diff --git a/hapi-fhir-base/src/main/java/ca/uhn/fhir/util/UrlUtil.java b/hapi-fhir-base/src/main/java/ca/uhn/fhir/util/UrlUtil.java index b414df0c9ac..5c4d6f5eb24 100644 --- a/hapi-fhir-base/src/main/java/ca/uhn/fhir/util/UrlUtil.java +++ b/hapi-fhir-base/src/main/java/ca/uhn/fhir/util/UrlUtil.java @@ -35,6 +35,7 @@ import org.apache.http.message.BasicNameValuePair; import org.hl7.fhir.instance.model.api.IPrimitiveType; import javax.annotation.Nonnull; +import javax.annotation.Nullable; import java.io.UnsupportedEncodingException; import java.net.MalformedURLException; import java.net.URI; @@ -54,7 +55,9 @@ import static org.apache.commons.lang3.StringUtils.defaultIfBlank; import static org.apache.commons.lang3.StringUtils.defaultString; import static org.apache.commons.lang3.StringUtils.endsWith; import static org.apache.commons.lang3.StringUtils.isBlank; +import static org.apache.commons.lang3.StringUtils.isNotBlank; +@SuppressWarnings("JavadocLinkAsPlainText") public class UrlUtil { private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(UrlUtil.class); @@ -134,6 +137,72 @@ public class UrlUtil { return theExtensionUrl; } + /** + * Given a FHIR resource URL, extracts the associated resource type. Supported formats + * include the following inputs, all of which will return {@literal Patient}. If no + * resource type can be determined, {@literal null} will be returned. + * + */ + @Nullable + public static String determineResourceTypeInResourceUrl(FhirContext theFhirContext, String theUrl) { + if (theUrl == null) { + return null; + } + if (theUrl.startsWith("urn:")) { + return null; + } + + String resourceType = null; + int qmIndex = theUrl.indexOf("?"); + if (qmIndex > 0) { + String urlResourceType = theUrl.substring(0, qmIndex); + int slashIdx = urlResourceType.lastIndexOf('/'); + if (slashIdx != -1) { + urlResourceType = urlResourceType.substring(slashIdx + 1); + } + if (isNotBlank(urlResourceType)) { + resourceType = urlResourceType; + } + } else { + resourceType = theUrl; + int slashIdx = resourceType.indexOf('/'); + if (slashIdx == 0) { + resourceType = resourceType.substring(1); + } + + slashIdx = resourceType.indexOf('/'); + if (slashIdx != -1) { + resourceType = new IdDt(resourceType).getResourceType(); + } + + } + + try { + if (isNotBlank(resourceType)) { + theFhirContext.getResourceDefinition(resourceType); + } + } catch (DataFormatException e) { + return null; + } + + return resourceType; + } + + /** * URL encode a value according to RFC 3986 *

diff --git a/hapi-fhir-base/src/main/resources/ca/uhn/fhir/i18n/hapi-messages.properties b/hapi-fhir-base/src/main/resources/ca/uhn/fhir/i18n/hapi-messages.properties index d07060c9057..44155378b67 100644 --- a/hapi-fhir-base/src/main/resources/ca/uhn/fhir/i18n/hapi-messages.properties +++ b/hapi-fhir-base/src/main/resources/ca/uhn/fhir/i18n/hapi-messages.properties @@ -61,6 +61,7 @@ ca.uhn.fhir.rest.server.method.ResourceParameter.noContentTypeInRequest=No Conte ca.uhn.fhir.rest.server.method.ResourceParameter.failedToParseRequest=Failed to parse request body as {0} resource. Error was: {1} ca.uhn.fhir.parser.ParserState.wrongResourceTypeFound=Incorrect resource type found, expected "{0}" but found "{1}" +ca.uhn.fhir.rest.api.server.storage.TransactionDetails.invalidMatchUrlMultipleMatches=Invalid match URL "{0}" - Multiple resources match this search ca.uhn.fhir.rest.server.RestfulServer.getPagesNonHttpGet=Requests for _getpages must use HTTP GET ca.uhn.fhir.rest.server.RestfulServer.unknownMethod=Invalid request: The FHIR endpoint on this server does not know how to handle {0} operation[{1}] with parameters [{2}] ca.uhn.fhir.rest.server.RestfulServer.rootRequest=This is the base URL of FHIR server. Unable to handle this request, as it does not contain a resource type or operation name. @@ -78,7 +79,6 @@ ca.uhn.fhir.jpa.binary.interceptor.BinaryStorageInterceptor.externalizedBinarySt ca.uhn.fhir.jpa.dao.BaseHapiFhirDao.incomingNoopInTransaction=Transaction contains resource with operation NOOP. This is only valid as a response operation, not in a request ca.uhn.fhir.jpa.dao.BaseHapiFhirDao.invalidMatchUrlInvalidResourceType=Invalid match URL "{0}" - Unknown resource type: "{1}" ca.uhn.fhir.jpa.dao.BaseStorageDao.invalidMatchUrlNoMatches=Invalid match URL "{0}" - No resources match this search -ca.uhn.fhir.jpa.dao.BaseStorageDao.invalidMatchUrlMultipleMatches=Invalid match URL "{0}" - Multiple resources match this search ca.uhn.fhir.jpa.dao.BaseStorageDao.inlineMatchNotSupported=Inline match URLs are not supported on this server. Cannot process reference: "{0}" ca.uhn.fhir.jpa.dao.BaseStorageDao.transactionOperationWithMultipleMatchFailure=Failed to {0} resource with match URL "{1}" because this search matched {2} resources ca.uhn.fhir.jpa.dao.BaseStorageDao.transactionOperationWithIdNotMatchFailure=Failed to {0} resource with match URL "{1}" because the matching resource does not match the provided ID diff --git a/hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/6_6_0/4679-transaction-sql-optimization.yaml b/hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/6_6_0/4679-transaction-sql-optimization.yaml new file mode 100644 index 00000000000..48371ede524 --- /dev/null +++ b/hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/6_6_0/4679-transaction-sql-optimization.yaml @@ -0,0 +1,9 @@ +--- +type: add +issue: 4679 +title: "When executing FHIR transactions in the JPA server where the transaction contained large numbers + of inline match URLs, the transaction processor will now prefetch the match URL targets in a single + optimized batch. This avoids a potentially significant number of database round trips. In addition, + the SQL query used for pre-resolving resource update targets in the transaction processor has been + reworked to fully leverage available database indexes. This should result in significant performance + improvements for certain large FHIR transactions." diff --git a/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/BaseHapiFhirResourceDao.java b/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/BaseHapiFhirResourceDao.java index 44997fe1724..268e680831b 100644 --- a/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/BaseHapiFhirResourceDao.java +++ b/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/BaseHapiFhirResourceDao.java @@ -377,6 +377,14 @@ public abstract class BaseHapiFhirResourceDao extends B validateResourceIdCreation(theResource, theRequest); } + if (theMatchUrl != null) { + // Note: We actually create the search URL below by calling enforceMatchUrlResourceUniqueness + // since we can't do that until we know the assigned PID, but we set this flag up here + // because we need to set it before we persist the ResourceTable entity in order to + // avoid triggering an extra DB update + entity.setSearchUrlPresent(true); + } + // Perform actual DB update // this call will also update the metadata ResourceTable updatedEntity = updateEntity(theRequest, theResource, entity, null, thePerformIndexing, false, theTransactionDetails, false, thePerformIndexing); @@ -416,7 +424,8 @@ public abstract class BaseHapiFhirResourceDao extends B theTransactionDetails.addResolvedResourceId(jpaPid.getAssociatedResourceId(), jpaPid); theTransactionDetails.addResolvedResource(jpaPid.getAssociatedResourceId(), theResource); - // Pre-cache the match URL + // Pre-cache the match URL, and create an entry in the HFJ_RES_SEARCH_URL table to + // protect against concurrent writes to the same conditional URL if (theMatchUrl != null) { myResourceSearchUrlSvc.enforceMatchUrlResourceUniqueness(getResourceName(), theMatchUrl, jpaPid); myMatchResourceUrlService.matchUrlResolved(theTransactionDetails, getResourceName(), theMatchUrl, jpaPid); @@ -1777,8 +1786,10 @@ public abstract class BaseHapiFhirResourceDao extends B // we stored a resource searchUrl at creation time to prevent resource duplication. Let's remove the entry on the // first update but guard against unnecessary trips to the database on subsequent ones. - if(theEntity.getVersion() < 2){ + ResourceTable entity = (ResourceTable) theEntity; + if (entity.isSearchUrlPresent() && thePerformIndexing) { myResourceSearchUrlSvc.deleteByResId((Long) theEntity.getPersistentId().getId()); + entity.setSearchUrlPresent(false); } return super.doUpdateForUpdateOrPatch(theRequest, theResourceId, theMatchUrl, thePerformIndexing, theForceUpdateVersion, theResource, theEntity, theOperationType, theTransactionDetails); diff --git a/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/TransactionProcessor.java b/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/TransactionProcessor.java index c5e8b601dbc..ec5d1bf76e8 100644 --- a/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/TransactionProcessor.java +++ b/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/TransactionProcessor.java @@ -22,6 +22,7 @@ package ca.uhn.fhir.jpa.dao; import ca.uhn.fhir.context.FhirContext; import ca.uhn.fhir.context.RuntimeResourceDefinition; import ca.uhn.fhir.interceptor.model.RequestPartitionId; +import ca.uhn.fhir.jpa.api.IDaoRegistry; import ca.uhn.fhir.jpa.api.config.JpaStorageSettings; import ca.uhn.fhir.jpa.api.dao.IFhirSystemDao; import ca.uhn.fhir.jpa.api.model.DaoMethodOutcome; @@ -30,15 +31,20 @@ import ca.uhn.fhir.jpa.config.HapiFhirHibernateJpaDialect; import ca.uhn.fhir.jpa.model.config.PartitionSettings; import ca.uhn.fhir.jpa.model.dao.JpaPid; import ca.uhn.fhir.jpa.model.entity.ResourceIndexedSearchParamToken; +import ca.uhn.fhir.jpa.model.entity.StorageSettings; import ca.uhn.fhir.jpa.partition.IRequestPartitionHelperSvc; import ca.uhn.fhir.jpa.searchparam.MatchUrlService; import ca.uhn.fhir.jpa.searchparam.SearchParameterMap; +import ca.uhn.fhir.jpa.util.QueryChunker; import ca.uhn.fhir.model.api.IQueryParameterType; import ca.uhn.fhir.rest.api.server.RequestDetails; import ca.uhn.fhir.rest.api.server.storage.TransactionDetails; import ca.uhn.fhir.rest.param.TokenParam; +import ca.uhn.fhir.util.ResourceReferenceInfo; import ca.uhn.fhir.util.StopWatch; import com.google.common.annotations.VisibleForTesting; +import com.google.common.collect.ArrayListMultimap; +import com.google.common.collect.ListMultimap; import org.apache.commons.lang3.Validate; import org.hibernate.internal.SessionImpl; import org.hl7.fhir.instance.model.api.IBase; @@ -55,6 +61,7 @@ import javax.persistence.EntityManager; import javax.persistence.PersistenceContext; import javax.persistence.PersistenceContextType; import javax.persistence.PersistenceException; +import javax.persistence.Tuple; import javax.persistence.TypedQuery; import javax.persistence.criteria.CriteriaBuilder; import javax.persistence.criteria.CriteriaQuery; @@ -62,18 +69,16 @@ import javax.persistence.criteria.Predicate; import javax.persistence.criteria.Root; import java.util.ArrayList; import java.util.Collection; -import java.util.HashMap; import java.util.HashSet; import java.util.IdentityHashMap; import java.util.List; import java.util.Map; -import java.util.Optional; import java.util.Set; import java.util.regex.Pattern; import java.util.stream.Collectors; -import static ca.uhn.fhir.jpa.dao.index.IdHelperService.EMPTY_PREDICATE_ARRAY; -import static org.apache.commons.lang3.StringUtils.defaultString; +import static ca.uhn.fhir.util.UrlUtil.determineResourceTypeInResourceUrl; +import static org.apache.commons.lang3.StringUtils.countMatches; import static org.apache.commons.lang3.StringUtils.isNotBlank; public class TransactionProcessor extends BaseTransactionProcessor { @@ -118,6 +123,13 @@ public class TransactionProcessor extends BaseTransactionProcessor { myFhirContext = theFhirContext; } + @Override + public void setStorageSettings(StorageSettings theStorageSettings) { + myStorageSettings = (JpaStorageSettings) theStorageSettings; + super.setStorageSettings(theStorageSettings); + } + + @Override protected EntriesToProcessMap doTransactionWriteOperations(final RequestDetails theRequest, String theActionName, TransactionDetails theTransactionDetails, Set theAllIds, IdSubstitutionMap theIdSubstitutions, Map theIdToPersistedOutcome, IBaseBundle theResponse, IdentityHashMap theOriginalRequestOrder, List theEntries, StopWatch theTransactionStopWatch) { @@ -128,203 +140,291 @@ public class TransactionProcessor extends BaseTransactionProcessor { requestPartitionId = RequestPartitionId.allPartitions(); } else { // If all entries in the transaction point to the exact same partition, we'll try and do a pre-fetch - Set requestPartitionIdsForAllEntries = new HashSet<>(); - for (IBase nextEntry : theEntries) { - IBaseResource resource = versionAdapter.getResource(nextEntry); - if (resource != null) { - RequestPartitionId requestPartition = myRequestPartitionSvc.determineCreatePartitionForRequest(theRequest, resource, myFhirContext.getResourceType(resource)); - requestPartitionIdsForAllEntries.add(requestPartition); - } - } - if (requestPartitionIdsForAllEntries.size() == 1) { - requestPartitionId = requestPartitionIdsForAllEntries.iterator().next(); - } + requestPartitionId = getSinglePartitionForAllEntriesOrNull(theRequest, theEntries, versionAdapter); } if (requestPartitionId != null) { - - Set foundIds = new HashSet<>(); - List idsToPreFetch = new ArrayList<>(); - - /* - * Pre-Fetch any resources that are referred to normally by ID, e.g. - * regular FHIR updates within the transaction. - */ - List idsToPreResolve = new ArrayList<>(); - for (IBase nextEntry : theEntries) { - IBaseResource resource = versionAdapter.getResource(nextEntry); - if (resource != null) { - String fullUrl = versionAdapter.getFullUrl(nextEntry); - boolean isPlaceholder = defaultString(fullUrl).startsWith("urn:"); - if (!isPlaceholder) { - if (resource.getIdElement().hasIdPart() && resource.getIdElement().hasResourceType()) { - idsToPreResolve.add(resource.getIdElement()); - } - } - } - } - List outcome = myIdHelperService.resolveResourcePersistentIdsWithCache(requestPartitionId, idsToPreResolve) - .stream().collect(Collectors.toList()); - for (JpaPid next : outcome) { - foundIds.add(next.getAssociatedResourceId().toUnqualifiedVersionless().getValue()); - theTransactionDetails.addResolvedResourceId(next.getAssociatedResourceId(), next); - if (myStorageSettings.getResourceClientIdStrategy() != JpaStorageSettings.ClientIdStrategyEnum.ANY || !next.getAssociatedResourceId().isIdPartValidLong()) { - idsToPreFetch.add(next.getId()); - } - } - for (IIdType next : idsToPreResolve) { - if (!foundIds.contains(next.toUnqualifiedVersionless().getValue())) { - theTransactionDetails.addResolvedResourceId(next.toUnqualifiedVersionless(), null); - } - } - - /* - * Pre-resolve any conditional URLs we can - */ - List searchParameterMapsToResolve = new ArrayList<>(); - for (IBase nextEntry : theEntries) { - IBaseResource resource = versionAdapter.getResource(nextEntry); - if (resource != null) { - String verb = versionAdapter.getEntryRequestVerb(myFhirContext, nextEntry); - String requestUrl = versionAdapter.getEntryRequestUrl(nextEntry); - String requestIfNoneExist = versionAdapter.getEntryIfNoneExist(nextEntry); - String resourceType = myFhirContext.getResourceType(resource); - if ("PUT".equals(verb) && requestUrl != null && requestUrl.contains("?")) { - JpaPid cachedId = myMatchResourceUrlService.processMatchUrlUsingCacheOnly(resourceType, requestUrl); - if (cachedId != null) { - idsToPreFetch.add(cachedId.getId()); - } else if (SINGLE_PARAMETER_MATCH_URL_PATTERN.matcher(requestUrl).matches()) { - RuntimeResourceDefinition resourceDefinition = myFhirContext.getResourceDefinition(resource); - SearchParameterMap matchUrlSearchMap = myMatchUrlService.translateMatchUrl(requestUrl, resourceDefinition); - searchParameterMapsToResolve.add(new MatchUrlToResolve(requestUrl, matchUrlSearchMap, resourceDefinition)); - } - } else if ("POST".equals(verb) && requestIfNoneExist != null && requestIfNoneExist.contains("?")) { - JpaPid cachedId = myMatchResourceUrlService.processMatchUrlUsingCacheOnly(resourceType, requestIfNoneExist); - if (cachedId != null) { - idsToPreFetch.add(cachedId.getId()); - } else if (SINGLE_PARAMETER_MATCH_URL_PATTERN.matcher(requestIfNoneExist).matches()) { - RuntimeResourceDefinition resourceDefinition = myFhirContext.getResourceDefinition(resource); - SearchParameterMap matchUrlSearchMap = myMatchUrlService.translateMatchUrl(requestIfNoneExist, resourceDefinition); - searchParameterMapsToResolve.add(new MatchUrlToResolve(requestIfNoneExist, matchUrlSearchMap, resourceDefinition)); - } - } - - } - } - if (searchParameterMapsToResolve.size() > 0) { - CriteriaBuilder cb = myEntityManager.getCriteriaBuilder(); - CriteriaQuery cq = cb.createQuery(ResourceIndexedSearchParamToken.class); - Root from = cq.from(ResourceIndexedSearchParamToken.class); - List orPredicates = new ArrayList<>(); - - for (MatchUrlToResolve next : searchParameterMapsToResolve) { - Collection>> values = next.myMatchUrlSearchMap.values(); - if (values.size() == 1) { - List> andList = values.iterator().next(); - IQueryParameterType param = andList.get(0).get(0); - - if (param instanceof TokenParam) { - Predicate hashPredicate = buildHashPredicateFromTokenParam((TokenParam)param, requestPartitionId, cb, from, next); - - if (hashPredicate != null) { - if (myPartitionSettings.isPartitioningEnabled() && !myPartitionSettings.isIncludePartitionInSearchHashes()) { - if (requestPartitionId.isDefaultPartition()) { - Predicate partitionIdCriteria = cb.isNull(from.get("myPartitionIdValue").as(Integer.class)); - hashPredicate = cb.and(hashPredicate, partitionIdCriteria); - } else if (!requestPartitionId.isAllPartitions()) { - Predicate partitionIdCriteria = from.get("myPartitionIdValue").as(Integer.class).in(requestPartitionId.getPartitionIds()); - hashPredicate = cb.and(hashPredicate, partitionIdCriteria); - } - } - - orPredicates.add(hashPredicate); - } - } - } - - } - - if (orPredicates.size() > 1) { - cq.where(cb.or(orPredicates.toArray(EMPTY_PREDICATE_ARRAY))); - - Map> hashToSearchMap = buildHashToSearchMap(searchParameterMapsToResolve); - - TypedQuery query = myEntityManager.createQuery(cq); - List results = query.getResultList(); - - for (ResourceIndexedSearchParamToken nextResult : results) { - Optional> matchedSearch = Optional.ofNullable(hashToSearchMap.get(nextResult.getHashSystemAndValue())); - if (!matchedSearch.isPresent()) { - matchedSearch = Optional.ofNullable(hashToSearchMap.get(nextResult.getHashValue())); - } - matchedSearch.ifPresent(matchUrlsToResolve -> { - matchUrlsToResolve.forEach(matchUrl -> { - setSearchToResolvedAndPrefetchFoundResourcePid(theTransactionDetails, idsToPreFetch, nextResult, matchUrl); - }); - }); - } - //For each SP Map which did not return a result, tag it as not found. - searchParameterMapsToResolve.stream() - // No matches - .filter(match -> !match.myResolved) - .forEach(match -> { - ourLog.debug("Was unable to match url {} from database", match.myRequestUrl); - theTransactionDetails.addResolvedMatchUrl(match.myRequestUrl, TransactionDetails.NOT_FOUND); - }); - } - } - - IFhirSystemDao systemDao = myApplicationContext.getBean(IFhirSystemDao.class); - systemDao.preFetchResources(JpaPid.fromLongList(idsToPreFetch)); - + preFetch(theTransactionDetails, theEntries, versionAdapter, requestPartitionId); } return super.doTransactionWriteOperations(theRequest, theActionName, theTransactionDetails, theAllIds, theIdSubstitutions, theIdToPersistedOutcome, theResponse, theOriginalRequestOrder, theEntries, theTransactionStopWatch); } + private void preFetch(TransactionDetails theTransactionDetails, List theEntries, ITransactionProcessorVersionAdapter theVersionAdapter, RequestPartitionId theRequestPartitionId) { + Set foundIds = new HashSet<>(); + List idsToPreFetch = new ArrayList<>(); + + /* + * Pre-Fetch any resources that are referred to normally by ID, e.g. + * regular FHIR updates within the transaction. + */ + preFetchResourcesById(theTransactionDetails, theEntries, theVersionAdapter, theRequestPartitionId, foundIds, idsToPreFetch); + + /* + * Pre-resolve any conditional URLs we can + */ + preFetchConditionalUrls(theTransactionDetails, theEntries, theVersionAdapter, theRequestPartitionId, idsToPreFetch); + + IFhirSystemDao systemDao = myApplicationContext.getBean(IFhirSystemDao.class); + systemDao.preFetchResources(JpaPid.fromLongList(idsToPreFetch)); + } + + private void preFetchResourcesById(TransactionDetails theTransactionDetails, List theEntries, ITransactionProcessorVersionAdapter theVersionAdapter, RequestPartitionId theRequestPartitionId, Set foundIds, List idsToPreFetch) { + List idsToPreResolve = new ArrayList<>(); + for (IBase nextEntry : theEntries) { + IBaseResource resource = theVersionAdapter.getResource(nextEntry); + if (resource != null) { + String verb = theVersionAdapter.getEntryRequestVerb(myFhirContext, nextEntry); + if ("PUT".equals(verb) || "PATCH".equals(verb)) { + String requestUrl = theVersionAdapter.getEntryRequestUrl(nextEntry); + if (countMatches(requestUrl, '/') == 1 && countMatches(requestUrl, '?') == 0) { + IIdType id = myFhirContext.getVersion().newIdType(); + id.setValue(requestUrl); + idsToPreResolve.add(id); + } + } + } + } + List outcome = myIdHelperService.resolveResourcePersistentIdsWithCache(theRequestPartitionId, idsToPreResolve) + .stream().collect(Collectors.toList()); + for (JpaPid next : outcome) { + foundIds.add(next.getAssociatedResourceId().toUnqualifiedVersionless().getValue()); + theTransactionDetails.addResolvedResourceId(next.getAssociatedResourceId(), next); + if (myStorageSettings.getResourceClientIdStrategy() != JpaStorageSettings.ClientIdStrategyEnum.ANY || !next.getAssociatedResourceId().isIdPartValidLong()) { + idsToPreFetch.add(next.getId()); + } + } + for (IIdType next : idsToPreResolve) { + if (!foundIds.contains(next.toUnqualifiedVersionless().getValue())) { + theTransactionDetails.addResolvedResourceId(next.toUnqualifiedVersionless(), null); + } + } + } + + private void preFetchConditionalUrls(TransactionDetails theTransactionDetails, List theEntries, ITransactionProcessorVersionAdapter theVersionAdapter, RequestPartitionId theRequestPartitionId, List idsToPreFetch) { + List searchParameterMapsToResolve = new ArrayList<>(); + for (IBase nextEntry : theEntries) { + IBaseResource resource = theVersionAdapter.getResource(nextEntry); + if (resource != null) { + String verb = theVersionAdapter.getEntryRequestVerb(myFhirContext, nextEntry); + String requestUrl = theVersionAdapter.getEntryRequestUrl(nextEntry); + String requestIfNoneExist = theVersionAdapter.getEntryIfNoneExist(nextEntry); + String resourceType = determineResourceTypeInResourceUrl(myFhirContext, requestUrl); + if (resourceType == null && resource != null) { + resourceType = myFhirContext.getResourceType(resource); + } + if (("PUT".equals(verb) || "PATCH".equals(verb)) && requestUrl != null && requestUrl.contains("?")) { + preFetchConditionalUrl(resourceType, requestUrl, true, idsToPreFetch, searchParameterMapsToResolve); + } else if ("POST".equals(verb) && requestIfNoneExist != null && requestIfNoneExist.contains("?")) { + preFetchConditionalUrl(resourceType, requestIfNoneExist, false, idsToPreFetch, searchParameterMapsToResolve); + } + + if (myStorageSettings.isAllowInlineMatchUrlReferences()) { + List references = myFhirContext.newTerser().getAllResourceReferences(resource); + for (ResourceReferenceInfo next : references) { + String referenceUrl = next.getResourceReference().getReferenceElement().getValue(); + String refResourceType = determineResourceTypeInResourceUrl(myFhirContext, referenceUrl); + if (refResourceType != null) { + preFetchConditionalUrl(refResourceType, referenceUrl, false, idsToPreFetch, searchParameterMapsToResolve); + } + } + } + } + } + + new QueryChunker() + .chunk(searchParameterMapsToResolve, 100, map -> + preFetchSearchParameterMaps(theTransactionDetails, theRequestPartitionId, map, idsToPreFetch)); + } + + /** + * @param theTransactionDetails The active transaction details + * @param theRequestPartitionId The active partition + * @param theInputParameters These are the search parameter maps that will actually be resolved + * @param theOutputPidsToLoadFully This list will be added to with any resource PIDs that need to be fully + * pre-loaded (ie. fetch the actual resource body since we're presumably + * going to update it and will need to see its current state eventually) + */ + private void preFetchSearchParameterMaps(TransactionDetails theTransactionDetails, RequestPartitionId theRequestPartitionId, List theInputParameters, List theOutputPidsToLoadFully) { + Set systemAndValueHashes = new HashSet<>(); + Set valueHashes = new HashSet<>(); + for (MatchUrlToResolve next : theInputParameters) { + Collection>> values = next.myMatchUrlSearchMap.values(); + if (values.size() == 1) { + List> andList = values.iterator().next(); + IQueryParameterType param = andList.get(0).get(0); + + if (param instanceof TokenParam) { + buildHashPredicateFromTokenParam((TokenParam) param, theRequestPartitionId, next, systemAndValueHashes, valueHashes); + } + } + + } + + preFetchSearchParameterMapsToken("myHashSystemAndValue", systemAndValueHashes, theTransactionDetails, theRequestPartitionId, theInputParameters, theOutputPidsToLoadFully); + preFetchSearchParameterMapsToken("myHashValue", valueHashes, theTransactionDetails, theRequestPartitionId, theInputParameters, theOutputPidsToLoadFully); + + //For each SP Map which did not return a result, tag it as not found. + if (!valueHashes.isEmpty() || !systemAndValueHashes.isEmpty()) { + theInputParameters.stream() + // No matches + .filter(match -> !match.myResolved) + .forEach(match -> { + ourLog.debug("Was unable to match url {} from database", match.myRequestUrl); + theTransactionDetails.addResolvedMatchUrl(myFhirContext, match.myRequestUrl, TransactionDetails.NOT_FOUND); + }); + } + } + + /** + * Here we do a select against the {@link ResourceIndexedSearchParamToken} table for any rows that have the + * specific sys+val or val hashes we know we need to pre-fetch. + *

+ * Note that we do a tuple query for only 2 columns in order to ensure that we can get by with only + * the data in the index (ie no need to load the actual table rows). + */ + private void preFetchSearchParameterMapsToken(String theIndexColumnName, Set theHashesForIndexColumn, TransactionDetails theTransactionDetails, RequestPartitionId theRequestPartitionId, List theInputParameters, List theOutputPidsToLoadFully) { + if (!theHashesForIndexColumn.isEmpty()) { + ListMultimap hashToSearchMap = buildHashToSearchMap(theInputParameters, theIndexColumnName); + CriteriaBuilder cb = myEntityManager.getCriteriaBuilder(); + CriteriaQuery cq = cb.createTupleQuery(); + Root from = cq.from(ResourceIndexedSearchParamToken.class); + cq.multiselect(from.get("myResourcePid").as(Long.class), from.get(theIndexColumnName).as(Long.class)); + + Predicate masterPredicate; + if (theHashesForIndexColumn.size() == 1) { + masterPredicate = cb.equal(from.get(theIndexColumnName).as(Long.class), theHashesForIndexColumn.iterator().next()); + } else { + masterPredicate = from.get(theIndexColumnName).as(Long.class).in(theHashesForIndexColumn); + } + + if (myPartitionSettings.isPartitioningEnabled() && !myPartitionSettings.isIncludePartitionInSearchHashes()) { + if (theRequestPartitionId.isDefaultPartition()) { + Predicate partitionIdCriteria = cb.isNull(from.get("myPartitionIdValue").as(Integer.class)); + masterPredicate = cb.and(partitionIdCriteria, masterPredicate); + } else if (!theRequestPartitionId.isAllPartitions()) { + Predicate partitionIdCriteria = from.get("myPartitionIdValue").as(Integer.class).in(theRequestPartitionId.getPartitionIds()); + masterPredicate = cb.and(partitionIdCriteria, masterPredicate); + } + } + + cq.where(masterPredicate); + + TypedQuery query = myEntityManager.createQuery(cq); + + /* + * If we have 10 unique conditional URLs we're resolving, each one should + * resolve to 0..1 resources if they are valid as conditional URLs. So we would + * expect this query to return 0..10 rows, since conditional URLs for all + * conditional operations except DELETE (which isn't being applied here) are + * only allowed to resolve to 0..1 resources. + * + * If a conditional URL matches 2+ resources that is an error, and we'll + * be throwing an exception below. This limit is here for safety just to + * ensure that if someone uses a conditional URL that matches a million resources, + * we don't do a super-expensive fetch. + */ + query.setMaxResults(theHashesForIndexColumn.size() + 1); + + List results = query.getResultList(); + + for (Tuple nextResult : results) { + Long nextResourcePid = nextResult.get(0, Long.class); + Long nextHash = nextResult.get(1, Long.class); + List matchedSearch = hashToSearchMap.get(nextHash); + matchedSearch.forEach(matchUrl -> { + ourLog.debug("Matched url {} from database", matchUrl.myRequestUrl); + if (matchUrl.myShouldPreFetchResourceBody) { + theOutputPidsToLoadFully.add(nextResourcePid); + } + myMatchResourceUrlService.matchUrlResolved(theTransactionDetails, matchUrl.myResourceDefinition.getName(), matchUrl.myRequestUrl, JpaPid.fromId(nextResourcePid)); + theTransactionDetails.addResolvedMatchUrl(myFhirContext, matchUrl.myRequestUrl, JpaPid.fromId(nextResourcePid)); + matchUrl.setResolved(true); + }); + } + + } + } + + /** + * Note that if {@literal theShouldPreFetchResourceBody} is false, then we'll check if a given match + * URL resolves to a resource PID, but we won't actually try to load that resource. If we're resolving + * a match URL because it's there for a conditional update, we'll eagerly fetch the + * actual resource because we need to know its current state in order to update it. However, if + * the match URL is from an inline match URL in a resource body, we really only care about + * the PID and don't need the body so we don't load it. This does have a security implication, since + * it means that the {@link ca.uhn.fhir.interceptor.api.Pointcut#STORAGE_PRESHOW_RESOURCES} pointcut + * isn't fired even though the user has resolved the URL (meaning they may be able to test for + * the existence of a resource using a match URL). There is a test for this called + * {@literal testTransactionCreateInlineMatchUrlWithAuthorizationDenied()}. This security tradeoff + * is acceptable since we're only prefetching things with very simple match URLs (nothing with + * a reference in it for example) so it's not really possible to doing anything useful with this. + * + * @param theResourceType The resource type associated with the match URL (ie what resource type should it resolve to) + * @param theRequestUrl The actual match URL, which could be as simple as just parameters or could include the resource type too + * @param theShouldPreFetchResourceBody Should we also fetch the actual resource body, or just figure out the PID associated with it. See the method javadoc above for some context. + * @param theOutputIdsToPreFetch This will be populated with any resource PIDs that need to be pre-fetched + * @param theOutputSearchParameterMapsToResolve This will be populated with any {@link SearchParameterMap} instances corresponding to match URLs we need to resolve + */ + private void preFetchConditionalUrl(String theResourceType, String theRequestUrl, boolean theShouldPreFetchResourceBody, List theOutputIdsToPreFetch, List theOutputSearchParameterMapsToResolve) { + JpaPid cachedId = myMatchResourceUrlService.processMatchUrlUsingCacheOnly(theResourceType, theRequestUrl); + if (cachedId != null) { + if (theShouldPreFetchResourceBody) { + theOutputIdsToPreFetch.add(cachedId.getId()); + } + } else if (SINGLE_PARAMETER_MATCH_URL_PATTERN.matcher(theRequestUrl).matches()) { + RuntimeResourceDefinition resourceDefinition = myFhirContext.getResourceDefinition(theResourceType); + SearchParameterMap matchUrlSearchMap = myMatchUrlService.translateMatchUrl(theRequestUrl, resourceDefinition); + theOutputSearchParameterMapsToResolve.add(new MatchUrlToResolve(theRequestUrl, matchUrlSearchMap, resourceDefinition, theShouldPreFetchResourceBody)); + } + } + + private RequestPartitionId getSinglePartitionForAllEntriesOrNull(RequestDetails theRequest, List theEntries, ITransactionProcessorVersionAdapter versionAdapter) { + RequestPartitionId retVal = null; + Set requestPartitionIdsForAllEntries = new HashSet<>(); + for (IBase nextEntry : theEntries) { + IBaseResource resource = versionAdapter.getResource(nextEntry); + if (resource != null) { + RequestPartitionId requestPartition = myRequestPartitionSvc.determineCreatePartitionForRequest(theRequest, resource, myFhirContext.getResourceType(resource)); + requestPartitionIdsForAllEntries.add(requestPartition); + } + } + if (requestPartitionIdsForAllEntries.size() == 1) { + retVal = requestPartitionIdsForAllEntries.iterator().next(); + } + return retVal; + } + /** * Given a token parameter, build the query predicate based on its hash. Uses system and value if both are available, otherwise just value. * If neither are available, it returns null. */ @Nullable - private Predicate buildHashPredicateFromTokenParam(TokenParam theTokenParam, RequestPartitionId theRequestPartitionId, CriteriaBuilder cb, Root from, MatchUrlToResolve theMatchUrl) { - Predicate hashPredicate = null; + private void buildHashPredicateFromTokenParam(TokenParam theTokenParam, RequestPartitionId theRequestPartitionId, MatchUrlToResolve theMatchUrl, Set theSysAndValuePredicates, Set theValuePredicates) { if (isNotBlank(theTokenParam.getValue()) && isNotBlank(theTokenParam.getSystem())) { theMatchUrl.myHashSystemAndValue = ResourceIndexedSearchParamToken.calculateHashSystemAndValue(myPartitionSettings, theRequestPartitionId, theMatchUrl.myResourceDefinition.getName(), theMatchUrl.myMatchUrlSearchMap.keySet().iterator().next(), theTokenParam.getSystem(), theTokenParam.getValue()); - hashPredicate = cb.equal(from.get("myHashSystemAndValue").as(Long.class), theMatchUrl.myHashSystemAndValue); + theSysAndValuePredicates.add(theMatchUrl.myHashSystemAndValue); } else if (isNotBlank(theTokenParam.getValue())) { theMatchUrl.myHashValue = ResourceIndexedSearchParamToken.calculateHashValue(myPartitionSettings, theRequestPartitionId, theMatchUrl.myResourceDefinition.getName(), theMatchUrl.myMatchUrlSearchMap.keySet().iterator().next(), theTokenParam.getValue()); - hashPredicate = cb.equal(from.get("myHashValue").as(Long.class), theMatchUrl.myHashValue); + theValuePredicates.add(theMatchUrl.myHashValue); } - return hashPredicate; + } - private Map> buildHashToSearchMap(List searchParameterMapsToResolve) { - Map> hashToSearch = new HashMap<>(); + private ListMultimap buildHashToSearchMap(List searchParameterMapsToResolve, String theIndex) { + ListMultimap hashToSearch = ArrayListMultimap.create(); //Build a lookup map so we don't have to iterate over the searches repeatedly. for (MatchUrlToResolve nextSearchParameterMap : searchParameterMapsToResolve) { - if (nextSearchParameterMap.myHashSystemAndValue != null) { - List matchUrlsToResolve = hashToSearch.getOrDefault(nextSearchParameterMap.myHashSystemAndValue, new ArrayList<>()); - matchUrlsToResolve.add(nextSearchParameterMap); - hashToSearch.put(nextSearchParameterMap.myHashSystemAndValue, matchUrlsToResolve); + if (nextSearchParameterMap.myHashSystemAndValue != null && theIndex.equals("myHashSystemAndValue")) { + hashToSearch.put(nextSearchParameterMap.myHashSystemAndValue, nextSearchParameterMap); } - if (nextSearchParameterMap.myHashValue!