<IBaseResource>();
+		ArrayList<IBaseResource> retVal = new ArrayList<>();
 		for (ResourceHistoryTable next : results) {
 			BaseHasResource resource;
 			resource = next;
@@ -157,7 +157,7 @@ public class PersistedJpaBundleProvider implements IBundleProvider {
 
 			TransactionTemplate txTemplate = new TransactionTemplate(myPlatformTransactionManager);
 			txTemplate.setPropagationBehavior(TransactionDefinition.PROPAGATION_REQUIRED);
-			txTemplate.setIsolationLevel(TransactionDefinition.ISOLATION_READ_UNCOMMITTED);
+			txTemplate.setIsolationLevel(TransactionDefinition.ISOLATION_READ_COMMITTED);
 			return txTemplate.execute(s -> {
 				try {
 					setSearchEntity(mySearchDao.findByUuid(myUuid));

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/search/SearchCoordinatorSvcImpl.java

@@ -634,7 +634,7 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
 				txTemplate.setPropagationBehavior(TransactionDefinition.PROPAGATION_REQUIRES_NEW);
 
 				if (myCustomIsolationSupported) {
-					txTemplate.setIsolationLevel(TransactionDefinition.ISOLATION_READ_UNCOMMITTED);
+					txTemplate.setIsolationLevel(TransactionDefinition.ISOLATION_READ_COMMITTED);
 				}
 
 				txTemplate.execute(new TransactionCallbackWithoutResult() {

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/search/warm/CacheWarmingSvcImpl.java

@@ -24,6 +24,7 @@ import ca.uhn.fhir.context.ConfigurationException;
 import ca.uhn.fhir.context.FhirContext;
 import ca.uhn.fhir.context.RuntimeResourceDefinition;
 import ca.uhn.fhir.jpa.dao.*;
+import ca.uhn.fhir.parser.DataFormatException;
 import org.springframework.beans.factory.annotation.Autowired;
 import org.springframework.scheduling.annotation.Scheduled;
 
@@ -68,7 +69,7 @@ public class CacheWarmingSvcImpl implements ICacheWarmingSvc {
 	private void refreshNow(WarmCacheEntry theCacheEntry) {
 		String nextUrl = theCacheEntry.getUrl();
 
-		RuntimeResourceDefinition resourceDef = parseWarmUrlResourceType(nextUrl);
+		RuntimeResourceDefinition resourceDef = parseUrlResourceType(myCtx, nextUrl);
 		IFhirResourceDao<?> callingDao = myDaoRegistry.getResourceDao(resourceDef.getName());
 		String queryPart = parseWarmUrlParamPart(nextUrl);
 		SearchParameterMap responseCriteriaUrl = BaseHapiFhirDao.translateMatchUrl(callingDao, myCtx, queryPart, resourceDef);
@@ -84,14 +85,18 @@ public class CacheWarmingSvcImpl implements ICacheWarmingSvc {
 		return theNextUrl.substring(paramIndex);
 	}
 
-	private RuntimeResourceDefinition parseWarmUrlResourceType(String theNextUrl) {
+	/**
-		int paramIndex = theNextUrl.indexOf('?');
+	 * TODO: this method probably belongs in a utility class, not here
-		String resourceName = theNextUrl.substring(0, paramIndex);
+	 *
+	 * @throws DataFormatException If the resource type is not known
+	 */
+	public static RuntimeResourceDefinition parseUrlResourceType(FhirContext theCtx, String theUrl) throws DataFormatException {
+		int paramIndex = theUrl.indexOf('?');
+		String resourceName = theUrl.substring(0, paramIndex);
 		if (resourceName.contains("/")) {
 			resourceName = resourceName.substring(resourceName.lastIndexOf('/') + 1);
 		}
-		RuntimeResourceDefinition resourceDef = myCtx.getResourceDefinition(resourceName);
+		return theCtx.getResourceDefinition(resourceName);
-		return resourceDef;
 	}
 
 	@PostConstruct
@@ -107,7 +112,7 @@ public class CacheWarmingSvcImpl implements ICacheWarmingSvc {
 
