Fixes to migrator and count logic
This commit is contained in:
James Agnew
parent
eb7b5ca02a
commit
51a69f0dc9
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@ -32,7 +32,10 @@ import ca.uhn.fhir.jpa.subscription.resthook.SubscriptionRestHookInterceptor;
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import ca.uhn.fhir.jpa.subscription.websocket.SubscriptionWebsocketInterceptor;
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import ca.uhn.fhir.jpa.util.IReindexController;
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import ca.uhn.fhir.jpa.util.ReindexController;
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import org.hibernate.cfg.AvailableSettings;
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import org.hibernate.jpa.HibernatePersistenceProvider;
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import org.hibernate.query.criteria.LiteralHandlingMode;
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import org.hibernate.resource.jdbc.spi.PhysicalConnectionHandlingMode;
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import org.springframework.beans.factory.annotation.Autowire;
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import org.springframework.beans.factory.annotation.Autowired;
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import org.springframework.context.annotation.Bean;
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@ -52,6 +55,7 @@ import org.springframework.scheduling.concurrent.ScheduledExecutorFactoryBean;
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import org.springframework.scheduling.config.ScheduledTaskRegistrar;
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import javax.annotation.Nonnull;
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import java.util.Map;
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import java.util.concurrent.ScheduledExecutorService;
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@Configuration
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@ -85,7 +89,22 @@ public abstract class BaseConfig implements SchedulingConfigurer {
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* factory with HAPI FHIR customizations
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*/
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protected LocalContainerEntityManagerFactoryBean entityManagerFactory() {
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LocalContainerEntityManagerFactoryBean retVal = new LocalContainerEntityManagerFactoryBean();
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LocalContainerEntityManagerFactoryBean retVal = new LocalContainerEntityManagerFactoryBean() {
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@Override
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public Map<String, Object> getJpaPropertyMap() {
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Map<String, Object> retVal = super.getJpaPropertyMap();
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if (!retVal.containsKey(AvailableSettings.CRITERIA_LITERAL_HANDLING_MODE)) {
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retVal.put(AvailableSettings.CRITERIA_LITERAL_HANDLING_MODE, LiteralHandlingMode.BIND);
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}
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if (!retVal.containsKey(AvailableSettings.CONNECTION_HANDLING)) {
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retVal.put(AvailableSettings.CONNECTION_HANDLING, PhysicalConnectionHandlingMode.DELAYED_ACQUISITION_AND_HOLD);
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}
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return retVal;
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}
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};
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configureEntityManagerFactory(retVal, fhirContext());
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return retVal;
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}
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@ -150,6 +150,13 @@ public class Search implements Serializable {
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myFailureMessage = left(theFailureMessage, FAILURE_MESSAGE_LENGTH);
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}
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// FIXME: remove this
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private static final Logger ourLog = LoggerFactory.getLogger(Search.class);
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@PrePersist
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public void prePersist() {
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ourLog.info("*** SAVING WITH VERSION {} TOTAL {}", myVersion, myTotalCount);
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}
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public Long getId() {
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return myId;
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}
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@ -111,8 +111,9 @@ public class SearchParamPresent implements Serializable {
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return b.build();
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}
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public static long calculateHashPresence(String theResourceType, String theParamName, boolean thePresent) {
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return BaseResourceIndexedSearchParam.hash(theResourceType, theParamName, Boolean.toString(thePresent));
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public static long calculateHashPresence(String theResourceType, String theParamName, Boolean thePresent) {
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String string = thePresent != null ? Boolean.toString(thePresent) : Boolean.toString(false);
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return BaseResourceIndexedSearchParam.hash(theResourceType, theParamName, string);
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}
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}
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@ -24,10 +24,15 @@ import ca.uhn.fhir.context.FhirContext;
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import ca.uhn.fhir.jpa.dao.IDao;
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import ca.uhn.fhir.jpa.dao.ISearchBuilder;
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import ca.uhn.fhir.jpa.dao.data.ISearchDao;
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import ca.uhn.fhir.jpa.entity.*;
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import ca.uhn.fhir.jpa.entity.BaseHasResource;
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import ca.uhn.fhir.jpa.entity.ResourceHistoryTable;
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import ca.uhn.fhir.jpa.entity.Search;
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import ca.uhn.fhir.jpa.entity.SearchTypeEnum;
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import ca.uhn.fhir.model.primitive.InstantDt;
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import ca.uhn.fhir.rest.api.server.IBundleProvider;
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import org.hl7.fhir.instance.model.api.IBaseResource;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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import org.springframework.transaction.PlatformTransactionManager;
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import org.springframework.transaction.TransactionDefinition;
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import org.springframework.transaction.TransactionStatus;
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@ -46,6 +51,7 @@ import java.util.*;
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public class PersistedJpaBundleProvider implements IBundleProvider {
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private static final Logger ourLog = LoggerFactory.getLogger(PersistedJpaBundleProvider.class);
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private FhirContext myContext;
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private IDao myDao;
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private EntityManager myEntityManager;
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@ -149,11 +155,10 @@ public class PersistedJpaBundleProvider implements IBundleProvider {
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if (mySearchEntity == null) {
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ensureDependenciesInjected();
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TransactionTemplate template = new TransactionTemplate(myPlatformTransactionManager);
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template.setPropagationBehavior(TransactionTemplate.PROPAGATION_REQUIRED);
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return template.execute(new TransactionCallback<Boolean>() {
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@Override
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public Boolean doInTransaction(TransactionStatus theStatus) {
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TransactionTemplate txTemplate = new TransactionTemplate(myPlatformTransactionManager);
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txTemplate.setPropagationBehavior(TransactionDefinition.PROPAGATION_REQUIRED);
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txTemplate.setIsolationLevel(TransactionDefinition.ISOLATION_READ_UNCOMMITTED);
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return txTemplate.execute(s -> {
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try {
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setSearchEntity(mySearchDao.findByUuid(myUuid));
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@ -161,6 +166,9 @@ public class PersistedJpaBundleProvider implements IBundleProvider {
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return false;
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}
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// FIXME: remove