= null) { - List matchUrlsToResolve = hashToSearch.getOrDefault(nextSearchParameterMap.myHashValue, new ArrayList<>()); - matchUrlsToResolve.add(nextSearchParameterMap); - hashToSearch.put(nextSearchParameterMap.myHashValue, matchUrlsToResolve); + if (nextSearchParameterMap.myHashValue != null && theIndex.equals("myHashValue")) { + hashToSearch.put(nextSearchParameterMap.myHashValue, nextSearchParameterMap); } } return hashToSearch; } - private void setSearchToResolvedAndPrefetchFoundResourcePid(TransactionDetails theTransactionDetails, List idsToPreFetch, ResourceIndexedSearchParamToken nextResult, MatchUrlToResolve nextSearchParameterMap) { - ourLog.debug("Matched url {} from database", nextSearchParameterMap.myRequestUrl); - idsToPreFetch.add(nextResult.getResourcePid()); - myMatchResourceUrlService.matchUrlResolved(theTransactionDetails, nextSearchParameterMap.myResourceDefinition.getName(), nextSearchParameterMap.myRequestUrl, JpaPid.fromId(nextResult.getResourcePid())); - theTransactionDetails.addResolvedMatchUrl(nextSearchParameterMap.myRequestUrl, JpaPid.fromId(nextResult.getResourcePid())); - nextSearchParameterMap.setResolved(true); - } - @Override protected void flushSession(Map theIdToPersistedOutcome) { try { @@ -372,15 +472,18 @@ public class TransactionProcessor extends BaseTransactionProcessor { private final String myRequestUrl; private final SearchParameterMap myMatchUrlSearchMap; private final RuntimeResourceDefinition myResourceDefinition; + private final boolean myShouldPreFetchResourceBody; public boolean myResolved; private Long myHashValue; private Long myHashSystemAndValue; - public MatchUrlToResolve(String theRequestUrl, SearchParameterMap theMatchUrlSearchMap, RuntimeResourceDefinition theResourceDefinition) { + public MatchUrlToResolve(String theRequestUrl, SearchParameterMap theMatchUrlSearchMap, RuntimeResourceDefinition theResourceDefinition, boolean theShouldPreFetchResourceBody) { myRequestUrl = theRequestUrl; myMatchUrlSearchMap = theMatchUrlSearchMap; myResourceDefinition = theResourceDefinition; + myShouldPreFetchResourceBody = theShouldPreFetchResourceBody; } + public void setResolved(boolean theResolved) { myResolved = theResolved; } diff --git a/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/index/IdHelperService.java b/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/index/IdHelperService.java index 6a8d364c9c0..2ce5071b423 100644 --- a/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/index/IdHelperService.java +++ b/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/index/IdHelperService.java @@ -60,6 +60,7 @@ import javax.annotation.Nullable; import javax.persistence.EntityManager; import javax.persistence.PersistenceContext; import javax.persistence.PersistenceContextType; +import javax.persistence.Tuple; import javax.persistence.TypedQuery; import javax.persistence.criteria.CriteriaBuilder; import javax.persistence.criteria.CriteriaQuery; @@ -345,9 +346,22 @@ public class IdHelperService implements IIdHelperService { private void doResolvePersistentIds(RequestPartitionId theRequestPartitionId, List theIds, List theOutputListToPopulate) { CriteriaBuilder cb = myEntityManager.getCriteriaBuilder(); - CriteriaQuery criteriaQuery = cb.createQuery(ForcedId.class); + CriteriaQuery criteriaQuery = cb.createTupleQuery(); Root from = criteriaQuery.from(ForcedId.class); + /* + * We don't currently have an index that satisfies these three columns, but the + * index IDX_FORCEDID_TYPE_FID does include myResourceType and myForcedId + * so we're at least minimizing the amount of data we fetch. A largescale test + * on Postgres does confirm that this lookup does use the index and is pretty + * performant. + */ + criteriaQuery.multiselect( + from.get("myResourcePid").as(Long.class), + from.get("myResourceType").as(String.class), + from.get("myForcedId").as(String.class) + ); + List predicates = new ArrayList<>(theIds.size()); for (IIdType next : theIds) { @@ -366,16 +380,19 @@ public class IdHelperService implements IIdHelperService { criteriaQuery.where(cb.or(predicates.toArray(EMPTY_PREDICATE_ARRAY))); - TypedQuery query = myEntityManager.createQuery(criteriaQuery); - List results = query.getResultList(); - for (ForcedId nextId : results) { + TypedQuery query = myEntityManager.createQuery(criteriaQuery); + List results = query.getResultList(); + for (Tuple nextId : results) { // Check if the nextId has a resource ID. It may have a null resource ID if a commit is still pending. - if (nextId.getResourceId() != null) { - JpaPid jpaPid = JpaPid.fromId(nextId.getResourceId()); - populateAssociatedResourceId(nextId.getResourceType(), nextId.getForcedId(), jpaPid); + Long resourceId = nextId.get(0, Long.class); + String resourceType = nextId.get(1, String.class); + String forcedId = nextId.get(2, String.class); + if (resourceId != null) { + JpaPid jpaPid = JpaPid.fromId(resourceId); + populateAssociatedResourceId(resourceType, forcedId, jpaPid); theOutputListToPopulate.add(jpaPid); - String key = toForcedIdToPidKey(theRequestPartitionId, nextId.getResourceType(), nextId.getForcedId()); + String key = toForcedIdToPidKey(theRequestPartitionId, resourceType, forcedId); myMemoryCacheService.putAfterCommit(MemoryCacheService.CacheEnum.FORCED_ID_TO_PID, key, jpaPid); } } diff --git a/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/migrate/tasks/HapiFhirJpaMigrationTasks.java b/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/migrate/tasks/HapiFhirJpaMigrationTasks.java index 803a67b0f9c..0284ac5d922 100644 --- a/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/migrate/tasks/HapiFhirJpaMigrationTasks.java +++ b/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/migrate/tasks/HapiFhirJpaMigrationTasks.java @@ -37,6 +37,7 @@ import ca.uhn.fhir.jpa.model.entity.ResourceIndexedSearchParamQuantity; import ca.uhn.fhir.jpa.model.entity.ResourceIndexedSearchParamString; import ca.uhn.fhir.jpa.model.entity.ResourceIndexedSearchParamToken; import ca.uhn.fhir.jpa.model.entity.ResourceIndexedSearchParamUri; +import ca.uhn.fhir.jpa.model.entity.ResourceTable; import ca.uhn.fhir.jpa.model.entity.SearchParamPresentEntity; import ca.uhn.fhir.jpa.model.entity.StorageSettings; import ca.uhn.fhir.util.VersionEnum; @@ -200,6 +201,12 @@ public class HapiFhirJpaMigrationTasks extends BaseMigrationTasks { .nullable() .type(ColumnTypeEnum.DATE_ONLY); } + + version + .onTable(ResourceTable.HFJ_RESOURCE) + .addColumn("20230323.1", "SEARCH_URL_PRESENT") + .nullable() + .type(ColumnTypeEnum.BOOLEAN); } protected void init640() { diff --git a/hapi-fhir-jpaserver-model/src/main/java/ca/uhn/fhir/jpa/model/entity/ResourceTable.java b/hapi-fhir-jpaserver-model/src/main/java/ca/uhn/fhir/jpa/model/entity/ResourceTable.java index 622db4a896e..771955b23af 100644 --- a/hapi-fhir-jpaserver-model/src/main/java/ca/uhn/fhir/jpa/model/entity/ResourceTable.java +++ b/hapi-fhir-jpaserver-model/src/main/java/ca/uhn/fhir/jpa/model/entity/ResourceTable.java @@ -298,6 +298,15 @@ public class ResourceTable extends BaseHasResource implements Serializable, IBas @OptimisticLock(excluded = true) private String myFhirId; + /** + * Is there a corresponding row in {@link ResourceSearchUrlEntity} for + * this row. + * TODO: Added in 6.6.0 - Should make this a primitive boolean at some point + */ + @OptimisticLock(excluded = true) + @Column(name = "SEARCH_URL_PRESENT", nullable = true) + private Boolean mySearchUrlPresent = false; + /** * Populate myFhirId with server-assigned sequence id when no client-id provided. * We eat this complexity during insert to simplify query time with a uniform column. @@ -694,6 +703,14 @@ public class ResourceTable extends BaseHasResource implements Serializable, IBas myNarrativeText = theNarrativeText; } + public boolean isSearchUrlPresent() { + return Boolean.TRUE.equals(mySearchUrlPresent); + } + + public void setSearchUrlPresent(boolean theSearchUrlPresent) { + mySearchUrlPresent = theSearchUrlPresent; + } + public ResourceHistoryTable toHistory(boolean theCreateVersionTags) { ResourceHistoryTable retVal = new ResourceHistoryTable(); diff --git a/hapi-fhir-jpaserver-test-dstu2/src/test/java/ca/uhn/fhir/jpa/dao/dstu2/FhirSystemDaoDstu2Test.java b/hapi-fhir-jpaserver-test-dstu2/src/test/java/ca/uhn/fhir/jpa/dao/dstu2/FhirSystemDaoDstu2Test.java index 95d375c09cd..f0d377dfbf1 100644 --- a/hapi-fhir-jpaserver-test-dstu2/src/test/java/ca/uhn/fhir/jpa/dao/dstu2/FhirSystemDaoDstu2Test.java +++ b/hapi-fhir-jpaserver-test-dstu2/src/test/java/ca/uhn/fhir/jpa/dao/dstu2/FhirSystemDaoDstu2Test.java @@ -381,7 +381,7 @@ public class FhirSystemDaoDstu2Test extends BaseJpaDstu2SystemTest { mySystemDao.transaction(mySrd, request); fail(); } catch (PreconditionFailedException e) { - assertThat(e.getMessage(), containsString("with match URL \"Patient")); + assertThat(e.getMessage(), containsString("Multiple resources match this search")); } } @@ -1350,7 +1350,7 @@ public class FhirSystemDaoDstu2Test extends BaseJpaDstu2SystemTest { mySystemDao.transaction(mySrd, request); fail(); } catch (PreconditionFailedException e) { - assertThat(e.getMessage(), containsString("with match URL \"Patient")); + assertThat(e.getMessage(), containsString("Multiple resources match this search")); } } diff --git a/hapi-fhir-jpaserver-test-dstu3/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3SearchNoFtTest.java b/hapi-fhir-jpaserver-test-dstu3/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3SearchNoFtTest.java index 3fffd2d52b6..48e3d1403bc 100644 --- a/hapi-fhir-jpaserver-test-dstu3/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3SearchNoFtTest.java +++ b/hapi-fhir-jpaserver-test-dstu3/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3SearchNoFtTest.java @@ -3566,7 +3566,7 @@ public class FhirResourceDaoDstu3SearchNoFtTest extends BaseJpaDstu3Test { assertEquals(10, myCaptureQueriesListener.countSelectQueries()); assertEquals(5, myCaptureQueriesListener.countUpdateQueries()); assertEquals(1, myCaptureQueriesListener.countInsertQueries()); - assertEquals(1, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); String unformattedSql = myCaptureQueriesListener.getUpdateQueriesForCurrentThread().get(0).getSql(true, false); assertThat(unformattedSql, stringContainsInOrder( "SRC_PATH='Observation.performer'", diff --git a/hapi-fhir-jpaserver-test-dstu3/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirSystemDaoDstu3Test.java b/hapi-fhir-jpaserver-test-dstu3/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirSystemDaoDstu3Test.java index 9464a634194..980470a1c92 100644 --- a/hapi-fhir-jpaserver-test-dstu3/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirSystemDaoDstu3Test.java +++ b/hapi-fhir-jpaserver-test-dstu3/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirSystemDaoDstu3Test.java @@ -829,7 +829,7 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest { mySystemDao.transaction(mySrd, request); fail(); } catch (PreconditionFailedException e) { - assertEquals(Msg.code(1092) + "Invalid match URL \"Patient?identifier=urn%3Asystem%7CtestTransactionCreateInlineMatchUrlWithTwoMatches\" - Multiple resources match this search", e.getMessage()); + assertEquals(Msg.code(2207) + "Invalid match URL \"Patient?identifier=urn%3Asystem%7CtestTransactionCreateInlineMatchUrlWithTwoMatches\" - Multiple resources match this search", e.getMessage()); } } @@ -905,7 +905,7 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest { mySystemDao.transaction(mySrd, request); fail(); } catch (PreconditionFailedException e) { - assertThat(e.getMessage(), containsString("with match URL \"Patient")); + assertThat(e.getMessage(), containsString("Multiple resources match this search")); } } @@ -2052,7 +2052,7 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest { mySystemDao.transaction(mySrd, request); fail(); } catch (PreconditionFailedException e) { - assertThat(e.getMessage(), containsString("with match URL \"Patient")); + assertThat(e.getMessage(), containsString("Multiple resources match this search")); } } @@ -2451,7 +2451,7 @@ public class FhirSystemDaoDstu3Test extends BaseJpaDstu3SystemTest { mySystemDao.transaction(mySrd, bundle); fail(); } catch (PreconditionFailedException e) { - assertEquals(Msg.code(1092) + "Invalid match URL \"Patient?identifier=http://www.ghh.org/identifiers|condreftestpatid1\" - Multiple resources match this search", e.getMessage()); + assertEquals(Msg.code(2207) + "Invalid match URL \"Patient?identifier=http://www.ghh.org/identifiers|condreftestpatid1\" - Multiple resources match this search", e.getMessage()); } } diff --git a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/bulk/imprt2/ConsumeFilesStepR4Test.java b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/bulk/imprt2/ConsumeFilesStepR4Test.java index a2cb0082ba1..bac1f4a08a0 100644 --- a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/bulk/imprt2/ConsumeFilesStepR4Test.java +++ b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/bulk/imprt2/ConsumeFilesStepR4Test.java @@ -66,7 +66,7 @@ public class ConsumeFilesStepR4Test extends BaseJpaR4Test { assertEquals(4, myCaptureQueriesListener.logSelectQueries().size()); assertEquals(0, myCaptureQueriesListener.countInsertQueries()); assertEquals(0, myCaptureQueriesListener.countUpdateQueries()); - assertEquals(2, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); assertEquals(1, myCaptureQueriesListener.countCommits()); assertEquals(0, myCaptureQueriesListener.countRollbacks()); @@ -115,7 +115,7 @@ public class ConsumeFilesStepR4Test extends BaseJpaR4Test { assertEquals(4, myCaptureQueriesListener.logSelectQueries().size()); assertEquals(2, myCaptureQueriesListener.logInsertQueries()); assertEquals(4, myCaptureQueriesListener.logUpdateQueries()); - assertEquals(2, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); assertEquals(1, myCaptureQueriesListener.countCommits()); assertEquals(0, myCaptureQueriesListener.countRollbacks()); diff --git a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/TransactionProcessorTest.java b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/TransactionProcessorTest.java index 05b869de43a..aa0be6962d4 100644 --- a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/TransactionProcessorTest.java +++ b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/TransactionProcessorTest.java @@ -3,6 +3,7 @@ package ca.uhn.fhir.jpa.dao; import ca.uhn.fhir.context.FhirContext; import ca.uhn.fhir.i18n.Msg; import ca.uhn.fhir.interceptor.executor.InterceptorService; +import ca.uhn.fhir.jpa.api.IDaoRegistry; import ca.uhn.fhir.jpa.api.config.JpaStorageSettings; import ca.uhn.fhir.jpa.api.config.ThreadPoolFactoryConfig; import ca.uhn.fhir.jpa.api.dao.DaoRegistry; @@ -26,6 +27,8 @@ import org.hl7.fhir.r4.model.Meta; import org.junit.jupiter.api.BeforeEach; import org.junit.jupiter.api.Test; import org.junit.jupiter.api.extension.ExtendWith; +import org.junit.jupiter.params.ParameterizedTest; +import org.junit.jupiter.params.provider.CsvSource; import org.mockito.Answers; import org.mockito.Spy; import org.slf4j.Logger; @@ -45,6 +48,7 @@ import javax.persistence.EntityManager; import javax.persistence.EntityManagerFactory; import static org.junit.jupiter.api.Assertions.assertEquals; +import static org.junit.jupiter.api.Assertions.assertNull; import static