 			// Validate
 			parseWarmUrlParamPart(next.getUrl());
-			parseWarmUrlResourceType(next.getUrl());
+			parseUrlResourceType(myCtx, next.getUrl());
 
 			myCacheEntryToNextRefresh.put(next, 0L);
 		}

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

@@ -401,14 +401,14 @@ public abstract class BaseJpaTest {
 
 	public static void waitForSize(int theTarget, List<?> theList) {
 		StopWatch sw = new StopWatch();
-		while (theList.size() != theTarget && sw.getMillis() <= 15000) {
+		while (theList.size() != theTarget && sw.getMillis() <= 16000) {
 			try {
 				Thread.sleep(50);
 			} catch (InterruptedException theE) {
 				throw new Error(theE);
 			}
 		}
-		if (sw.getMillis() >= 15000) {
+		if (sw.getMillis() >= 16000) {
 			String describeResults = theList
 				.stream()
 				.map(t -> {

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/dstu3/BaseResourceProviderDstu3Test.java

@@ -66,6 +66,7 @@ public abstract class BaseResourceProviderDstu3Test extends BaseJpaDstu3Test {
 	protected static ISearchCoordinatorSvc mySearchCoordinatorSvc;
 	private static Server ourServer;
 	private TerminologyUploaderProviderDstu3 myTerminologyUploaderProvider;
+	protected static SubscriptionTriggeringProvider ourSubscriptionTriggeringProvider;
 
 	public BaseResourceProviderDstu3Test() {
 		super();
@@ -160,6 +161,7 @@ public abstract class BaseResourceProviderDstu3Test extends BaseJpaDstu3Test {
 			ourRestHookSubscriptionInterceptor = wac.getBean(SubscriptionRestHookInterceptor.class);
 			ourEmailSubscriptionInterceptor = wac.getBean(SubscriptionEmailInterceptor.class);
 			ourSearchParamRegistry = wac.getBean(SearchParamRegistryDstu3.class);
+			ourSubscriptionTriggeringProvider = wac.getBean(SubscriptionTriggeringProvider.class);
 
 			myFhirCtx.getRestfulClientFactory().setSocketTimeout(5000000);
 			ourClient = myFhirCtx.newRestfulGenericClient(ourServerBase);

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/subscription/SubscriptionTriggeringDstu3Test.java

@@ -13,6 +13,7 @@ import ca.uhn.fhir.rest.api.MethodOutcome;
 import ca.uhn.fhir.rest.client.interceptor.LoggingInterceptor;
 import ca.uhn.fhir.rest.server.IResourceProvider;
 import ca.uhn.fhir.rest.server.RestfulServer;
+import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
 import ca.uhn.fhir.util.PortUtil;
 import com.google.common.collect.Lists;
 import org.eclipse.jetty.server.Server;
@@ -27,7 +28,10 @@ import javax.servlet.http.HttpServletRequest;
 import java.util.ArrayList;
 import java.util.List;
 
+import static org.hamcrest.CoreMatchers.containsString;
 import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertThat;
+import static org.junit.Assert.fail;
 
 /**
  * Test the rest-hook subscriptions
@@ -36,12 +40,14 @@ import static org.junit.Assert.assertEquals;
 public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Test {
 
 	private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(SubscriptionTriggeringDstu3Test.class);
-	private static List<Observation> ourCreatedObservations = Lists.newArrayList();
 	private static int ourListenerPort;
 	private static RestfulServer ourListenerRestServer;
 	private static Server ourListenerServer;
 	private static String ourListenerServerBase;
+	private static List<Observation> ourCreatedObservations = Lists.newArrayList();
 	private static List<Observation> ourUpdatedObservations = Lists.newArrayList();
+	private static List<Patient> ourCreatedPatients = Lists.newArrayList();
+	private static List<Patient> ourUpdatedPatients = Lists.newArrayList();
 	private static List<String> ourContentTypes = new ArrayList<>();
 	private List<IIdType> mySubscriptionIds = new ArrayList<>();
 
@@ -56,13 +62,17 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 
 		myDaoConfig.setAllowMultipleDelete(true);
 		ourLog.info("Deleting all subscriptions");
-		ourClient.delete().resourceConditionalByUrl("Subscription?status=active").execute();
+		ourClient.delete().resourceConditionalByUrl("Subscription?_lastUpdated=lt3000").execute();
-		ourClient.delete().resourceConditionalByUrl("Observation?code:missing=false").execute();
+		ourClient.delete().resourceConditionalByUrl("Observation?_lastUpdated=lt3000").execute();
 		ourLog.info("Done deleting all subscriptions");
 		myDaoConfig.setAllowMultipleDelete(new DaoConfig().isAllowMultipleDelete());
 
 		ourRestServer.unregisterInterceptor(ourRestHookSubscriptionInterceptor);
 