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ourLog.info("** Retrieved search with version {} and total {}", mySearchEntity.getVersion(), mySearchEntity.getTotalCount());
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// Load the includes now so that they are available outside of this transaction
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mySearchEntity.getIncludes().size();
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@ -168,7 +176,6 @@ public class PersistedJpaBundleProvider implements IBundleProvider {
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} catch (NoResultException e) {
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return false;
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}
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}
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});
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}
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return true;
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@ -56,10 +56,13 @@ import org.springframework.transaction.TransactionStatus;
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import org.springframework.transaction.annotation.Propagation;
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import org.springframework.transaction.annotation.Transactional;
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import org.springframework.transaction.support.TransactionCallbackWithoutResult;
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import org.springframework.transaction.support.TransactionSynchronization;
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import org.springframework.transaction.support.TransactionSynchronizationManager;
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import org.springframework.transaction.support.TransactionTemplate;
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import javax.annotation.Nullable;
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import javax.persistence.EntityManager;
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import javax.transaction.TransactionManager;
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import java.util.*;
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import java.util.concurrent.*;
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@ -421,41 +424,39 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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}
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public abstract class BaseTask implements Callable<Void> {
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protected Search getSearch() {
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return getSearch;
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}
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private final Search getSearch;
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private final SearchParameterMap myParams;
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private final IDao myCallingDao;
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private final String myResourceType;
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private final ArrayList<Long> mySyncedPids = new ArrayList<>();
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protected CountDownLatch getInitialCollectionLatch() {
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return myInitialCollectionLatch;
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}
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private final CountDownLatch myInitialCollectionLatch = new CountDownLatch(1);
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private final CountDownLatch myCompletionLatch;
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private final ArrayList<Long> myUnsyncedPids = new ArrayList<>();
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private Search mySearch;
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private boolean myAbortRequested;
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private int myCountSaved = 0;
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private boolean myAdditionalPrefetchThresholdsRemaining;
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private List<Long> myPreviouslyAddedResourcePids;
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private Integer myMaxResultsToFetch;
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private int myCountFetchedDuringThisPass;
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/**
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* Constructor
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*/
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protected BaseTask(Search theSearch, IDao theCallingDao, SearchParameterMap theParams, String theResourceType) {
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getSearch = theSearch;
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mySearch = theSearch;
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myCallingDao = theCallingDao;
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myParams = theParams;
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myResourceType = theResourceType;
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myCompletionLatch = new CountDownLatch(1);
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}
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protected Search getSearch() {
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return mySearch;
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}
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protected CountDownLatch getInitialCollectionLatch() {
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return myInitialCollectionLatch;
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}
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protected void setPreviouslyAddedResourcePids(List<Long> thePreviouslyAddedResourcePids) {
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myPreviouslyAddedResourcePids = thePreviouslyAddedResourcePids;
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myCountSaved = myPreviouslyAddedResourcePids.size();
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@ -475,8 +476,8 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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boolean keepWaiting;
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do {
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synchronized (mySyncedPids) {
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ourLog.trace("Search status is {}", getSearch.getStatus());
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keepWaiting = mySyncedPids.size() < theToIndex && getSearch.getStatus() == SearchStatusEnum.LOADING;
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ourLog.trace("Search status is {}", mySearch.getStatus());
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keepWaiting = mySyncedPids.size() < theToIndex && mySearch.getStatus() == SearchStatusEnum.LOADING;
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}
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if (keepWaiting) {
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ourLog.info("Waiting, as we only have {} results", mySyncedPids.size());
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@ -492,7 +493,7 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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ArrayList<Long> retVal = new ArrayList<>();
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synchronized (mySyncedPids) {
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verifySearchHasntFailedOrThrowInternalErrorException(getSearch);
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verifySearchHasntFailedOrThrowInternalErrorException(mySearch);
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int toIndex = theToIndex;
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if (mySyncedPids.size() < toIndex) {
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@ -526,13 +527,13 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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txTemplate.execute(new TransactionCallbackWithoutResult() {
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@Override
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protected void doInTransactionWithoutResult(TransactionStatus theArg0) {
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if (getSearch.getId() == null) {
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if (mySearch.getId() == null) {
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doSaveSearch();
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}
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List<SearchResult> resultsToSave = Lists.newArrayList();
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for (Long nextPid : myUnsyncedPids) {
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SearchResult nextResult = new SearchResult(getSearch);
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SearchResult nextResult = new SearchResult(mySearch);
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nextResult.setResourcePid(nextPid);
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nextResult.setOrder(myCountSaved++);
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resultsToSave.add(nextResult);
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@ -547,22 +548,22 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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myUnsyncedPids.clear();
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if (theResultIter.hasNext() == false) {
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getSearch.setNumFound(myCountSaved);
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mySearch.setNumFound(myCountSaved);
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if (myMaxResultsToFetch != null && myCountSaved < myMaxResultsToFetch) {
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getSearch.setStatus(SearchStatusEnum.FINISHED);