org.junit.jupiter.api.Assertions.fail; import static org.mockito.ArgumentMatchers.any; import static org.mockito.ArgumentMatchers.eq; @@ -59,6 +63,8 @@ public class TransactionProcessorTest { @Autowired private TransactionProcessor myTransactionProcessor; @MockBean + private DaoRegistry myDaoRegistry; + @MockBean private EntityManagerFactory myEntityManagerFactory; @MockBean(answer = Answers.RETURNS_DEEP_STUBS) private EntityManager myEntityManager; @@ -115,6 +121,7 @@ public class TransactionProcessorTest { } } + @Configuration @Import(ThreadPoolFactoryConfig.class) public static class MyConfig { diff --git a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/BasePartitioningR4Test.java b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/BasePartitioningR4Test.java index b54610ea2ad..0f2e87c1b18 100644 --- a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/BasePartitioningR4Test.java +++ b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/BasePartitioningR4Test.java @@ -28,6 +28,7 @@ import javax.servlet.ServletException; import java.time.LocalDate; import java.time.Month; import java.util.ArrayList; +import java.util.Arrays; import java.util.List; import java.util.function.Consumer; @@ -207,15 +208,20 @@ public abstract class BasePartitioningR4Test extends BaseJpaR4SystemTest { @Hook(Pointcut.STORAGE_PARTITION_IDENTIFY_READ) public RequestPartitionId partitionIdentifyRead(ServletRequestDetails theRequestDetails) { + // Just to be nice, figure out the first line in the stack that isn't a part of the + // partitioning or interceptor infrastructure, just so it's obvious who is asking + // for a partition ID String stack; try { throw new Exception(); } catch (Exception e) { stack = StackTraceHelper.getStackAsString(e); - int lastWantedNewLine = StringUtils.ordinalIndexOf(stack, "\n", 25); - if (lastWantedNewLine != -1) { - stack = stack.substring(0, lastWantedNewLine); - } + stack = Arrays.stream(stack.split("\\n")) + .filter(t->t.contains("ca.uhn.fhir")) + .filter(t->!t.toLowerCase().contains("interceptor")) + .filter(t->!t.toLowerCase().contains("partitionhelper")) + .findFirst() + .orElse("UNKNOWN"); } RequestPartitionId retVal = myReadRequestPartitionIds.remove(0); diff --git a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConcurrentCreateTest.java b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConcurrentCreateTest.java index 52fdd410a3c..e6b359306af 100644 --- a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConcurrentCreateTest.java +++ b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConcurrentCreateTest.java @@ -218,6 +218,7 @@ public class FhirResourceDaoR4ConcurrentCreateTest extends BaseJpaR4Test { super(theName); } + @Override public void invoke(IPointcut thePointcut, HookParams theArgs) { doInvoke(thePointcut, theArgs); } diff --git a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConcurrentWriteTest.java b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConcurrentWriteTest.java index 9e0d0a80431..6ac3af5f7a5 100644 --- a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConcurrentWriteTest.java +++ b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConcurrentWriteTest.java @@ -130,37 +130,14 @@ public class FhirResourceDaoR4ConcurrentWriteTest extends BaseJpaR4Test { * Make a transaction with conditional updates that will fail due to * constraint errors and be retried automatically. Make sure that the * retry succeeds and that the data ultimately gets written. + * + * This test used to use a composite unique search parameter, but + * can now rely on the {@link ca.uhn.fhir.jpa.model.entity.ResourceSearchUrlEntity} + * instead. */ @Test public void testTransactionCreates_WithRetry() throws ExecutionException, InterruptedException { myInterceptorRegistry.registerInterceptor(myRetryInterceptor); - myStorageSettings.setUniqueIndexesEnabled(true); - - // Create a unique search parameter to enfore uniqueness - // TODO: remove this once we have a better way to enfore these - SearchParameter sp = new SearchParameter(); - sp.setId("SearchParameter/Practitioner-identifier"); - sp.setType(Enumerations.SearchParamType.TOKEN); - sp.setCode("identifier"); - sp.setExpression("Practitioner.identifier"); - sp.setStatus(Enumerations.PublicationStatus.ACTIVE); - sp.addBase("Practitioner"); - mySearchParameterDao.update(sp); - - sp = new SearchParameter(); - sp.setId("SearchParameter/Practitioner-identifier-unique"); - sp.setType(Enumerations.SearchParamType.COMPOSITE); - sp.setStatus(Enumerations.PublicationStatus.ACTIVE); - sp.addBase("Practitioner"); - sp.addComponent() - .setExpression("Practitioner") - .setDefinition("SearchParameter/Practitioner-identifier"); - sp.addExtension() - .setUrl(HapiExtensions.EXT_SP_UNIQUE) - .setValue(new BooleanType(true)); - mySearchParameterDao.update(sp); - - mySearchParamRegistry.forceRefresh(); AtomicInteger setCounter = new AtomicInteger(0); AtomicInteger fuzzCounter = new AtomicInteger(0); @@ -191,9 +168,9 @@ public class FhirResourceDaoR4ConcurrentWriteTest extends BaseJpaR4Test { assertEquals(1, counts.get("Patient"), counts.toString()); assertEquals(1, counts.get("Observation"), counts.toString()); - assertEquals(7, myResourceLinkDao.count()); // 1 for SP, 6 for transaction - assertEquals(8, myResourceTableDao.count()); // 2 SPs, 6 resources - assertEquals(16, myResourceHistoryTableDao.count()); + assertEquals(6, myResourceLinkDao.count()); + assertEquals(6, myResourceTableDao.count()); + assertEquals(14, myResourceHistoryTableDao.count()); }); } diff --git a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4QueryCountTest.java b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4QueryCountTest.java index 6076a2bbf25..49827496b80 100644 --- a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4QueryCountTest.java +++ b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4QueryCountTest.java @@ -3,6 +3,7 @@ package ca.uhn.fhir.jpa.dao.r4; import ca.uhn.fhir.context.support.ValidationSupportContext; import ca.uhn.fhir.context.support.ValueSetExpansionOptions; import ca.uhn.fhir.jpa.api.config.JpaStorageSettings; +import ca.uhn.fhir.jpa.api.model.DaoMethodOutcome; import ca.uhn.fhir.jpa.api.model.HistoryCountModeEnum; import ca.uhn.fhir.jpa.entity.TermValueSet; import ca.uhn.fhir.jpa.entity.TermValueSetPreExpansionStatusEnum; @@ -44,6 +45,7 @@ import org.hl7.fhir.r4.model.Narrative; import org.hl7.fhir.r4.model.Observation; import org.hl7.fhir.r4.model.Patient; import org.hl7.fhir.r4.model.Practitioner; +import org.hl7.fhir.r4.model.Provenance; import org.hl7.fhir.r4.model.Quantity; import org.hl7.fhir.r4.model.Reference; import org.hl7.fhir.r4.model.ServiceRequest; @@ -68,6 +70,7 @@ import java.util.concurrent.atomic.AtomicInteger; import java.util.function.Supplier; import java.util.stream.Collectors; +import static org.apache.commons.lang3.StringUtils.countMatches; import static org.hamcrest.MatcherAssert.assertThat; import static org.hamcrest.Matchers.containsInAnyOrder; import static org.hamcrest.Matchers.containsString; @@ -133,7 +136,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test myCaptureQueriesListener.logUpdateQueriesForCurrentThread(); assertEquals(0, myCaptureQueriesListener.getUpdateQueriesForCurrentThread().size()); assertThat(myCaptureQueriesListener.getInsertQueriesForCurrentThread(), empty()); - assertEquals(1, myCaptureQueriesListener.getDeleteQueriesForCurrentThread().size()); + assertEquals(0, myCaptureQueriesListener.getDeleteQueriesForCurrentThread().size()); } @@ -159,7 +162,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test myCaptureQueriesListener.logInsertQueriesForCurrentThread(); assertEquals(1, myCaptureQueriesListener.getInsertQueriesForCurrentThread().size()); myCaptureQueriesListener.logDeleteQueriesForCurrentThread(); - assertEquals(1, myCaptureQueriesListener.getDeleteQueriesForCurrentThread().size()); + assertEquals(0, myCaptureQueriesListener.getDeleteQueriesForCurrentThread().size()); } @Test @@ -178,7 +181,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test myCaptureQueriesListener.clear(); group = updateGroup(group, patientList.subList(initialPatientsCount, allPatientsCount)); - assertQueryCount(10, 1, 2, 1); + assertQueryCount(10, 1, 2, 0); assertEquals(allPatientsCount, group.getMember().size()); @@ -200,7 +203,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test group = updateGroup(group, Collections.emptyList()); myCaptureQueriesListener.logSelectQueries(); - assertQueryCount(5, 1, 2, 1); + assertQueryCount(5, 1, 2, 0); assertEquals(30, group.getMember().size()); @@ -237,7 +240,69 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test myCaptureQueriesListener.logInsertQueriesForCurrentThread(); assertEquals(1, myCaptureQueriesListener.getInsertQueriesForCurrentThread().size()); myCaptureQueriesListener.logDeleteQueriesForCurrentThread(); - assertEquals(1, myCaptureQueriesListener.getDeleteQueriesForCurrentThread().size()); + assertEquals(0, myCaptureQueriesListener.getDeleteQueriesForCurrentThread().size()); + } + + + @Test + public void testUpdate_DeletesSearchUrlOnlyWhenPresent() { + + Patient p = new Patient(); + p.setActive(false); + p.addIdentifier().setSystem("http://foo").setValue("123"); + + myCaptureQueriesListener.clear(); + IIdType id = myPatientDao.create(p, "Patient?identifier=http://foo|123", mySrd).getId(); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(1L, id.getVersionIdPartAsLong()); + + // Update 1 - Should delete search URL + + p.setActive(true); + myCaptureQueriesListener.clear(); + id = myPatientDao.update(p, "Patient?identifier=http://foo|123", mySrd).getId(); + assertEquals(1, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(2L, id.getVersionIdPartAsLong()); + + // Update 2 - Should not try to delete search URL + + p.setActive(false); + myCaptureQueriesListener.clear(); + id = myPatientDao.update(p, "Patient?identifier=http://foo|123", mySrd).getId(); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(3L, id.getVersionIdPartAsLong()); + + } + + + @Test + public void testUpdate_DeletesSearchUrlOnlyWhenPresent_NonConditional() { + + Patient p = new Patient(); + p.setActive(false); + p.addIdentifier().setSystem("http://foo").setValue("123"); + + myCaptureQueriesListener.clear(); + IIdType id = myPatientDao.create(p, mySrd).getId(); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(1L, id.getVersionIdPartAsLong()); + + // Update 1 - Should not try to delete search URL since none should exist + + p.setActive(true); + myCaptureQueriesListener.clear(); + id = myPatientDao.update(p, "Patient?identifier=http://foo|123", mySrd).getId(); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(2L, id.getVersionIdPartAsLong()); + + // Update 2 - Should not try to delete search URL + + p.setActive(false); + myCaptureQueriesListener.clear(); + id = myPatientDao.update(p, "Patient?identifier=http://foo|123", mySrd).getId(); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(3L, id.getVersionIdPartAsLong()); + } @@ -543,7 +608,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test myCaptureQueriesListener.logInsertQueriesForCurrentThread(); assertEquals(1, myCaptureQueriesListener.getInsertQueriesForCurrentThread().size()); myCaptureQueriesListener.logDeleteQueriesForCurrentThread(); - assertEquals(1, myCaptureQueriesListener.getDeleteQueriesForCurrentThread().size()); + assertEquals(0, myCaptureQueriesListener.getDeleteQueriesForCurrentThread().size()); // Third time (caches all loaded by now) @@ -661,9 +726,9 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test public void assertNoPartitionSelectors() { List selectQueries = myCaptureQueriesListener.getSelectQueriesForCurrentThread(); for (SqlQuery next : selectQueries) { - assertEquals(0, StringUtils.countMatches(next.getSql(true, true).toLowerCase(), "partition_id is null"), () -> next.getSql(true, true)); - assertEquals(0, StringUtils.countMatches(next.getSql(true, true).toLowerCase(), "partition_id="), () -> next.getSql(true, true)); - assertEquals(0, StringUtils.countMatches(next.getSql(true, true).toLowerCase(), "partition_id ="), () -> next.getSql(true, true)); + assertEquals(0, countMatches(next.getSql(true, true).toLowerCase(), "partition_id is null"), () -> next.getSql(true, true)); + assertEquals(0, countMatches(next.getSql(true, true).toLowerCase(), "partition_id="), () -> next.getSql(true, true)); + assertEquals(0, countMatches(next.getSql(true, true).toLowerCase(), "partition_id ="), () -> next.getSql(true, true)); } } @@ -1058,7 +1123,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test myCaptureQueriesListener.logSelectQueriesForCurrentThread(); String sql = myCaptureQueriesListener.getSelectQueriesForCurrentThread().get(0).getSql(true, true).toLowerCase(); - assertEquals(1, StringUtils.countMatches(sql, "join"), sql); + assertEquals(1, countMatches(sql, "join"), sql); } @@ -1231,7 +1296,6 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test myCaptureQueriesListener.clear(); mySystemDao.transaction(mySrd, createTransactionWithCreatesAndOneMatchUrl()); - myCaptureQueriesListener.logSelectQueriesForCurrentThread(); // 1 lookup for the match URL only assertEquals(1, myCaptureQueriesListener.countSelectQueries()); assertEquals(19, myCaptureQueriesListener.countInsertQueries()); @@ -1426,7 +1490,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test assertEquals(2, myCaptureQueriesListener.countInsertQueries()); myCaptureQueriesListener.logUpdateQueries(); assertEquals(4, myCaptureQueriesListener.countUpdateQueries()); - assertEquals(3, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); /* * Third time with mass ingestion mode enabled @@ -1442,7 +1506,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test assertEquals(2, myCaptureQueriesListener.countInsertQueries()); myCaptureQueriesListener.logUpdateQueries(); assertEquals(4, myCaptureQueriesListener.countUpdateQueries()); - assertEquals(1, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); } @@ -1509,7 +1573,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test assertEquals(7, myCaptureQueriesListener.countInsertQueries()); myCaptureQueriesListener.logUpdateQueries(); assertEquals(4, myCaptureQueriesListener.countUpdateQueries()); - assertEquals(3, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); /* * Third time with mass ingestion mode enabled @@ -1525,7 +1589,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test assertEquals(5, myCaptureQueriesListener.countInsertQueries()); myCaptureQueriesListener.logUpdateQueries(); assertEquals(4, myCaptureQueriesListener.countUpdateQueries()); - assertEquals(1, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); } @@ -1553,6 +1617,8 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test mySystemDao.transaction(mySrd, input); myCaptureQueriesListener.logSelectQueriesForCurrentThread(); assertEquals(2, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(1, countMatches(myCaptureQueriesListener.getSelectQueries().get(0).getSql(true, false), "'6445233466262474106'")); + assertEquals(1, countMatches(myCaptureQueriesListener.getSelectQueries().get(1).getSql(true, false), "'LOC'")); assertEquals(6, runInTransaction(() -> myResourceTableDao.count())); // Second identical pass @@ -1600,7 +1666,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test myCaptureQueriesListener.clear(); mySystemDao.transaction(mySrd, input); myCaptureQueriesListener.logSelectQueriesForCurrentThread(); - assertEquals(4, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(2, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); assertEquals(6, runInTransaction(() -> myResourceTableDao.count())); // Second identical pass @@ -1783,7 +1849,8 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test Bundle outcome = mySystemDao.transaction(mySrd, input.get()); ourLog.debug("Resp: {}", myFhirContext.newJsonParser().setPrettyPrint(true).encodeResourceToString(outcome)); myCaptureQueriesListener.logSelectQueries(); - assertEquals(1, myCaptureQueriesListener.countSelectQueries()); + // One to prefetch sys+val, one to prefetch val + assertEquals(2, myCaptureQueriesListener.countSelectQueries()); myCaptureQueriesListener.logInsertQueries(); assertEquals(45, myCaptureQueriesListener.countInsertQueries()); myCaptureQueriesListener.logUpdateQueries(); @@ -1798,12 +1865,12 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test outcome = mySystemDao.transaction(mySrd, input.get()); ourLog.debug("Resp: {}", myFhirContext.newJsonParser().setPrettyPrint(true).encodeResourceToString(outcome)); myCaptureQueriesListener.logSelectQueries(); - assertEquals(8, myCaptureQueriesListener.countSelectQueries()); + assertEquals(9, myCaptureQueriesListener.countSelectQueries()); myCaptureQueriesListener.logInsertQueries(); assertEquals(4, myCaptureQueriesListener.countInsertQueries()); myCaptureQueriesListener.logUpdateQueries(); assertEquals(8, myCaptureQueriesListener.countUpdateQueries()); - assertEquals(4, myCaptureQueriesListener.countDeleteQueries()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueries()); /* * Third