+		ourSubscriptionTriggeringProvider.cancelAll();
+		ourSubscriptionTriggeringProvider.setMaxSubmitPerPass(null);
+
+		myDaoConfig.setSearchPreFetchThresholds(new DaoConfig().getSearchPreFetchThresholds());
 	}
 
 	@Before
@@ -70,10 +80,15 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 		ourRestServer.registerInterceptor(ourRestHookSubscriptionInterceptor);
 	}
 
+	/**
+	 * Only do counter resets here! We call this inside tests
+	 */
 	@Before
 	public void beforeReset() {
 		ourCreatedObservations.clear();
 		ourUpdatedObservations.clear();
+		ourCreatedPatients.clear();
+		ourUpdatedPatients.clear();
 		ourContentTypes.clear();
 	}
 
@@ -90,7 +105,7 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 		subscription.setChannel(channel);
 
 		MethodOutcome methodOutcome = ourClient.create().resource(subscription).execute();
-		subscription.setId(methodOutcome.getId().getIdPart());
+		subscription.setId(methodOutcome.getId());
 		mySubscriptionIds.add(methodOutcome.getId());
 
 		waitForQueueToDrain();
@@ -116,6 +131,7 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 		return observation;
 	}
 
+
 	@Test
 	public void testTriggerResourceToSpecificSubscription() throws Exception {
 		String payload = "application/fhir+json";
@@ -135,8 +151,6 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 		waitForSize(1, ourUpdatedObservations);
 		assertEquals(Constants.CT_FHIR_JSON_NEW, ourContentTypes.get(0));
 
-		ourClient.registerInterceptor(new LoggingInterceptor(true));
-
 		Parameters response = ourClient
 			.operation()
 			.onInstance(subscriptionId)
@@ -145,7 +159,7 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 			.execute();
 
 		String responseValue = response.getParameter().get(0).getValue().primitiveValue();
-		assertEquals("Triggered resource " + obsId.getValue() + " for subscription", responseValue);
+		assertThat(responseValue, containsString("Subscription triggering job submitted as JOB ID"));
 
 		waitForQueueToDrain();
 		waitForSize(0, ourCreatedObservations);
@@ -153,6 +167,171 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 
 	}
 