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getSearch.setTotalCount(myCountSaved);
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mySearch.setStatus(SearchStatusEnum.FINISHED);
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mySearch.setTotalCount(myCountSaved);
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} else if (myAdditionalPrefetchThresholdsRemaining) {
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ourLog.trace("Setting search status to PASSCMPLET");
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getSearch.setStatus(SearchStatusEnum.PASSCMPLET);
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getSearch.setSearchParameterMap(myParams);
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mySearch.setStatus(SearchStatusEnum.PASSCMPLET);
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mySearch.setSearchParameterMap(myParams);
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} else {
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getSearch.setStatus(SearchStatusEnum.FINISHED);
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getSearch.setTotalCount(myCountSaved);
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mySearch.setStatus(SearchStatusEnum.FINISHED);
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mySearch.setTotalCount(myCountSaved);
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}
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}
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}
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getSearch.setNumFound(myCountSaved);
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mySearch.setNumFound(myCountSaved);
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int numSynced;
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synchronized (mySyncedPids) {
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@ -615,6 +616,7 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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TransactionTemplate txTemplate = new TransactionTemplate(myManagedTxManager);
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txTemplate.setPropagationBehavior(TransactionDefinition.PROPAGATION_REQUIRES_NEW);
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txTemplate.setIsolationLevel(TransactionDefinition.ISOLATION_READ_UNCOMMITTED);
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txTemplate.execute(new TransactionCallbackWithoutResult() {
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@Override
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protected void doInTransactionWithoutResult(TransactionStatus theStatus) {
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@ -622,7 +624,7 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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}
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});
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ourLog.info("Completed search for [{}] and found {} resources in {}ms", getSearch.getSearchQueryString(), mySyncedPids.size(), sw.getMillis());
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ourLog.info("Completed search for [{}{}] and found {} resources in {}ms", mySearch.getResourceType(), mySearch.getSearchQueryString(), mySyncedPids.size(), sw.getMillis());
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} catch (Throwable t) {
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@ -655,15 +657,15 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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failureCode = ((BaseServerResponseException) t).getStatusCode();
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}
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getSearch.setFailureMessage(failureMessage);
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getSearch.setFailureCode(failureCode);
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getSearch.setStatus(SearchStatusEnum.FAILED);
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mySearch.setFailureMessage(failureMessage);
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mySearch.setFailureCode(failureCode);
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mySearch.setStatus(SearchStatusEnum.FAILED);
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saveSearch();
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} finally {
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myIdToSearchTask.remove(getSearch.getUuid());
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myIdToSearchTask.remove(mySearch.getUuid());
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myInitialCollectionLatch.countDown();
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markComplete();
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@ -672,14 +674,26 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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}
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private void doSaveSearch() {
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if (getSearch.getId() == null) {
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mySearchDao.save(getSearch);
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for (SearchInclude next : getSearch.getIncludes()) {
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// FIXME: remove
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Integer totalCount = mySearch.getTotalCount();
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TransactionSynchronizationManager.registerSynchronization(new TransactionSynchronization() {
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@Override
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public void afterCommit() {
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ourLog.info("Have flushed save with total {}", totalCount);
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}
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});
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ourLog.info("** Saving search version {} count {}", mySearch.getVersion(), totalCount);
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if (mySearch.getId() == null) {
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mySearch = mySearchDao.saveAndFlush(mySearch);
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for (SearchInclude next : mySearch.getIncludes()) {
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mySearchIncludeDao.save(next);
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}
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} else {
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mySearchDao.save(getSearch);
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mySearch = mySearchDao.saveAndFlush(mySearch);
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}
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}
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/**
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@ -698,18 +712,20 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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boolean wantCount = myParams.getSummaryMode().contains(SummaryEnum.COUNT);
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boolean wantOnlyCount = wantCount && myParams.getSummaryMode().size() == 1;
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if (wantCount) {
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ourLog.info("** performing count");
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ISearchBuilder sb = newSearchBuilder();
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Iterator<Long> countIterator = sb.createCountQuery(myParams, getSearch.getUuid());
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Iterator<Long> countIterator = sb.createCountQuery(myParams, mySearch.getUuid());
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Long count = countIterator.next();
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ourLog.info("** got count {}", count);
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TransactionTemplate txTemplate = new TransactionTemplate(myManagedTxManager);
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txTemplate.setPropagationBehavior(TransactionDefinition.PROPAGATION_REQUIRED);
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// txTemplate.setPropagationBehavior(TransactionDefinition.PROPAGATION_REQUIRES_NEW);
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txTemplate.execute(new TransactionCallbackWithoutResult() {
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@Override
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protected void doInTransactionWithoutResult(TransactionStatus theArg0) {
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getSearch.setTotalCount(count.intValue());
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mySearch.setTotalCount(count.intValue());
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if (wantOnlyCount) {
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getSearch.setStatus(SearchStatusEnum.FINISHED);
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mySearch.setStatus(SearchStatusEnum.FINISHED);
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}
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doSaveSearch();
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}
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@ -719,6 +735,7 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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}
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}
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ourLog.info("** done count");
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ISearchBuilder sb = newSearchBuilder();
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/*
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@ -727,7 +744,7 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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* "pre-fetch thresholds" specified in DaoConfig#getPreFetchThresholds()
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* as well as the value of the _count parameter.