time with mass ingestion mode enabled @@ -1815,7 +1882,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test outcome = mySystemDao.transaction(mySrd, input.get()); ourLog.debug("Resp: {}", myFhirContext.newJsonParser().setPrettyPrint(true).encodeResourceToString(outcome)); myCaptureQueriesListener.logSelectQueries(); - assertEquals(7, myCaptureQueriesListener.countSelectQueries()); + assertEquals(8, myCaptureQueriesListener.countSelectQueries()); myCaptureQueriesListener.logInsertQueries(); assertEquals(4, myCaptureQueriesListener.countInsertQueries()); myCaptureQueriesListener.logUpdateQueries(); @@ -1946,7 +2013,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test // Make sure the match URL query uses a small limit String matchUrlQuery = myCaptureQueriesListener.getSelectQueries().get(0).getSql(true, true); - assertThat(matchUrlQuery, containsString("t0.HASH_SYS_AND_VALUE = '-4132452001562191669'")); + assertThat(matchUrlQuery, containsString("HASH_SYS_AND_VALUE='-4132452001562191669'")); assertThat(matchUrlQuery, containsString("limit '2'")); runInTransaction(() -> { @@ -2041,7 +2108,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test assertEquals(2, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); myCaptureQueriesListener.logUpdateQueriesForCurrentThread(); assertEquals(0, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); - assertEquals(1, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); } @@ -2541,7 +2608,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test // Lookup the two existing IDs to make sure they are legit myCaptureQueriesListener.logSelectQueriesForCurrentThread(); - assertEquals(6, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(3, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); assertEquals(10, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); assertEquals(2, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); @@ -2598,9 +2665,8 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test output = mySystemDao.transaction(mySrd, input); ourLog.debug(myFhirContext.newJsonParser().setPrettyPrint(true).encodeResourceToString(output)); - // Lookup the two existing IDs to make sure they are legit myCaptureQueriesListener.logSelectQueriesForCurrentThread(); - assertEquals(4, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(1, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); assertEquals(10, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); assertEquals(2, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); @@ -2663,6 +2729,60 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test } + /** + * This test runs a transaction bundle that has a large number of inline match URLs, + * as well as a large number of updates (PUT). This means that a lot of URLs and resources + * need to be resolved (ie SQL SELECT) in order to proceed with the transaction. Prior + * to the optimization that introduced this test, we had 140 SELECTs, now it's 17. + */ + @Test + public void testTransactionWithManyInlineMatchUrls() throws IOException { + myStorageSettings.setAutoCreatePlaceholderReferenceTargets(true); + + Bundle input = loadResource(myFhirContext, Bundle.class, "/r4/test-patient-bundle.json"); + + myCaptureQueriesListener.clear(); + Bundle output = mySystemDao.transaction(mySrd, input); + myCaptureQueriesListener.logSelectQueries(); + + assertEquals(17, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(6607, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(418, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(2, myCaptureQueriesListener.countCommits()); + assertEquals(0, myCaptureQueriesListener.countRollbacks()); + + assertEquals(input.getEntry().size(), output.getEntry().size()); + + runInTransaction(()->{ + assertEquals(437, myResourceTableDao.count()); + assertEquals(437, myResourceHistoryTableDao.count()); + }); + } + + + @Test + public void testTransactionWithClientAssignedId() { + BundleBuilder bb = new BundleBuilder(myFhirContext); + + for (int i = 0; i < 5; i++) { + Provenance prov = new Provenance(); + prov.setId(IdType.newRandomUuid()); + prov.setOccurred(new DateTimeType("2022")); + bb.addTransactionUpdateEntry(prov).conditional("Provenance/Patient-0d3b0c98-048e-4111-b804-d1c6c7816d5e-" + i); + } + + Bundle input = bb.getBundleTyped(); + +// input.getEntry().get(0). + + myCaptureQueriesListener.clear(); + mySystemDao.transaction(mySrd, input); + assertEquals(1, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + + } + + @Test public void testValueSetExpand_NotPreExpanded_UseHibernateSearch() { createLocalCsAndVs(); @@ -2845,7 +2965,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test assertEquals(8, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); assertEquals(4, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); assertEquals(7, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); - assertEquals(3, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); } @@ -2888,7 +3008,7 @@ public class FhirResourceDaoR4QueryCountTest extends BaseResourceProviderR4Test assertEquals(8, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); assertEquals(2, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); assertEquals(6, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); - assertEquals(7, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); } diff --git a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4SearchOptimizedTest.java b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4SearchOptimizedTest.java index a4aaffa7ac5..4a0f7ede0bc 100644 --- a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4SearchOptimizedTest.java +++ b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4SearchOptimizedTest.java @@ -1146,7 +1146,7 @@ public class FhirResourceDaoR4SearchOptimizedTest extends BaseJpaR4Test { assertEquals(1, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); assertEquals(3, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); - assertEquals(1, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); } @Test @@ -1216,7 +1216,7 @@ public class FhirResourceDaoR4SearchOptimizedTest extends BaseJpaR4Test { myCaptureQueriesListener.logSelectQueriesForCurrentThread(); assertEquals(4, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); assertEquals(1, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); - assertEquals(1, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); assertEquals(1, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); runInTransaction(() -> { assertEquals(1, myResourceTableDao.count()); @@ -1278,7 +1278,7 @@ public class FhirResourceDaoR4SearchOptimizedTest extends BaseJpaR4Test { pt.getNameFirstRep().addGiven("GIVEN1C"); myPatientDao.update(pt); - assertEquals(1, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); assertEquals(4, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); } @@ -1307,7 +1307,7 @@ public class FhirResourceDaoR4SearchOptimizedTest extends BaseJpaR4Test { pt.addName().setFamily("FAMILY2"); myPatientDao.update(pt); - assertEquals(1, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); assertEquals(1, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); // Add an entry to HFJ_RES_VER assertEquals(4, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); // Update SPIDX_STRING and HFJ_RESOURCE @@ -1355,7 +1355,7 @@ public class FhirResourceDaoR4SearchOptimizedTest extends BaseJpaR4Test { */ myCaptureQueriesListener.logSelectQueriesForCurrentThread(); assertEquals(3, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); - assertEquals(1, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); assertEquals(1, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); // Add an entry to HFJ_RES_VER assertEquals(2, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); // Update SPIDX_STRING and HFJ_RESOURCE @@ -1413,7 +1413,7 @@ public class FhirResourceDaoR4SearchOptimizedTest extends BaseJpaR4Test { pt.getManagingOrganization().setReference(orgId2.getValue()); myPatientDao.update(pt); - assertEquals(1, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); assertEquals(1, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); // Add an entry to HFJ_RES_VER assertEquals(2, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); // Update SPIDX_STRING and HFJ_RESOURCE diff --git a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirSystemDaoR4Test.java b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirSystemDaoR4Test.java index dba330d7ee9..94a05457f8d 100644 --- a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirSystemDaoR4Test.java +++ b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirSystemDaoR4Test.java @@ -39,7 +39,9 @@ import ca.uhn.fhir.util.BundleBuilder; import ca.uhn.fhir.util.ClasspathUtil; import org.apache.commons.io.IOUtils; import org.hamcrest.Matchers; +import org.hibernate.envers.query.AuditEntity; import org.hl7.fhir.instance.model.api.IAnyResource; +import org.hl7.fhir.instance.model.api.IBaseResource; import org.hl7.fhir.instance.model.api.IIdType; import org.hl7.fhir.r4.model.AllergyIntolerance; import org.hl7.fhir.r4.model.Appointment; @@ -72,6 +74,7 @@ import org.hl7.fhir.r4.model.OperationOutcome.IssueSeverity; import org.hl7.fhir.r4.model.Organization; import org.hl7.fhir.r4.model.Patient; import org.hl7.fhir.r4.model.Practitioner; +import org.hl7.fhir.r4.model.Provenance; import org.hl7.fhir.r4.model.Quantity; import org.hl7.fhir.r4.model.Reference; import org.hl7.fhir.r4.model.Resource; @@ -143,6 +146,7 @@ public class FhirSystemDaoR4Test extends BaseJpaR4SystemTest { myStorageSettings.setAutoCreatePlaceholderReferenceTargets(defaults.isAutoCreatePlaceholderReferenceTargets()); myStorageSettings.setPopulateIdentifierInAutoCreatedPlaceholderReferenceTargets(defaults.isPopulateIdentifierInAutoCreatedPlaceholderReferenceTargets()); myStorageSettings.setAutoVersionReferenceAtPaths(defaults.getAutoVersionReferenceAtPaths()); + myStorageSettings.setAutoCreatePlaceholderReferenceTargets(defaults.isAutoCreatePlaceholderReferenceTargets()); myFhirContext.getParserOptions().setAutoContainReferenceTargetsWithNoId(true); } @@ -1488,24 +1492,48 @@ public class FhirSystemDaoR4Test extends BaseJpaR4SystemTest { } } + /** + * This test is testing whether someone can sneakily figure out the existence of a resource + * by creating a match URL that references it, even though the user doesn't have permission + * to see that resource. + *

+ * This security check requires a match URL that is too complex for the pre-fetching that + * happens in {@link ca.uhn.fhir.jpa.dao.TransactionProcessor}'s preFetchConditionalUrl + * method (see the javadoc on that method for more details). + */ @Test public void testTransactionCreateInlineMatchUrlWithAuthorizationDenied() { // setup - String methodName = "testTransactionCreateInlineMatchUrlWithAuthorizationDenied"; - Bundle request = new Bundle(); - myStorageSettings.setAllowInlineMatchUrlReferences(true); - Patient p = new Patient(); - p.addIdentifier().setSystem("urn:system").setValue(methodName); - p.setId("Patient/" + methodName); - IIdType id = myPatientDao.update(p, mySrd).getId(); - ourLog.info("Created patient, got it: {}", id); + // Let's create a sensitive observation - Nobody must know we caught COVID! + Patient patient = new Patient(); + patient.setId("J"); + patient.addName().setFamily("Corona").addGiven("John"); + myPatientDao.update(patient, mySrd); - Observation o = new Observation(); - o.getCode().setText("Some Observation"); - o.getSubject().setReference("Patient?identifier=urn%3Asystem%7C" + methodName); - request.addEntry().setResource(o).getRequest().setMethod(HTTPVerb.POST); + Observation obs = new Observation(); + obs.setId("Observation/O"); + obs.setStatus(ObservationStatus.FINAL); + obs.setSubject(new Reference("Patient/J")); + obs.getCode().addCoding() + .setSystem("http://loinc.org") + .setCode("94505-5") + .setDisplay("SARS-CoV-2 (COVID-19) IgG Ab [Units/volume] in Serum or Plasma by Immunoassay"); + obs.setValue(new Quantity() + .setValue(284L) + .setCode("[arb'U]/ml") + .setSystem("http://unitsofmeasure.org")); + myObservationDao.update(obs, mySrd); + + // Create a bundle that tries to sneakily link to the + // patient's covid test + Bundle request = new Bundle(); + + Observation sneakyObs = new Observation(); + sneakyObs.setSubject(new Reference("Patient/J")); + sneakyObs.addHasMember(new Reference("Observation?patient=Patient/J&code=http://loinc.org|94505-5")); + request.addEntry().setResource(sneakyObs).getRequest().setMethod(HTTPVerb.POST); when(mySrd.getRestOperationType()).thenReturn(RestOperationTypeEnum.TRANSACTION); @@ -1528,7 +1556,7 @@ public class FhirSystemDaoR4Test extends BaseJpaR4SystemTest { // verify fail(); } catch (ResourceNotFoundException e) { - assertEquals(Msg.code(1091) + "Invalid match URL \"Patient?identifier=urn%3Asystem%7CtestTransactionCreateInlineMatchUrlWithAuthorizationDenied\" - No resources match this search", e.getMessage()); + assertEquals(Msg.code(1091) + "Invalid match URL \"Observation?patient=Patient/J&code=http://loinc.org|94505-5\" - No resources match this search", e.getMessage()); } finally { myInterceptorRegistry.unregisterInterceptor(interceptor); } @@ -1904,7 +1932,7 @@ public class FhirSystemDaoR4Test extends BaseJpaR4SystemTest { mySystemDao.transaction(mySrd, request); fail(); } catch (PreconditionFailedException e) { - assertEquals(Msg.code(1092) + "Invalid match URL \"Patient?identifier=urn%3Asystem%7CtestTransactionCreateInlineMatchUrlWithTwoMatches\" - Multiple resources match this search", e.getMessage()); + assertEquals(Msg.code(2207) + "Invalid match URL \"Patient?identifier=urn%3Asystem%7CtestTransactionCreateInlineMatchUrlWithTwoMatches\" - Multiple resources match this search", e.getMessage()); } } @@ -1980,7 +2008,7 @@ public class FhirSystemDaoR4Test extends BaseJpaR4SystemTest { mySystemDao.transaction(mySrd, request); fail(); } catch (PreconditionFailedException e) { - assertThat(e.getMessage(), containsString("with match URL \"Patient")); + assertThat(e.getMessage(), containsString("Multiple resources match this search")); } } @@ -3534,7 +3562,7 @@ public class FhirSystemDaoR4Test extends BaseJpaR4SystemTest { mySystemDao.transaction(mySrd, request); fail(); } catch (PreconditionFailedException e) { - assertThat(e.getMessage(), containsString("with match URL \"Patient")); + assertThat(e.getMessage(), containsString("Multiple resources match this search")); } } @@ -4080,7 +4108,7 @@ public class FhirSystemDaoR4Test extends BaseJpaR4SystemTest { mySystemDao.transaction(mySrd, bundle); fail(); } catch (PreconditionFailedException e) { - assertEquals(Msg.code(1092) + "Invalid match URL \"Patient?identifier=http://www.ghh.org/identifiers|condreftestpatid1\" - Multiple resources match this search", e.getMessage()); + assertEquals(Msg.code(2207) + "Invalid match URL \"Patient?identifier=http://www.ghh.org/identifiers|condreftestpatid1\" - Multiple resources match this search", e.getMessage()); } } diff --git a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/PartitioningSqlR4Test.java b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/PartitioningSqlR4Test.java index faad7cae93f..456e71d91e3 100644 --- a/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/PartitioningSqlR4Test.java +++ b/hapi-fhir-jpaserver-test-r4/src/test/java/ca/uhn/fhir/jpa/dao/r4/PartitioningSqlR4Test.java @@ -68,6 +68,7 @@ import org.mockito.ArgumentCaptor; import org.slf4j.Logger; import org.slf4j.LoggerFactory; +import java.io.IOException; import java.time.LocalDate; import java.util.Date; import java.util.List; @@ -118,7 +119,9 @@ public class PartitioningSqlR4Test extends BasePartitioningR4Test { @AfterEach public void afterEach() { - myStorageSettings.setMarkResourcesForReindexingUponSearchParameterChange(new JpaStorageSettings().isMarkResourcesForReindexingUponSearchParameterChange()); + JpaStorageSettings defaults = new JpaStorageSettings(); + myStorageSettings.setMarkResourcesForReindexingUponSearchParameterChange(defaults.isMarkResourcesForReindexingUponSearchParameterChange()); + myStorageSettings.setMatchUrlCacheEnabled(defaults.isMatchUrlCacheEnabled()); } @Test @@ -2763,8 +2766,9 @@ public class PartitioningSqlR4Test extends BasePartitioningR4Test { Bundle outcome = mySystemDao.transaction(mySrd, input.get()); ourLog.debug("Resp: {}", myFhirContext.newJsonParser().setPrettyPrint(true).encodeResourceToString(outcome)); myCaptureQueriesListener.logSelectQueriesForCurrentThread(); - assertEquals(1, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); - assertThat(myCaptureQueriesListener.getSelectQueriesForCurrentThread().get(0).getSql(true, false), containsString("resourcein0_.HASH_SYS_AND_VALUE='-4132452001562191669' and (resourcein0_.PARTITION_ID in ('1'))")); + assertEquals(2, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertThat(myCaptureQueriesListener.getSelectQueriesForCurrentThread().get(0).getSql(true, false), containsString("esourcein0_.PARTITION_ID in ('1')")); + assertThat(myCaptureQueriesListener.getSelectQueriesForCurrentThread().get(0).getSql(true, false), containsString("HASH_SYS_AND_VALUE in ('7432183691485874662' , '-3772330830566471409'")); myCaptureQueriesListener.logInsertQueriesForCurrentThread(); assertEquals(45, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); myCaptureQueriesListener.logUpdateQueriesForCurrentThread(); @@ -2779,12 +2783,12 @@ public class PartitioningSqlR4Test extends BasePartitioningR4Test { outcome = mySystemDao.transaction(mySrd, input.get()); ourLog.debug("Resp: {}", myFhirContext.newJsonParser().setPrettyPrint(true).encodeResourceToString(outcome)); myCaptureQueriesListener.logSelectQueriesForCurrentThread(); - assertEquals(8, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(9, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); myCaptureQueriesListener.logInsertQueriesForCurrentThread(); assertEquals(4, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); myCaptureQueriesListener.logUpdateQueriesForCurrentThread(); assertEquals(8, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); - assertEquals(4, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); /* * Third time with mass ingestion mode enabled @@ -2796,7 +2800,7 @@ public class PartitioningSqlR4Test extends BasePartitioningR4Test { outcome = mySystemDao.transaction(mySrd, input.get()); ourLog.debug("Resp: {}", myFhirContext.newJsonParser().setPrettyPrint(true).encodeResourceToString(outcome)); myCaptureQueriesListener.logSelectQueriesForCurrentThread(); - assertEquals(7, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(8, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); myCaptureQueriesListener.logInsertQueriesForCurrentThread(); assertEquals(4, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); myCaptureQueriesListener.logUpdateQueriesForCurrentThread(); @@ -2819,6 +2823,64 @@ public class PartitioningSqlR4Test extends BasePartitioningR4Test { assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); } + @Test + public void testTransactionWithManyInlineMatchUrls() throws IOException { + myStorageSettings.setAutoCreatePlaceholderReferenceTargets(true); + myStorageSettings.setMatchUrlCacheEnabled(true); + myStorageSettings.setIndexMissingFields(JpaStorageSettings.IndexEnabledEnum.DISABLED); + + SystemRequestDetails requestDetails = new SystemRequestDetails(); + requestDetails.setRequestPartitionId(RequestPartitionId.fromPartitionId(myPartitionId)); + + Bundle input = loadResource(myFhirContext, Bundle.class, "/r4/test-patient-bundle.json"); + + myCaptureQueriesListener.clear(); + Bundle output = mySystemDao.transaction(requestDetails, input); + myCaptureQueriesListener.logSelectQueries(); + + assertEquals(18, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(6607, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(418, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(2, myCaptureQueriesListener.countCommits()); + assertEquals(0, myCaptureQueriesListener.countRollbacks()); + + assertEquals(input.getEntry().size(), output.getEntry().size()); + + runInTransaction(()->{ + assertEquals(437, myResourceTableDao.count()); + assertEquals(437, myResourceHistoryTableDao.count()); + }); + + /* + * Run a second time + */ + + requestDetails = new SystemRequestDetails(); + requestDetails.setRequestPartitionId(RequestPartitionId.fromPartitionId(myPartitionId)); + + input = loadResource(myFhirContext, Bundle.class, "/r4/test-patient-bundle.json"); + + myCaptureQueriesListener.clear(); + output = mySystemDao.transaction(requestDetails, input); + myCaptureQueriesListener.logSelectQueries(); + + assertEquals(29, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(1, myCaptureQueriesListener.countCommits()); + assertEquals(0, myCaptureQueriesListener.countRollbacks()); + + assertEquals(input.getEntry().size(), output.getEntry().size()); + + runInTransaction(()->{ + assertEquals(437, myResourceTableDao.count()); + assertEquals(437, myResourceHistoryTableDao.count()); + }); + + } + /** * JA: I disabled this test - I am not clear on what it was actually trying to test diff --git a/hapi-fhir-jpaserver-test-r4/src/test/resources/r4/test-patient-bundle.json b/hapi-fhir-jpaserver-test-r4/src/test/resources/r4/test-patient-bundle.json new file mode 100644 index 00000000000..fabb0550b27 --- /dev/null +++ b/hapi-fhir-jpaserver-test-r4/src/test/resources/r4/test-patient-bundle.json @@ -0,0 +1,23186 @@ +{ + "resourceType": "Bundle", + "id": "d04e3687-003d-45c8-b6b5-6a40b2b325fa", + "type": "transaction", + "entry": [ + { + "fullUrl": "urn:uuid:http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234", + "resource": { + "resourceType": "Patient", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234", + "meta": { + "profile": [ + "http://hl7.org/fhir/us/core/StructureDefinition/us-core-patient" + ] + }, + "extension": [ + { + "url": "http://hl7.org/fhir/us/core/StructureDefinition/us-core-birthsex", + "valueCode": "UNK" + }, + { + "url": "http://hl7.org/fhir/us/core/StructureDefinition/us-core-race", + "extension": [ + { + "url": "ombCategory", + "valueCoding": { + "system": "urn:oid:2.16.840.1.113883.6.238", + "code": "2106-3", + "display": "White" + } + }, + { + "url": "text", + "valueString": "White" + } + ] + } + ], + "identifier": [ + { + "system": "http://www.example.com/patient/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + { + "system": "http://www.example.com/facility/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-40" + } + ], + "name": [ + { + "use": "official", + "family": "Bowen", + "given": [ + "Paulina" + ] + } + ], + "telecom": [ + { + "system": "phone", + "value": "unknown" + } + ], + "gender": "male", + "birthDate": "1954-01-27", + "address": [ + { + "use": "home", + "line": [ + "897-7924 Class Road" + ], + "city": "Glenwood", + "state": "GA", + "postalCode": "30428-0869", + "country": "United States" + } + ], + "communication": [ + { + "language": { + "coding": [ + { + "system": "urn:ietf:bcp:47", + "code": "en", + "display": "English" + } + ], + "text": "Primary Language" + } + } + ], + "managingOrganization": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + "request": { + "method": "PUT", + "url": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + } + }, + { + "fullUrl": "urn:uuid:Patient-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234", + "resource": { + "resourceType": "Provenance", + "id": "Patient-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + } + ], + "recorded": "2022-05-05T20:41:31.623+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/Patient-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/goal/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126268", + "resource": { + "resourceType": "Goal", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126268", + "identifier": [ + { + "system": "http://www.example.com/goal/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126268" + } + ], + "lifecycleStatus": "active", + "description": { + "text": "The resident will remain free of complications related to immobility, including contractures, thrombus formation, skin-breakdown, fall related injury through the next review date." + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "startDate": "2022-04-18", + "target": [ + { + "dueDate": "2022-04-28" + } + ], + "statusDate": "2022-04-18" + }, + "request": { + "method": "PUT", + "url": "Goal?identifier=http://www.example.com/goal/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126268" + } + }, + { + "fullUrl": "urn:uuid:Goal-0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126268", + "resource": { + "resourceType": "Provenance", + "id": "Goal-0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126268", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/goal/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126268" + } + ], + "recorded": "2022-04-18T15:50:44.037+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/Goal-0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126268" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/goal/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126239", + "resource": { + "resourceType": "Goal", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126239", + "identifier": [ + { + "system": "http://www.example.com/goal/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126239" + } + ], + "lifecycleStatus": "active", + "description": { + "text": "Resident's wishes will be honored." + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "startDate": "2022-04-18", + "target": [ + { + "dueDate": "2022-04-28" + } + ], + "statusDate": "2022-04-18" + }, + "request": { + "method": "PUT", + "url": "Goal?identifier=http://www.example.com/goal/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126239" + } + }, + { + "fullUrl": "urn:uuid:Goal-0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126239", + "resource": { + "resourceType": "Provenance", + "id": "Goal-0d3b0c98-048e-4111-b804-d1c6c7816d5e-2126239", + "target": [ + { + "reference": 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], + "recorded": "2022-04-08T18:39:20.757+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465075" + } + 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}, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465166" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465197", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465197", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465197" + } + ], + "status": "stopped", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationCodeableConcept": { + "coding": [ + { + "system": "http://terminology.example.com/order", + "code": "1465197", + "display": "Magnesium Tablet 400 MG" + } + ] + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-08T19:07:17+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 tablet by mouth two times a day for supplement" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465197" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465197", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465197", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465197" + } + ], + "recorded": "2022-04-08T19:07:17.967+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465197" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465226", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465226", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465226" + } + ], + "status": 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"urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465226", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465226", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465226" + } + ], + "recorded": "2022-04-08T19:03:05.163+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465226" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465244", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465244", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465244" + } + ], + "status": "stopped", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": 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"Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465289" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465351", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465351", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465351" + } + ], + "status": 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}, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465351", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465351", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465351" + } + ], + "recorded": "2022-04-08T19:17:07.503+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": 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"resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465362", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465362" + } + ], + "recorded": "2022-04-08T19:40:19.297+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { 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"request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465369" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465370", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465370", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465370" + } + ], + "status": "stopped", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-24188" + }, + "subject": { + "reference": 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"Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465933" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465935", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465935", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465935" + } + ], + "status": "stopped", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-46442" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-09T16:56:11+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 capsule by mouth three times a day for Diabetic neropathy" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465935" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465935", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465935", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465935" + } + ], + "recorded": "2022-04-09T16:56:11.343+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465935" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465997", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465997", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465997" + } + ], + "status": "stopped", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-29224" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-09T16:31:49+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 tablet by mouth every 6 hours as needed for Nausea and Vomiting" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465997" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465997", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465997", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465997" + } + ], + "recorded": "2022-04-09T16:31:49.390+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1465997" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466016", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466016", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466016" + } + ], + "status": "stopped", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationCodeableConcept": { + "coding": [ + { + "system": "http://terminology.example.com/order", + "code": "1466016", + "display": "Zinc Sulfate Tablet" + } + ] + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-09T16:44:55+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 tablet by mouth one time a day for wound healing" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466016" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466016", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466016", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466016" + } + ], + "recorded": "2022-04-09T16:44:55.737+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466016" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466041", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466041", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466041" + } + ], + "status": "stopped", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1875" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-09T16:51:47+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 tablet by mouth one time a day for wound healing" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466041" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466041", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466041", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466041" + } + ], + "recorded": "2022-04-09T16:51:47.757+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466041" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466080", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466080", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466080" + } + ], + "status": "active", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1646" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-09T17:39:24+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Inject 0.1 ml intradermally every day shift for Tuberculin Screening for 1 Day Read within 48-72 hours. Document results on separate order." + }, + { + "text": "Inject 0.1 ml intradermally every day shift for Tuberculin Screening for 1 Day Schedule 7-10 days from first administration. Read within 48-72 hours. Document results on separate order." + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466080" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466080", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466080", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466080" + } + ], + "recorded": "2022-04-09T17:39:24.907+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466080" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466167", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466167", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466167" + } + ], + "status": "stopped", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationCodeableConcept": { + "coding": [ + { + "system": "http://terminology.example.com/order", + "code": "1466167", + "display": "Magnesium Tablet 400 MG" + } + ] + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-09T16:59:04+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 tablet by mouth two times a day for hypomagnisiem" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466167" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466167", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466167", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466167" + } + ], + "recorded": "2022-04-09T16:59:04.173+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466167" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466191", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466191", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466191" + } + ], + "status": "stopped", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationCodeableConcept": { + "coding": [ + { + "system": "http://terminology.example.com/order", + "code": "1466191", + "display": "Zinc Sulfate Tablet" + } + ] + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-09T17:34:35+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 220 mg by mouth one time a day for wound healing" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466191" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466191", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466191", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466191" + } + ], + "recorded": "2022-04-09T17:34:35.720+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466191" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466962", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466962", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466962" + } + ], + "status": "stopped", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-61609" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-11T18:40:17+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 tablet by mouth one time a day related to GASTRO-ESOPHAGEAL REFLUX DISEASE WITHOUT ESOPHAGITIS (K21.9)" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466962" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466962", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466962", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466962" + } + ], + "recorded": "2022-04-11T18:40:17.247+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1466962" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1467101", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1467101", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1467101" + } + ], + "status": "active", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-94418" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-11T18:43:56+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Apply 1 patch transdermally every 72 hours related to OTHER CHRONIC PAIN (G89.29) and remove per schedule" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1467101" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1467101", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1467101", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1467101" + } + ], + "recorded": "2022-04-11T18:43:56.100+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1467101" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1470619", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1470619", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1470619" + } + ], + "status": "active", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-2411" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-15T16:02:54+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 tablet via PEG-Tube two times a day for wound infection for 10 Days Give PO or per tube" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1470619" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1470619", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1470619", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1470619" + } + ], + "recorded": "2022-04-15T16:02:54.750+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1470619" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472417", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472417", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472417" + } + ], + "status": "active", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-29224" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-18T18:13:35+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 tablet by mouth every 6 hours as needed for Nausea and Vomiting may give PO or PT" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472417" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472417", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472417", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472417" + } + ], + "recorded": "2022-04-18T18:13:35.270+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472417" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472522", + "resource": { + "resourceType": "MedicationRequest", + 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}, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-18T22:53:07+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 packet via G-Tube one time a day for gerd" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472785" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472785", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472785", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472785" + } + ], + "recorded": "2022-04-18T22:53:07.860+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472785" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472909", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472909", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472909" + } + ], + "status": "active", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-178960" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-18T22:32:21+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 7.5 ml via G-Tube one time a day for anemia" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472909" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472909", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472909", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472909" + } + ], + "recorded": "2022-04-18T22:32:21.330+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1472909" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485800", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485800", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485800" + } + ], + "status": "active", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-2411" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-29T18:15:01+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 tablet by mouth two times a day for penile discharge for 7 Days May give by tube" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485800" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485800", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485800", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485800" + } + ], + "recorded": "2022-04-29T18:15:01.963+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485800" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485819", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485819", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485819" + } + ], + "status": "active", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-25898" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-04-29T18:07:29+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Inject 1 gram intramuscularly one time a day for penile discharge for 3 Days" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485819" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485819", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485819", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485819" + } + ], + "recorded": "2022-04-29T18:07:29.820+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1485819" + } + }, + { + "fullUrl": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1487524", + "resource": { + "resourceType": "MedicationRequest", + "id": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1487524", + "identifier": [ + { + "system": "http://www.example.com/medicationRequest/identifier", + "value": "0d3b0c98-048e-4111-b804-d1c6c7816d5e-1487524" + } + ], + "status": "active", + "intent": "order", + "reportedReference": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "medicationReference": { + "reference": "Medication?identifier=http://www.example.com/medication/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-29297" + }, + "subject": { + "reference": "Patient?identifier=http://www.example.com/patient/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1648234" + }, + "authoredOn": "2022-05-02T15:37:44+00:00", + "requester": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "dosageInstruction": [ + { + "text": "Give 1 tablet by mouth every 6 hours as needed for pain related to OTHER CHRONIC PAIN (G89.29)" + } + ] + }, + "request": { + "method": "PUT", + "url": "MedicationRequest?identifier=http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1487524" + } + }, + { + "fullUrl": "urn:uuid:MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1487524", + "resource": { + "resourceType": "Provenance", + "id": "MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1487524", + "target": [ + { + "reference": "urn:uuid:http://www.example.com/medicationRequest/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-1487524" + } + ], + "recorded": "2022-05-02T15:37:44.567+00:00", + "agent": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/provenance-participant-type", + "code": "author", + "display": "Author" + } + ] + }, + "who": { + "reference": "Practitioner?identifier=http://www.example.com/practitioner/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e-129616" + }, + "onBehalfOf": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + }, + { + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } + ] + }, + "who": { + "reference": "Organization?identifier=http://www.example.com/organization/identifier|0d3b0c98-048e-4111-b804-d1c6c7816d5e" + } + } + ] + }, + "request": { + "method": "PUT", + "url": "Provenance/MedicationRequest-0d3b0c98-048e-4111-b804-d1c6c7816d5e-1487524" + } + } + ] +} diff --git a/hapi-fhir-jpaserver-test-r5/src/test/java/ca/uhn/fhir/jpa/dao/r5/FhirSystemDaoTransactionR5Test.java b/hapi-fhir-jpaserver-test-r5/src/test/java/ca/uhn/fhir/jpa/dao/r5/FhirSystemDaoTransactionR5Test.java new file mode 100644 index 00000000000..e84160eb483 --- /dev/null +++ b/hapi-fhir-jpaserver-test-r5/src/test/java/ca/uhn/fhir/jpa/dao/r5/FhirSystemDaoTransactionR5Test.java @@ -0,0 +1,386 @@ +package ca.uhn.fhir.jpa.dao.r5; + +import ca.uhn.fhir.jpa.api.config.JpaStorageSettings; +import ca.uhn.fhir.util.BundleBuilder; +import org.hl7.fhir.r5.model.Bundle; +import org.hl7.fhir.r5.model.IdType; +import org.hl7.fhir.r5.model.Observation; +import org.hl7.fhir.r5.model.Patient; +import org.hl7.fhir.r5.model.Quantity; +import org.hl7.fhir.r5.model.Reference; +import org.junit.jupiter.api.AfterEach; +import org.junit.jupiter.params.ParameterizedTest; +import org.junit.jupiter.params.provider.CsvSource; + +import java.util.UUID; + +import static org.apache.commons.lang3.StringUtils.countMatches; +import static org.junit.jupiter.api.Assertions.assertEquals; + +public class FhirSystemDaoTransactionR5Test extends BaseJpaR5Test { + + @AfterEach + public void after() { + JpaStorageSettings defaults = new JpaStorageSettings(); + myStorageSettings.setIndexMissingFields(defaults.getIndexMissingFields()); + myStorageSettings.setMatchUrlCacheEnabled(defaults.isMatchUrlCacheEnabled()); + myStorageSettings.setDeleteEnabled(defaults.isDeleteEnabled()); + } + + + /** + * If an inline match URL is the same as a conditional create in the same transaction, make sure we + * don't issue a select for it + */ + @ParameterizedTest(name = "{index}: {0}") + @CsvSource({ + "Match URL Cache Enabled, true", + "Match URL Cache Disabled, false" + }) + public void testInlineMatchUrlMatchesConditionalUpdate(@SuppressWarnings("unused") String theName, boolean theMatchUrlCacheEnabled) { + // Setup + myStorageSettings.setIndexMissingFields(JpaStorageSettings.IndexEnabledEnum.DISABLED); + myStorageSettings.setMatchUrlCacheEnabled(theMatchUrlCacheEnabled); + + BundleBuilder bb = new BundleBuilder(myFhirContext); + + Observation observation1 = new Observation(); + observation1.addIdentifier().setSystem("http://observation").setValue("111"); + observation1.setSubject(new Reference("Patient?identifier=http://patient|123")); + bb.addTransactionUpdateEntry(observation1).conditional("Observation?identifier=http://observation|111"); + + Patient patient = new Patient(); + patient.addIdentifier().setSystem("http://patient").setValue("123"); + bb.addTransactionUpdateEntry(patient).conditional("Patient?identifier=http://patient|123"); + + Observation observation2 = new Observation(); + observation2.addIdentifier().setSystem("http://observation").setValue("222"); + observation2.setSubject(new Reference("Patient?identifier=http://patient|123")); + bb.addTransactionUpdateEntry(observation2).conditional("Observation?identifier=http://observation|222"); + + Observation observation3 = new Observation(); + observation3.addIdentifier().setSystem("http://observation").setValue("333"); + observation3.setSubject(new Reference("Patient?identifier=http://patient|123")); + bb.addTransactionUpdateEntry(observation3).conditional("Observation?identifier=http://observation|333"); + + Bundle input = bb.getBundleTyped(); + + // Test + myCaptureQueriesListener.clear(); + Bundle output = mySystemDao.transaction(mySrd, input); + + // Verify + + // One select to resolve the 3 match URLs + assertEquals(1, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + String firstSelectQuery = myCaptureQueriesListener.getSelectQueries().get(0).getSql(false, false); + assertEquals(1, countMatches(firstSelectQuery, "HASH_SYS_AND_VALUE in (? , ? , ? , ?)"), firstSelectQuery); + assertEquals(23, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(3, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(1, myCaptureQueriesListener.countCommits()); + assertEquals(0, myCaptureQueriesListener.countRollbacks()); + + assertEquals(4, output.getEntry().size()); + + IdType patientId = new IdType(output.getEntry().get(1).getResponse().getLocation()); + IdType observationId = new IdType(output.getEntry().get(2).getResponse().getLocation()); + Observation actualObs = myObservationDao.read(observationId, mySrd); + assertEquals(patientId.toUnqualifiedVersionless().getValue(), actualObs.getSubject().getReference()); + + myCaptureQueriesListener.logInsertQueries(); + runInTransaction(() -> { + assertEquals(4, myResourceTableDao.count()); + assertEquals(4, myResourceHistoryTableDao.count()); + assertEquals(6, myResourceLinkDao.count()); + assertEquals(5, myResourceIndexedSearchParamTokenDao.count()); + assertEquals(0, myResourceIndexedSearchParamStringDao.count()); + }); + + /* + * Repeat, and make sure we reuse + */ + + bb = new BundleBuilder(myFhirContext); + + observation1 = new Observation(); + observation1.addIdentifier().setSystem("http://observation").setValue("111"); + observation1.setSubject(new Reference("Patient?identifier=http://patient|123")); + bb.addTransactionUpdateEntry(observation1).conditional("Observation?identifier=http://observation|111"); + + patient = new Patient(); + patient.addIdentifier().setSystem("http://patient").setValue("123"); + bb.addTransactionUpdateEntry(patient).conditional("Patient?identifier=http://patient|123"); + + observation2 = new Observation(); + observation2.addIdentifier().setSystem("http://observation").setValue("222"); + observation2.setSubject(new Reference("Patient?identifier=http://patient|123")); + bb.addTransactionUpdateEntry(observation2).conditional("Observation?identifier=http://observation|222"); + + observation3 = new Observation(); + observation3.addIdentifier().setSystem("http://observation").setValue("333"); + observation3.setSubject(new Reference("Patient?identifier=http://patient|123")); + bb.addTransactionUpdateEntry(observation3).conditional("Observation?identifier=http://observation|333"); + + input = bb.getBundleTyped(); + + // Test + myCaptureQueriesListener.clear(); + output = mySystemDao.transaction(mySrd, input); + + // Verify + + assertEquals(theMatchUrlCacheEnabled ? 