+	@Test
+	public void testTriggerUsingMultipleSearches() throws Exception {
+		myDaoConfig.setSearchPreFetchThresholds(Lists.newArrayList(13, 22, 100));
+
+		String payload = "application/fhir+json";
+		IdType sub1id = createSubscription("Observation?", payload, ourListenerServerBase).getIdElement();
+		IdType sub2id = createSubscription("Patient?", payload, ourListenerServerBase).getIdElement();
+
+		// Create lots
+		for (int i = 0; i < 50; i++) {
+			Patient p = new Patient();
+			p.addName().setFamily("P" + i);
+			ourClient.create().resource(p).execute();
+		}
+		for (int i = 0; i < 50; i++) {
+			Observation o = new Observation();
+			o.setId("O" + i);
+			o.setStatus(Observation.ObservationStatus.FINAL);
+			o.getCode().setText("O" + i);
+			ourClient.update().resource(o).execute();
+		}
+
+		waitForSize(50, ourUpdatedObservations);
+		waitForSize(0, ourCreatedObservations);
+		waitForSize(0, ourCreatedPatients);
+		waitForSize(50, ourUpdatedPatients);
+		beforeReset();
+
+		ourSubscriptionTriggeringProvider.setMaxSubmitPerPass(33);
+
+		Parameters response = ourClient
+			.operation()
+			.onInstance(sub1id)
+			.named(JpaConstants.OPERATION_TRIGGER_SUBSCRIPTION)
+			.withParameter(Parameters.class, SubscriptionTriggeringProvider.SEARCH_URL, new StringType("Observation?"))
+			.andParameter(SubscriptionTriggeringProvider.RESOURCE_ID, new UriType("Observation/O2"))
+			.execute();
+		String responseValue = response.getParameter().get(0).getValue().primitiveValue();
+		assertThat(responseValue, containsString("Subscription triggering job submitted as JOB ID"));
+
+		response = ourClient
+			.operation()
+			.onInstance(sub2id)
+			.named(JpaConstants.OPERATION_TRIGGER_SUBSCRIPTION)
+			.withParameter(Parameters.class, SubscriptionTriggeringProvider.SEARCH_URL, new StringType("Patient?"))
+			.execute();
+		responseValue = response.getParameter().get(0).getValue().primitiveValue();
+		assertThat(responseValue, containsString("Subscription triggering job submitted as JOB ID"));
+
+//		Thread.sleep(1000000000);
+
+		waitForSize(51, ourUpdatedObservations);
+		waitForSize(0, ourCreatedObservations);
+		waitForSize(0, ourCreatedPatients);
+		waitForSize(50, ourUpdatedPatients);
+
+	}
+
+	@Test
+	public void testTriggerUsingSearchesWithCount() throws Exception {
+		String payload = "application/fhir+json";
+		IdType sub1id = createSubscription("Observation?", payload, ourListenerServerBase).getIdElement();
+		IdType sub2id = createSubscription("Patient?", payload, ourListenerServerBase).getIdElement();
+
+		// Create lots
+		for (int i = 0; i < 50; i++) {
+			Patient p = new Patient();
+			p.addName().setFamily("P" + i);
+			ourClient.create().resource(p).execute();
+		}
+		for (int i = 0; i < 50; i++) {
+			Observation o = new Observation();
+			o.setId("O" + i);
+			o.setStatus(Observation.ObservationStatus.FINAL);
+			o.getCode().setText("O" + i);
+			ourClient.update().resource(o).execute();
+		}
+
+		waitForSize(50, ourUpdatedObservations);
+		waitForSize(0, ourCreatedObservations);
+		waitForSize(0, ourCreatedPatients);
+		waitForSize(50, ourUpdatedPatients);
+		beforeReset();
+
+		ourSubscriptionTriggeringProvider.setMaxSubmitPerPass(33);
+
+		Parameters response = ourClient
+			.operation()
+			.onInstance(sub1id)
+			.named(JpaConstants.OPERATION_TRIGGER_SUBSCRIPTION)
+			.withParameter(Parameters.class, SubscriptionTriggeringProvider.SEARCH_URL, new StringType("Observation?_count=10"))
+			.execute();
+		String responseValue = response.getParameter().get(0).getValue().primitiveValue();
+		assertThat(responseValue, containsString("Subscription triggering job submitted as JOB ID"));
+
+		response = ourClient
+			.operation()
+			.onInstance(sub2id)
+			.named(JpaConstants.OPERATION_TRIGGER_SUBSCRIPTION)
+			.withParameter(Parameters.class, SubscriptionTriggeringProvider.SEARCH_URL, new StringType("Patient?_count=16"))
+			.execute();
+		responseValue = response.getParameter().get(0).getValue().primitiveValue();
+		assertThat(responseValue, containsString("Subscription triggering job submitted as JOB ID"));
+
+		waitForSize(10, ourUpdatedObservations);
+		waitForSize(0, ourCreatedObservations);
+		waitForSize(0, ourCreatedPatients);
+		waitForSize(16, ourUpdatedPatients);
+
+	}
+
+	@Test
+	public void testTriggerUsingInvalidSearchUrl() {
+
+		try {
+			ourClient
+				.operation()
+				.onType(Subscription.class)
+				.named(JpaConstants.OPERATION_TRIGGER_SUBSCRIPTION)
+				.withParameter(Parameters.class, SubscriptionTriggeringProvider.SEARCH_URL, new StringType("Observation"))
+				.execute();
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("HTTP 400 Bad Request: Search URL is not valid (must be in the form \"[resource type]?[optional params]\")", e.getMessage());
+		}
+	}
+
+	@Test
+	public void testTriggerAllSubscriptions() throws Exception {
+		String payload = "application/fhir+json";
+		IdType sub1id = createSubscription("Observation?", payload, ourListenerServerBase).getIdElement();
+		IdType sub2id = createSubscription("Observation?status=final", payload, ourListenerServerBase).getIdElement();
+
+		for (int i = 0; i < 10; i++) {
+			Observation o = new Observation();
+			o.setId("O" + i);
+			o.setStatus(Observation.ObservationStatus.FINAL);
+			o.getCode().setText("O" + i);
+			ourClient.update().resource(o).execute();
+		}
+
+		waitForSize(20, ourUpdatedObservations);
+		waitForSize(0, ourCreatedObservations);
+		waitForSize(0, ourCreatedPatients);
+		waitForSize(0, ourUpdatedPatients);
+		beforeReset();
+
+		ourSubscriptionTriggeringProvider.setMaxSubmitPerPass(50);
+
+		Parameters response = ourClient
+			.operation()
+			.onType(Subscription.class)
+			.named(JpaConstants.OPERATION_TRIGGER_SUBSCRIPTION)
+			.withParameter(Parameters.class, SubscriptionTriggeringProvider.SEARCH_URL, new StringType("Observation?"))
+			.execute();
+		String responseValue = response.getParameter().get(0).getValue().primitiveValue();
+		assertThat(responseValue, containsString("Subscription triggering job submitted as JOB ID"));
+
+		waitForSize(20, ourUpdatedObservations);
+		waitForSize(0, ourCreatedObservations);
+		waitForSize(0, ourCreatedPatients);
+		waitForSize(0, ourUpdatedPatients);
+
+	}
+
 	@Test
 	public void testTriggerResourceToSpecificSubscriptionWhichDoesntMatch() throws Exception {
 		String payload = "application/fhir+json";
@@ -172,8 +351,6 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 		waitForSize(1, ourUpdatedObservations);
 		assertEquals(Constants.CT_FHIR_JSON_NEW, ourContentTypes.get(0));
 