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*/
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int currentlyLoaded = defaultIfNull(getSearch.getNumFound(), 0);
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int currentlyLoaded = defaultIfNull(mySearch.getNumFound(), 0);
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int minWanted = 0;
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if (myParams.getCount() != null) {
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minWanted = myParams.getCount();
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@ -774,7 +791,7 @@ public class SearchCoordinatorSvcImpl implements ISearchCoordinatorSvc {
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/*
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* Construct the SQL query we'll be sending to the database
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*/
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Iterator<Long> theResultIterator = sb.createQuery(myParams, getSearch.getUuid());
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Iterator<Long> theResultIterator = sb.createQuery(myParams, mySearch.getUuid());
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/*
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* The following loop actually loads the PIDs of the resources
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@ -4,10 +4,11 @@ import ca.uhn.fhir.jpa.dao.DaoConfig;
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import ca.uhn.fhir.rest.server.interceptor.RequestValidatingInterceptor;
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import ca.uhn.fhir.validation.ResultSeverityEnum;
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import net.ttddyy.dsproxy.listener.ThreadQueryCountHolder;
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import net.ttddyy.dsproxy.listener.logging.SLF4JLogLevel;
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import net.ttddyy.dsproxy.support.ProxyDataSourceBuilder;
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import org.apache.commons.dbcp2.BasicDataSource;
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import org.hibernate.cfg.AvailableSettings;
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import org.hibernate.query.criteria.LiteralHandlingMode;
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import org.hibernate.resource.jdbc.spi.PhysicalConnectionHandlingMode;
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import org.springframework.context.annotation.Bean;
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import org.springframework.context.annotation.Configuration;
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import org.springframework.context.annotation.Lazy;
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@ -23,7 +24,7 @@ import java.sql.SQLException;
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import java.util.Properties;
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import java.util.concurrent.TimeUnit;
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import static org.junit.Assert.*;
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import static org.junit.Assert.fail;
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@Configuration
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@EnableTransactionManagement()
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@ -134,7 +135,6 @@ public class TestR4Config extends BaseJavaConfigR4 {
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extraProperties.put("hibernate.search.default.directory_provider", "ram");
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extraProperties.put("hibernate.search.lucene_version", "LUCENE_CURRENT");
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extraProperties.put("hibernate.search.autoregister_listeners", "true");
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extraProperties.put("hibernate.criteria.literal_handling_mode", LiteralHandlingMode.BIND);
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return extraProperties;
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}
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|
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@ -3,6 +3,7 @@ package ca.uhn.fhir.jpa.dao.r4;
|
|||
import ca.uhn.fhir.jpa.dao.SearchParameterMap;
|
||||
import ca.uhn.fhir.jpa.entity.Search;
|
||||
import ca.uhn.fhir.jpa.entity.SearchStatusEnum;
|
||||
import ca.uhn.fhir.jpa.search.SearchCoordinatorSvcImpl;
|
||||
import ca.uhn.fhir.rest.api.SortSpec;
|
||||
import ca.uhn.fhir.rest.api.SummaryEnum;
|
||||
import ca.uhn.fhir.rest.api.server.IBundleProvider;
|
||||
|
|
@ -15,6 +16,7 @@ import org.junit.After;
|
|||
import org.junit.AfterClass;
|
||||
import org.junit.Before;
|
||||
import org.junit.Test;
|
||||
import org.springframework.aop.framework.AopProxyUtils;
|
||||
import org.springframework.scheduling.concurrent.ThreadPoolExecutorFactoryBean;
|
||||
|
||||
import java.util.ArrayList;
|
||||
|
|
@ -26,17 +28,23 @@ import java.util.concurrent.Future;
|
|||
import static org.apache.commons.lang3.StringUtils.leftPad;
|
||||
import static org.hamcrest.Matchers.empty;
|
||||
import static org.hamcrest.Matchers.hasSize;
|
||||
import static org.junit.Assert.assertEquals;
|
||||
import static org.junit.Assert.assertNull;
|
||||
import static org.junit.Assert.assertThat;
|
||||
import static org.junit.Assert.*;
|
||||
|
||||
@SuppressWarnings({"unchecked", "deprecation", "Duplicates"})
|
||||
public class FhirResourceDaoR4SearchOptimizedTest extends BaseJpaR4Test {
|
||||
|
||||
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(FhirResourceDaoR4SearchOptimizedTest.class);
|
||||
private SearchCoordinatorSvcImpl mySearchCoordinatorSvcImpl;
|
||||
|
||||
@Before
|
||||
public void before() {
|
||||
mySearchCoordinatorSvcImpl = (SearchCoordinatorSvcImpl) AopProxyUtils.getSingletonTarget(mySearchCoordinatorSvc);
|
||||
}
|
||||
|
||||
@After
|
||||
public final void after() {
|
||||
mySearchCoordinatorSvcImpl.setLoadingThrottleForUnitTests(null);
|
||||
mySearchCoordinatorSvcImpl.setSyncSizeForUnitTests(SearchCoordinatorSvcImpl.DEFAULT_SYNC_SIZE);
|
||||
}
|
||||
|
||||
@Before
|
||||
|
|
@ -119,6 +127,30 @@ public class FhirResourceDaoR4SearchOptimizedTest extends BaseJpaR4Test {
|
|||
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testFetchCountAndDataForSlowLoading() {
|
||||
mySearchCoordinatorSvcImpl.setLoadingThrottleForUnitTests(25);
|
||||
mySearchCoordinatorSvcImpl.setSyncSizeForUnitTests(10);
|
||||
|
||||
myDaoConfig.setSearchPreFetchThresholds(Arrays.asList(1000, -1));
|
||||
|
||||
SearchParameterMap params = new SearchParameterMap();
|
||||
params.setSort(new SortSpec(Patient.SP_NAME));
|
||||
params.setCount(5);
|
||||
params.setSummaryMode(Sets.newHashSet(SummaryEnum.COUNT, SummaryEnum.DATA));
|
||||
IBundleProvider results = myPatientDao.search(params);
|
||||
String uuid = results.getUuid();
|
||||
ourLog.info("** Search returned UUID: {}", uuid);
|
||||
|
||||
// assertEquals(200, myDatabaseBackedPagingProvider.retrieveResultList(uuid).size().intValue());
|
||||
assertEquals(200, results.size().intValue());
|
||||
List<String> ids = toUnqualifiedVersionlessIdValues(results, 0, 5, true);
|
||||
assertEquals("Patient/PT00000", ids.get(0));
|
||||
assertEquals("Patient/PT00004", ids.get(4));
|
||||
|
||||
ourLog.info("** About to make new query for search with UUID: {}", uuid);
|
||||
assertEquals(200, myDatabaseBackedPagingProvider.retrieveResultList(uuid).size().intValue());
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testFetchCountAndData() {
|
||||
|
|
@ -135,6 +167,21 @@ public class FhirResourceDaoR4SearchOptimizedTest extends BaseJpaR4Test {
|
|||
assertEquals("Patient/PT00000", ids.get(0));
|
||||
assertEquals("Patient/PT00009", ids.get(9));
|
||||
assertEquals(200, myDatabaseBackedPagingProvider.retrieveResultList(uuid).size().intValue());
|
||||
|
||||
// Try the same query again. This time the same thing should come back, but
|
||||
// from the cache...
|
||||
|
||||
params = new SearchParameterMap();
|
||||
params.setSort(new SortSpec(Patient.SP_NAME));
|
||||
params.setSummaryMode(Sets.newHashSet(SummaryEnum.COUNT, SummaryEnum.DATA));
|
||||
results = myPatientDao.search(params);
|
||||
uuid = results.getUuid();
|
||||
assertEquals(200, results.size().intValue());
|
||||
ids = toUnqualifiedVersionlessIdValues(results, 0, 10, true);
|
||||
assertEquals("Patient/PT00000", ids.get(0));
|
||||
assertEquals("Patient/PT00009", ids.get(9));
|
||||
assertEquals(200, myDatabaseBackedPagingProvider.retrieveResultList(uuid).size().intValue());
|
||||
|
||||
}
|
||||
|
||||
@Test
|
||||
|
|
|
|||
|
|
@ -731,7 +731,15 @@ public class RestfulServerUtils {
|
|||
if (theResource == null) {
|
||||
// No response is being returned
|
||||
} else if (encodingDomainResourceAsText && theResource instanceof IResource) {
|
||||
// DSTU2
|
||||
writer.append(((IResource) theResource).getText().getDiv().getValueAsString());
|
||||
} else if (encodingDomainResourceAsText && theResource instanceof IDomainResource) {
|
||||
// DSTU3+
|
||||
try {
|
||||
writer.append(((IDomainResource) theResource).getText().getDivAsString());
|
||||
} catch (Exception e) {
|
||||
throw new InternalErrorException(e);
|
||||
}
|
||||
} else {
|
||||
FhirVersionEnum forVersion = theResource.getStructureFhirVersionEnum();
|
||||
IParser parser = getNewParser(theServer.getFhirContext(), forVersion, theRequestDetails);
|
||||
|
|
|
|||
|
|
@ -69,23 +69,25 @@ public class SummaryEnumParameter implements IParameter {
|
|||
retVal = null;
|
||||
} else if (isBlank(summary[0])) {
|
||||
retVal = null;
|
||||
} else if (summary.length == 1) {
|
||||
} else if (summary.length == 1 && summary[0].indexOf(',') == -1) {
|
||||
retVal = toCollectionOrNull(SummaryEnum.fromCode(summary[0]));
|
||||
if (retVal == null) {
|
||||
retVal = toCollectionOrNull(SummaryEnum.fromCode(summary[0].toLowerCase()));
|
||||
}
|
||||
} else {
|
||||
retVal = new HashSet<>();
|
||||
for (String next : summary) {
|
||||
SummaryEnum value = SummaryEnum.fromCode(next);
|
||||
for (String nextParamValue : summary) {
|
||||