-		ourClient.registerInterceptor(new LoggingInterceptor(true));
-
 		Parameters response = ourClient
 			.operation()
 			.onInstance(subscriptionId)
@@ -182,7 +359,7 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 			.execute();
 
 		String responseValue = response.getParameter().get(0).getValue().primitiveValue();
-		assertEquals("Triggered resource " + obsId.getValue() + " for subscription", responseValue);
+		assertThat(responseValue, containsString("Subscription triggering job submitted as JOB ID"));
 
 		waitForQueueToDrain();
 		waitForSize(0, ourCreatedObservations);
@@ -191,6 +368,11 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 	}
 
 
+	@Override
+	protected boolean shouldLogClient() {
+		return false;
+	}
+
 	private void waitForQueueToDrain() throws InterruptedException {
 		RestHookTestDstu2Test.waitForQueueToDrain(ourRestHookSubscriptionInterceptor);
 	}
@@ -220,6 +402,31 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 
 	}
 
+	public static class PatientListener implements IResourceProvider {
+
+		@Create
+		public MethodOutcome create(@ResourceParam Patient thePatient, HttpServletRequest theRequest) {
+			ourLog.info("Received Listener Create");
+			ourContentTypes.add(theRequest.getHeader(Constants.HEADER_CONTENT_TYPE).replaceAll(";.*", ""));
+			ourCreatedPatients.add(thePatient);
+			return new MethodOutcome(new IdType("Patient/1"), true);
+		}
+
+		@Override
+		public Class<? extends IBaseResource> getResourceType() {
+			return Patient.class;
+		}
+
+		@Update
+		public MethodOutcome update(@ResourceParam Patient thePatient, HttpServletRequest theRequest) {
+			ourUpdatedPatients.add(thePatient);
+			ourContentTypes.add(theRequest.getHeader(Constants.HEADER_CONTENT_TYPE).replaceAll(";.*", ""));
+			ourLog.info("Received Listener Update (now have {} updates)", ourUpdatedPatients.size());
+			return new MethodOutcome(new IdType("Patient/1"), false);
+		}
+
+	}
+
 	@BeforeClass
 	public static void startListenerServer() throws Exception {
 		ourListenerPort = PortUtil.findFreePort();
@@ -227,7 +434,8 @@ public class SubscriptionTriggeringDstu3Test extends BaseResourceProviderDstu3Te
 		ourListenerServerBase = "http://localhost:" + ourListenerPort + "/fhir/context";
 
 		ObservationListener obsListener = new ObservationListener();
-		ourListenerRestServer.setResourceProviders(obsListener);
+		PatientListener ptListener = new PatientListener();
+		ourListenerRestServer.setResourceProviders(obsListener, ptListener);
 
 		ourListenerServer = new Server(ourListenerPort);
 

hapi-fhir-server/src/main/java/ca/uhn/fhir/rest/server/interceptor/auth/IAuthRuleBuilderRule.java