for (String nextParamValueTok : nextParamValue.split(",")) {
|
||||
SummaryEnum value = SummaryEnum.fromCode(nextParamValueTok);
|
||||
if (value == null) {
|
||||
value = SummaryEnum.fromCode(next.toLowerCase());
|
||||
value = SummaryEnum.fromCode(nextParamValueTok.toLowerCase());
|
||||
}
|
||||
if (value != null) {
|
||||
retVal.add(value);
|
||||
}
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
if (retVal != null) {
|
||||
if (retVal.contains(SummaryEnum.TEXT)) {
|
||||
|
|
|
|||
|
|
@ -36,13 +36,13 @@ import ca.uhn.fhir.rest.api.SummaryEnum;
|
|||
import ca.uhn.fhir.util.PortUtil;
|
||||
import ca.uhn.fhir.util.TestUtil;
|
||||
|
||||
public class SummaryParamTest {
|
||||
public class SummaryParamDstu2Test {
|
||||
|
||||
private static CloseableHttpClient ourClient;
|
||||
private static FhirContext ourCtx = FhirContext.forDstu2();
|
||||
private static SummaryEnum ourLastSummary;
|
||||
private static List<SummaryEnum> ourLastSummaryList;
|
||||
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(SummaryParamTest.class);
|
||||
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(SummaryParamDstu2Test.class);
|
||||
private static int ourPort;
|
||||
|
||||
private static Server ourServer;
|
||||
|
|
@ -0,0 +1,362 @@
|
|||
package ca.uhn.fhir.rest.server;
|
||||
|
||||
import ca.uhn.fhir.context.FhirContext;
|
||||
import ca.uhn.fhir.rest.annotation.IdParam;
|
||||
import ca.uhn.fhir.rest.annotation.Read;
|
||||
import ca.uhn.fhir.rest.annotation.Search;
|
||||
import ca.uhn.fhir.rest.api.Constants;
|
||||
import ca.uhn.fhir.rest.api.SummaryEnum;
|
||||
import ca.uhn.fhir.util.PortUtil;
|
||||
import ca.uhn.fhir.util.TestUtil;
|
||||
import org.apache.commons.io.IOUtils;
|
||||
import org.apache.http.HttpResponse;
|
||||
import org.apache.http.client.methods.HttpGet;
|
||||
import org.apache.http.impl.client.CloseableHttpClient;
|
||||
import org.apache.http.impl.client.HttpClientBuilder;
|
||||
import org.apache.http.impl.conn.PoolingHttpClientConnectionManager;
|
||||
import org.eclipse.jetty.server.Server;
|
||||
import org.eclipse.jetty.servlet.ServletHandler;
|
||||
import org.eclipse.jetty.servlet.ServletHolder;
|
||||
import org.hl7.fhir.instance.model.api.IBaseResource;
|
||||
import org.hl7.fhir.r4.model.IdType;
|
||||
import org.hl7.fhir.r4.model.MedicationRequest;
|
||||
import org.hl7.fhir.r4.model.Patient;
|
||||
import org.hl7.fhir.r4.model.Reference;
|
||||
import org.junit.AfterClass;
|
||||
import org.junit.Before;
|
||||
import org.junit.BeforeClass;
|
||||
import org.junit.Test;
|
||||
|
||||
import java.util.Arrays;
|
||||
import java.util.List;
|
||||
import java.util.concurrent.TimeUnit;
|
||||
|
||||
import static org.hamcrest.Matchers.*;
|
||||
import static org.junit.Assert.assertEquals;
|
||||
import static org.junit.Assert.assertThat;
|
||||
|
||||
public class SummaryParamR4Test {
|
||||
|
||||
private static CloseableHttpClient ourClient;
|
||||
private static FhirContext ourCtx = FhirContext.forR4();
|
||||
private static SummaryEnum ourLastSummary;
|
||||
private static List<SummaryEnum> ourLastSummaryList;
|
||||
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(SummaryParamR4Test.class);
|
||||
private static int ourPort;
|
||||
|
||||
private static Server ourServer;
|
||||
|
||||
@Before
|
||||
public void before() {
|
||||
ourLastSummary = null;
|
||||
ourLastSummaryList = null;
|
||||
}
|
||||
@Test
|
||||
public void testReadSummaryData() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient/1?_summary=" + SummaryEnum.DATA.getCode());
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertEquals(Constants.CT_FHIR_XML_NEW + Constants.CHARSET_UTF8_CTSUFFIX.replace(" ", "").toLowerCase(), status.getEntity().getContentType().getValue().replace(" ", "").replace("UTF", "utf"));
|
||||
assertThat(responseContent, not(containsString("<Bundle")));
|
||||
assertThat(responseContent, (containsString("<Patien")));
|
||||
assertThat(responseContent, not(containsString("<div>THE DIV</div>")));
|
||||
assertThat(responseContent, (containsString("family")));
|
||||
assertThat(responseContent, (containsString("maritalStatus")));
|
||||
assertEquals(SummaryEnum.DATA, ourLastSummary);
|
||||
}
|
||||
|
||||
|
||||
|
||||
@Test
|
||||
public void testReadSummaryText() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient/1?_summary=" + SummaryEnum.TEXT.getCode());
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertEquals(Constants.CT_HTML_WITH_UTF8.replace(" ", "").toLowerCase(), status.getEntity().getContentType().getValue().replace(" ", "").replace("UTF", "utf"));
|
||||
assertThat(responseContent, not(containsString("<Bundle")));
|
||||
assertThat(responseContent, not(containsString("<Medic")));
|
||||
assertEquals("<div xmlns=\"http://www.w3.org/1999/xhtml\">THE DIV</div>", responseContent);
|
||||
assertThat(responseContent, not(containsString("efer")));
|
||||
assertEquals(SummaryEnum.TEXT, ourLastSummary);
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testReadSummaryTextWithMandatory() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/MedicationRequest/1?_summary=" + SummaryEnum.TEXT.getCode());
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertEquals(Constants.CT_HTML_WITH_UTF8.replace(" ", "").toLowerCase(), status.getEntity().getContentType().getValue().replace(" ", "").replace("UTF", "utf"));
|
||||
assertThat(responseContent, not(containsString("<Bundle")));
|
||||
assertThat(responseContent, not(containsString("<Patien")));
|
||||
assertEquals("<div xmlns=\"http://www.w3.org/1999/xhtml\">TEXT</div>", responseContent);
|
||||
assertThat(responseContent, not(containsString("family")));
|
||||
assertThat(responseContent, not(containsString("maritalStatus")));
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testReadSummaryTrue() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient/1?_summary=" + SummaryEnum.TRUE.getCode());
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertEquals(Constants.CT_FHIR_XML_NEW + Constants.CHARSET_UTF8_CTSUFFIX.replace(" ", "").toLowerCase(), status.getEntity().getContentType().getValue().replace(" ", "").replace("UTF", "utf"));
|
||||
assertThat(responseContent, not(containsString("<Bundle")));
|
||||
assertThat(responseContent, (containsString("<Patien")));
|
||||
assertThat(responseContent, not(containsString("<div>THE DIV</div>")));
|
||||
assertThat(responseContent, (containsString("family")));
|
||||
assertThat(responseContent, not(containsString("maritalStatus")));
|
||||
assertEquals(SummaryEnum.TRUE, ourLastSummary);
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testSearchSummaryCount() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient?_pretty=true&_summary=" + SummaryEnum.COUNT.getCode());
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertThat(responseContent, (containsString("<total value=\"1\"/>")));
|
||||
assertThat(responseContent, not(containsString("entry")));
|
||||
assertThat(responseContent, not(containsString("THE DIV")));
|
||||
assertThat(responseContent, not(containsString("family")));
|
||||
assertThat(responseContent, not(containsString("maritalStatus")));
|
||||
assertEquals(SummaryEnum.COUNT, ourLastSummary);
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testSearchSummaryCountAndData() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient?_pretty=true&_summary=" + SummaryEnum.COUNT.getCode() + "," + SummaryEnum.DATA.getCode());
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertThat(responseContent, (containsString("<total value=\"1\"/>")));
|
||||
assertThat(responseContent, (containsString("entry")));
|
||||
assertThat(responseContent, not(containsString("THE DIV")));
|
||||
assertThat(responseContent, (containsString("family")));
|
||||
assertThat(responseContent, (containsString("maritalStatus")));
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testSearchSummaryData() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient?_summary=" + SummaryEnum.DATA.getCode());
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertThat(responseContent, containsString("<Patient"));
|
||||
assertThat(responseContent, not(containsString("THE DIV")));
|
||||
assertThat(responseContent, containsString("family"));
|
||||
assertThat(responseContent, containsString("maritalStatus"));
|
||||
assertEquals(SummaryEnum.DATA, ourLastSummary);
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testSearchSummaryFalse() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient?_summary=false");
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertThat(responseContent, containsString("<Patient"));
|
||||
assertThat(responseContent, containsString("THE DIV"));
|
||||
assertThat(responseContent, containsString("family"));
|
||||
assertThat(responseContent, containsString("maritalStatus"));
|
||||
assertEquals(SummaryEnum.FALSE, ourLastSummary);
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testSearchSummaryText() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient?_summary=" + SummaryEnum.TEXT.getCode());
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertThat(responseContent, (containsString("<total value=\"1\"/>")));
|
||||
assertThat(responseContent, (containsString("entry")));
|
||||
assertThat(responseContent, (containsString("THE DIV")));
|
||||
assertThat(responseContent, not(containsString("family")));
|
||||
assertThat(responseContent, not(containsString("maritalStatus")));
|
||||
assertEquals(SummaryEnum.TEXT, ourLastSummary);
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testSearchSummaryTextWithMandatory() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/MedicationRequest?_summary=" + SummaryEnum.TEXT.getCode() + "&_pretty=true");
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertThat(responseContent, (containsString("<total value=\"1\"/>")));
|
||||
assertThat(responseContent, (containsString("entry")));
|
||||
assertThat(responseContent, (containsString(">TEXT<")));
|
||||
assertThat(responseContent, (containsString("Medication/123")));
|
||||
assertThat(responseContent, not(containsStringIgnoringCase("note")));
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testSearchSummaryTextMulti() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient?_query=multi&_summary=" + SummaryEnum.TEXT.getCode());