@@ -83,7 +83,8 @@ public interface IAuthRuleBuilderRule {
 
 	/**
 	 * This rule applies to the FHIR transaction operation. Transaction is a special
-	 * case in that it bundles other operations
+	 * case in that it bundles other operations. This permission also allows FHIR
+	 * batch to be performed.
 	 */
 	IAuthRuleBuilderRuleTransaction transaction();
 

hapi-fhir-server/src/main/java/ca/uhn/fhir/rest/server/interceptor/auth/RuleBuilder.java

@@ -223,7 +223,6 @@ public class RuleBuilder implements IAuthRuleBuilder {
 
 		@Override
 		public IAuthRuleBuilderRuleTransaction transaction() {
-			myRuleOp = RuleOpEnum.TRANSACTION;
 			return new RuleBuilderRuleTransaction();
 		}
 
@@ -520,11 +519,20 @@ public class RuleBuilder implements IAuthRuleBuilder {
 
 				@Override
 				public IAuthRuleBuilderRuleOpClassifierFinished andApplyNormalRules() {
+					// Allow transaction
 					RuleImplOp rule = new RuleImplOp(myRuleName);
 					rule.setMode(myRuleMode);
-					rule.setOp(myRuleOp);
+					rule.setOp(RuleOpEnum.TRANSACTION);
 					rule.setTransactionAppliesToOp(TransactionAppliesToEnum.ANY_OPERATION);
 					myRules.add(rule);
+
+					// Allow batch
+					rule = new RuleImplOp(myRuleName);
+					rule.setMode(myRuleMode);
+					rule.setOp(RuleOpEnum.BATCH);
+					rule.setTransactionAppliesToOp(TransactionAppliesToEnum.ANY_OPERATION);
+					myRules.add(rule);
+
 					return new RuleBuilderFinished(rule);
 				}
 

hapi-fhir-structures-dstu2/src/test/java/ca/uhn/fhir/rest/server/interceptor/auth/AuthorizationInterceptorDstu2Test.java

@@ -262,7 +262,7 @@ public class AuthorizationInterceptorDstu2Test {
 		httpPost.setEntity(createFhirResourceEntity(input));
 		status = ourClient.execute(httpPost);
 		extractResponseAndClose(status);
-		assertEquals(403, status.getStatusLine().getStatusCode());
+		assertEquals(200, status.getStatusLine().getStatusCode());
 	}
 
 	@Test

hapi-fhir-structures-dstu3/src/test/java/ca/uhn/fhir/rest/server/interceptor/AuthorizationInterceptorDstu3Test.java

@@ -495,7 +495,7 @@ public class AuthorizationInterceptorDstu3Test {
 		httpPost.setEntity(createFhirResourceEntity(input));
 		status = ourClient.execute(httpPost);
 		extractResponseAndClose(status);
-		assertEquals(403, status.getStatusLine().getStatusCode());
+		assertEquals(200, status.getStatusLine().getStatusCode());
 	}
 
 	@Test

hapi-fhir-structures-r4/src/test/java/ca/uhn/fhir/rest/server/interceptor/AuthorizationInterceptorR4Test.java

@@ -469,7 +469,7 @@ public class AuthorizationInterceptorR4Test {
 	}
 
 	@Test
-	public void testBatchWhenOnlyTransactionAllowed() throws Exception {
+	public void testBatchAllowed() throws Exception {
 		ourServlet.registerInterceptor(new AuthorizationInterceptor(PolicyEnum.DENY) {
 			@Override
 			public List<IAuthRule> buildRuleList(RequestDetails theRequestDetails) {
@@ -498,7 +498,7 @@ public class AuthorizationInterceptorR4Test {
 		httpPost.setEntity(createFhirResourceEntity(input));
 		status = ourClient.execute(httpPost);
 		extractResponseAndClose(status);
-		assertEquals(403, status.getStatusLine().getStatusCode());
+		assertEquals(200, status.getStatusLine().getStatusCode());
 	}
 
 	@Test

src/changes/changes.xml

@@ -95,6 +95,11 @@
 				When using the testpage overlay to delete a resource, currently a crash can occur
 				if an unqualified ID is placed in the ID text box. This has been corrected.
 			</action>
+			<action type="fix">
+				AuthorizationInterceptor did not allow FHIR batch operations when the transaction() 
+				permission is granted. This has been corrected so that transaction() allows both
+				batch and transaction requests to proceed.
+			</action>
 		</release>
 
 		<release version="3.5.0" date="2018-09-17">