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertThat(responseContent, (containsString("<total value=\"1\"/>")));
|
||||
assertThat(responseContent, (containsString("entry")));
|
||||
assertThat(responseContent, (containsString("THE DIV")));
|
||||
assertThat(responseContent, not(containsString("family")));
|
||||
assertThat(responseContent, not(containsString("maritalStatus")));
|
||||
assertThat(ourLastSummaryList, contains(SummaryEnum.TEXT));
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testSearchSummaryTrue() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient?_summary=" + SummaryEnum.TRUE.getCode());
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(200, status.getStatusLine().getStatusCode());
|
||||
assertThat(responseContent, containsString("<Patient"));
|
||||
assertThat(responseContent, not(containsString("THE DIV")));
|
||||
assertThat(responseContent, containsString("family"));
|
||||
assertThat(responseContent, not(containsString("maritalStatus")));
|
||||
assertEquals(SummaryEnum.TRUE, ourLastSummary);
|
||||
}
|
||||
|
||||
@Test
|
||||
public void testSearchSummaryWithTextAndOthers() throws Exception {
|
||||
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Patient?_summary=text&_summary=data");
|
||||
HttpResponse status = ourClient.execute(httpGet);
|
||||
String responseContent = IOUtils.toString(status.getEntity().getContent());
|
||||
IOUtils.closeQuietly(status.getEntity().getContent());
|
||||
ourLog.info(responseContent);
|
||||
|
||||
assertEquals(400, status.getStatusLine().getStatusCode());
|
||||
assertThat(responseContent, containsString("Can not combine _summary=text with other values for _summary"));
|
||||
}
|
||||
|
||||
@AfterClass
|
||||
public static void afterClassClearContext() throws Exception {
|
||||
ourServer.stop();
|
||||
TestUtil.clearAllStaticFieldsForUnitTest();
|
||||
}
|
||||
|
||||
@BeforeClass
|
||||
public static void beforeClass() throws Exception {
|
||||
ourPort = PortUtil.findFreePort();
|
||||
ourServer = new Server(ourPort);
|
||||
|
||||
ServletHandler proxyHandler = new ServletHandler();
|
||||
RestfulServer servlet = new RestfulServer(ourCtx);
|
||||
|
||||
servlet.setResourceProviders(new DummyPatientResourceProvider(), new DummyMedicationRequestProvider());
|
||||
ServletHolder servletHolder = new ServletHolder(servlet);
|
||||
proxyHandler.addServletWithMapping(servletHolder, "/*");
|
||||
ourServer.setHandler(proxyHandler);
|
||||
ourServer.start();
|
||||
|
||||
PoolingHttpClientConnectionManager connectionManager = new PoolingHttpClientConnectionManager(5000, TimeUnit.MILLISECONDS);
|
||||
HttpClientBuilder builder = HttpClientBuilder.create();
|
||||
builder.setConnectionManager(connectionManager);
|
||||
ourClient = builder.build();
|
||||
|
||||
}
|
||||
|
||||
public static class DummyMedicationRequestProvider implements IResourceProvider{
|
||||
|
||||
@Override
|
||||
public Class<? extends IBaseResource> getResourceType() {
|
||||
return MedicationRequest.class;
|
||||
}
|
||||
|
||||
@Read
|
||||
public MedicationRequest read(@IdParam IdType theId) {
|
||||
MedicationRequest retVal = new MedicationRequest();
|
||||
retVal.getText().setDivAsString("<div>TEXT</div>");
|
||||
retVal.addNote().setText("NOTE");
|
||||
retVal.setMedication(new Reference("Medication/123"));
|
||||
retVal.setId(theId);
|
||||
return retVal;
|
||||
}
|
||||
|
||||
@Search
|
||||
public List<MedicationRequest> read() {
|
||||
return Arrays.asList(read(new IdType("999")));
|
||||
}
|
||||
|
||||
}
|
||||
|
||||
public static class DummyPatientResourceProvider implements IResourceProvider {
|
||||
|
||||
@Override
|
||||
public Class<Patient> getResourceType() {
|
||||
return Patient.class;
|
||||
}
|
||||
|
||||
@Read
|
||||
public Patient read(@IdParam IdType theId, SummaryEnum theSummary) {
|
||||
ourLastSummary = theSummary;
|
||||
Patient patient = new Patient();
|
||||
patient.setId("Patient/1/_history/1");
|
||||
patient.getText().setDivAsString("<div>THE DIV</div>");
|
||||
patient.addName().setFamily("FAMILY");
|
||||
patient.getMaritalStatus().addCoding().setCode("D");
|
||||
return patient;
|
||||
}
|
||||
|
||||
@Search(queryName = "multi")
|
||||
public Patient search(List<SummaryEnum> theSummary) {
|
||||
ourLastSummaryList = theSummary;
|
||||
Patient patient = new Patient();
|
||||
patient.setId("Patient/1/_history/1");
|
||||
patient.getText().setDivAsString("<div>THE DIV</div>");
|
||||
patient.addName().setFamily("FAMILY");
|
||||
patient.getMaritalStatus().addCoding().setCode("D");
|
||||
return patient;
|
||||
}
|
||||
|
||||
@Search()
|
||||
public Patient search(SummaryEnum theSummary) {
|
||||
ourLastSummary = theSummary;
|
||||
Patient patient = new Patient();
|
||||
patient.setId("Patient/1/_history/1");
|
||||
patient.getText().setDivAsString("<div>THE DIV</div>");
|
||||
patient.addName().setFamily("FAMILY");
|
||||
patient.getMaritalStatus().addCoding().setCode("D");
|
||||
return patient;
|
||||
}
|
||||
|
||||
}
|
||||
|
||||
}
|
||||
Loading…
Reference in New Issue