4 : 5, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(1, myCaptureQueriesListener.countCommits()); + assertEquals(0, myCaptureQueriesListener.countRollbacks()); + + assertEquals(4, output.getEntry().size()); + + patientId = new IdType(output.getEntry().get(1).getResponse().getLocation()); + observationId = new IdType(output.getEntry().get(2).getResponse().getLocation()); + actualObs = myObservationDao.read(observationId, mySrd); + assertEquals(patientId.toUnqualifiedVersionless().getValue(), actualObs.getSubject().getReference()); + + myCaptureQueriesListener.logInsertQueries(); + runInTransaction(() -> { + assertEquals(4, myResourceTableDao.count()); + assertEquals(4, myResourceHistoryTableDao.count()); + assertEquals(6, myResourceLinkDao.count()); + assertEquals(5, myResourceIndexedSearchParamTokenDao.count()); + assertEquals(0, myResourceIndexedSearchParamStringDao.count()); + }); + + + /* + * Repeat once more + */ + + bb = new BundleBuilder(myFhirContext); + + observation1 = new Observation(); + observation1.addIdentifier().setSystem("http://observation").setValue("111"); + observation1.setSubject(new Reference("Patient?identifier=http://patient|123")); + bb.addTransactionUpdateEntry(observation1).conditional("Observation?identifier=http://observation|111"); + + patient = new Patient(); + patient.addIdentifier().setSystem("http://patient").setValue("123"); + bb.addTransactionUpdateEntry(patient).conditional("Patient?identifier=http://patient|123"); + + observation2 = new Observation(); + observation2.addIdentifier().setSystem("http://observation").setValue("222"); + observation2.setSubject(new Reference("Patient?identifier=http://patient|123")); + bb.addTransactionUpdateEntry(observation2).conditional("Observation?identifier=http://observation|222"); + + input = bb.getBundleTyped(); + + // Test + myCaptureQueriesListener.clear(); + output = mySystemDao.transaction(mySrd, input); + + // Verify + + assertEquals(theMatchUrlCacheEnabled ? 4 : 5, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(1, myCaptureQueriesListener.countCommits()); + assertEquals(0, myCaptureQueriesListener.countRollbacks()); + + assertEquals(3, output.getEntry().size()); + + patientId = new IdType(output.getEntry().get(1).getResponse().getLocation()); + observationId = new IdType(output.getEntry().get(2).getResponse().getLocation()); + actualObs = myObservationDao.read(observationId, mySrd); + assertEquals(patientId.toUnqualifiedVersionless().getValue(), actualObs.getSubject().getReference()); + + myCaptureQueriesListener.logInsertQueries(); + runInTransaction(() -> { + assertEquals(4, myResourceTableDao.count()); + assertEquals(4, myResourceHistoryTableDao.count()); + assertEquals(6, myResourceLinkDao.count()); + assertEquals(5, myResourceIndexedSearchParamTokenDao.count()); + assertEquals(0, myResourceIndexedSearchParamStringDao.count()); + }); + + } + + + @ParameterizedTest(name = "{index}: {0}") + @CsvSource({ + "Pre-existing with cache, true ,true", + "Pre-existing without cache, true ,false", + "No match with cache, false ,true", + "No match without cache, false ,false", + }) + public void testRepeatedInlineMatchUrls(@SuppressWarnings("unused") String theName, boolean theTargetAlreadyExists, boolean theMatchUrlCacheEnabled) { + myStorageSettings.setIndexMissingFields(JpaStorageSettings.IndexEnabledEnum.DISABLED); + myStorageSettings.setAutoCreatePlaceholderReferenceTargets(true); + myStorageSettings.setMatchUrlCacheEnabled(theMatchUrlCacheEnabled); + myStorageSettings.setDeleteEnabled(false); + + if (theTargetAlreadyExists) { + Patient patient = new Patient(); + patient.addIdentifier().setSystem("http://patient").setValue("123"); + myPatientDao.create(patient, mySrd); + } + + BundleBuilder bb = new BundleBuilder(myFhirContext); + + for (int i = 0; i < 4; i++) { + Observation observation1 = new Observation(); + observation1.addIdentifier().setSystem("http://observation").setValue(Integer.toString(i)); + observation1.setSubject(new Reference("Patient?identifier=http://patient|123")); + bb.addTransactionCreateEntry(observation1); + } + Bundle input = bb.getBundleTyped(); + + // Test + myCaptureQueriesListener.clear(); + Bundle output = mySystemDao.transaction(mySrd, input); + + // Verify + myCaptureQueriesListener.logSelectQueries(); + assertEquals(1, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(theTargetAlreadyExists ? 20 : 24, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(4, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(1, myCaptureQueriesListener.countCommits()); + assertEquals(0, myCaptureQueriesListener.countRollbacks()); + + assertEquals(4, output.getEntry().size()); + + runInTransaction(() -> { + assertEquals(5, myResourceTableDao.count()); + assertEquals(5, myResourceHistoryTableDao.count()); + assertEquals(8, myResourceLinkDao.count()); + assertEquals(6, myResourceIndexedSearchParamTokenDao.count()); + assertEquals(0, myResourceIndexedSearchParamStringDao.count()); + }); + + /* + * Second pass + */ + + bb = new BundleBuilder(myFhirContext); + + for (int i = 0; i < 4; i++) { + Observation observation1 = new Observation(); + observation1.addIdentifier().setSystem("http://observation").setValue(Integer.toString(i)); + observation1.setSubject(new Reference("Patient?identifier=http://patient|123")); + bb.addTransactionCreateEntry(observation1); + } + input = bb.getBundleTyped(); + + // Test + myCaptureQueriesListener.clear(); + output = mySystemDao.transaction(mySrd, input); + + // Verify + myCaptureQueriesListener.logSelectQueries(); + assertEquals(theMatchUrlCacheEnabled ? 0 : 1, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(20, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(4, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(1, myCaptureQueriesListener.countCommits()); + assertEquals(0, myCaptureQueriesListener.countRollbacks()); + + assertEquals(4, output.getEntry().size()); + + runInTransaction(() -> { + assertEquals(9, myResourceTableDao.count()); + assertEquals(9, myResourceHistoryTableDao.count()); + assertEquals(16, myResourceLinkDao.count()); + assertEquals(10, myResourceIndexedSearchParamTokenDao.count()); + assertEquals(0, myResourceIndexedSearchParamStringDao.count()); + }); + + } + + + @ParameterizedTest(name = "{index}: {0}") + @CsvSource({ + "NC Pre-existing with cache, true ,true, false", + "NC Pre-existing without cache, true ,false, false", + "NC No match with cache, false ,true, false", + "NC No match without cache, false ,false, false", + "C Pre-existing with cache, true ,true, true", + "C Pre-existing without cache, true ,false, true", + "C No match with cache, false ,true, true", + "C No match without cache, false ,false, true", + }) + public void testComplexConditionalUpdate(String theName, boolean theTargetAlreadyExists, boolean theMatchUrlCacheEnabled, boolean theResourceChanges) { + myStorageSettings.setIndexMissingFields(JpaStorageSettings.IndexEnabledEnum.DISABLED); + myStorageSettings.setAutoCreatePlaceholderReferenceTargets(true); + myStorageSettings.setMatchUrlCacheEnabled(theMatchUrlCacheEnabled); + myStorageSettings.setDeleteEnabled(false); + + Patient patient = new Patient(); + patient.setId("Patient/P"); + myPatientDao.update(patient, mySrd); + + if (theTargetAlreadyExists) { + Observation observation1 = new Observation(); + observation1.setValue(new Quantity(5L)); + observation1.setSubject(new Reference("Patient/P")); + myObservationDao.create(observation1, mySrd); + } + + BundleBuilder bb = new BundleBuilder(myFhirContext); + Observation observation1 = new Observation(); + if (theResourceChanges) { + observation1.addNote().setText(UUID.randomUUID().toString()); + } + observation1.setValue(new Quantity(5L)); + observation1.setSubject(new Reference("Patient/P")); + bb.addTransactionUpdateEntry(observation1).conditional("Observation?subject=Patient/P&value-quantity=5"); + Bundle input = bb.getBundleTyped(); + + // Test + myCaptureQueriesListener.clear(); + Bundle output = mySystemDao.transaction(mySrd, input); + + // Verify + myCaptureQueriesListener.logSelectQueries(); + if (theTargetAlreadyExists) { + if (theResourceChanges) { + assertEquals(6, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(1, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(1, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + } else { + assertEquals(6, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + } + } else { + if (theResourceChanges) { + assertEquals(2, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(7, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + } else { + assertEquals(2, myCaptureQueriesListener.countSelectQueriesForCurrentThread()); + assertEquals(7, myCaptureQueriesListener.countInsertQueriesForCurrentThread()); + assertEquals(0, myCaptureQueriesListener.countUpdateQueriesForCurrentThread()); + } + } + assertEquals(0, myCaptureQueriesListener.countDeleteQueriesForCurrentThread()); + assertEquals(1, myCaptureQueriesListener.countCommits()); + assertEquals(0, myCaptureQueriesListener.countRollbacks()); + + assertEquals(1, output.getEntry().size()); + + runInTransaction(() -> { + assertEquals(2, myResourceTableDao.count()); + assertEquals((theTargetAlreadyExists && theResourceChanges) ? 3 : 2, myResourceHistoryTableDao.count()); + assertEquals(2, myResourceLinkDao.count()); + assertEquals(1, myResourceIndexedSearchParamTokenDao.count()); + assertEquals(0, myResourceIndexedSearchParamStringDao.count()); + }); + + } + +} + + diff --git a/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/H2EmbeddedDatabase.java b/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/H2EmbeddedDatabase.java index a19851c1407..223cc3ee49a 100644 --- a/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/H2EmbeddedDatabase.java +++ b/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/H2EmbeddedDatabase.java @@ -1,3 +1,22 @@ +/*- + * #%L + * HAPI FHIR JPA Server Test Utilities + * %% + * Copyright (C) 2014 - 2023 Smile CDR, Inc. + * %% + * Licensed under the Apache License, Version 2.0 (the "License"); + * you may not use this file except in compliance with the License. + * You may obtain a copy of the License at + * + * http://www.apache.org/licenses/LICENSE-2.0 + * + * Unless required by applicable law or agreed to in writing, software + * distributed under the License is distributed on an "AS IS" BASIS, + * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + * See the License for the specific language governing permissions and + * limitations under the License. + * #L% + */ package ca.uhn.fhir.jpa.embedded; import ca.uhn.fhir.jpa.migrate.DriverTypeEnum; diff --git a/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/HapiEmbeddedDatabasesExtension.java b/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/HapiEmbeddedDatabasesExtension.java index 3b59bbd7852..f80a21ffc8b 100644 --- a/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/HapiEmbeddedDatabasesExtension.java +++ b/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/HapiEmbeddedDatabasesExtension.java @@ -1,3 +1,22 @@ +/*- + * #%L + * HAPI FHIR JPA Server Test Utilities + * %% + * Copyright (C) 2014 - 2023 Smile CDR, Inc. + * %% + * Licensed under the Apache License, Version 2.0 (the "License"); + * you may not use this file except in compliance with the License. + * You may obtain a copy of the License at + * + * http://www.apache.org/licenses/LICENSE-2.0 + * + * Unless required by applicable law or agreed to in writing, software + * distributed under the License is distributed on an "AS IS" BASIS, + * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + * See the License for the specific language governing permissions and + * limitations under the License. + * #L% + */ package ca.uhn.fhir.jpa.embedded; import ca.uhn.fhir.jpa.migrate.DriverTypeEnum; diff --git a/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/JpaEmbeddedDatabase.java b/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/JpaEmbeddedDatabase.java index 5f5235fa3a7..e0f53e3059e 100644 --- a/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/JpaEmbeddedDatabase.java +++ b/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/JpaEmbeddedDatabase.java @@ -1,3 +1,22 @@ +/*- + * #%L + * HAPI FHIR JPA Server Test Utilities + * %% + * Copyright (C) 2014 - 2023 Smile CDR, Inc. + * %% + * Licensed under the Apache License, Version 2.0 (the "License"); + * you may not use this file except in compliance with the License. + * You may obtain a copy of the License at + * + * http://www.apache.org/licenses/LICENSE-2.0 + * + * Unless required by applicable law or agreed to in writing, software + * distributed under the License is distributed on an "AS IS" BASIS, + * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + * See the License for the specific language governing permissions and + * limitations under the License. + * #L% + */ package ca.uhn.fhir.jpa.embedded; diff --git a/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/MsSqlEmbeddedDatabase.java b/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/MsSqlEmbeddedDatabase.java index c4ad8a63a69..5dbe58e1bd8 100644 --- a/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/MsSqlEmbeddedDatabase.java +++ b/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/MsSqlEmbeddedDatabase.java @@ -1,3 +1,22 @@ +/*- + * #%L + * HAPI FHIR JPA Server Test Utilities + * %% + * Copyright (C) 2014 - 2023 Smile CDR, Inc. + * %% + * Licensed under the Apache License, Version 2.0 (the "License"); + * you may not use this file except in compliance with the License. + * You may obtain a copy of the License at + * + * http://www.apache.org/licenses/LICENSE-2.0 + * + * Unless required by applicable law or agreed to in writing, software + * distributed under the License is distributed on an "AS IS" BASIS, + * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + * See the License for the specific language governing permissions and + * limitations under the License. + * #L% + */ package ca.uhn.fhir.jpa.embedded; import ca.uhn.fhir.jpa.migrate.DriverTypeEnum; diff --git a/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/PostgresEmbeddedDatabase.java b/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/PostgresEmbeddedDatabase.java index 59d1f13f747..8bcc7835d6f 100644 --- a/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/PostgresEmbeddedDatabase.java +++ b/hapi-fhir-jpaserver-test-utilities/src/main/java/ca/uhn/fhir/jpa/embedded/PostgresEmbeddedDatabase.java @@ -1,3 +1,22 @@ +/*- + * #%L + * HAPI FHIR JPA Server Test Utilities + * %% + * Copyright (C) 2014 - 2023 Smile CDR, Inc. + * %% + * Licensed under the Apache License, Version 2.0 (the "License"); + * you may not use this file except in compliance with the License. + * You may obtain a copy of the License at + * + * http://www.apache.org/licenses/LICENSE-2.0 + * + * Unless required by applicable law or agreed to in writing, software + * distributed under the License is distributed on an "AS IS" BASIS, + * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + * See the License for the specific language governing permissions and + * limitations under the License. + * #L% + */ package ca.uhn.fhir.jpa.embedded; import ca.uhn.fhir.jpa.migrate.DriverTypeEnum; diff --git a/hapi-fhir-server/src/main/java/ca/uhn/fhir/rest/api/server/storage/TransactionDetails.java b/hapi-fhir-server/src/main/java/ca/uhn/fhir/rest/api/server/storage/TransactionDetails.java index 9d27d7169b2..7097fd29f8e 100644 --- a/hapi-fhir-server/src/main/java/ca/uhn/fhir/rest/api/server/storage/TransactionDetails.java +++ b/hapi-fhir-server/src/main/java/ca/uhn/fhir/rest/api/server/storage/TransactionDetails.java @@ -19,6 +19,7 @@ */ package ca.uhn.fhir.rest.api.server.storage; +import ca.uhn.fhir.context.FhirContext; import ca.uhn.fhir.i18n.Msg; import ca.uhn.fhir.interceptor.api.HookParams; import ca.uhn.fhir.interceptor.api.Pointcut; @@ -209,14 +210,14 @@ public class TransactionDetails { * "Observation/123") and a storage ID for that resource. Resources should only be placed within * the TransactionDetails if they are known to exist and be valid targets for other resources to link to. */ - public void addResolvedMatchUrl(String theConditionalUrl, @Nonnull IResourcePersistentId thePersistentId) { + public void addResolvedMatchUrl(FhirContext theFhirContext, String theConditionalUrl, @Nonnull IResourcePersistentId thePersistentId) { Validate.notBlank(theConditionalUrl); Validate.notNull(thePersistentId); if (myResolvedMatchUrls.isEmpty()) { myResolvedMatchUrls = new HashMap<>(); } else if (matchUrlWithDiffIdExists(theConditionalUrl, thePersistentId)) { - String msg = "Invalid match URL " + theConditionalUrl + " - Multiple resources match this search"; + String msg = theFhirContext.getLocalizer().getMessage(TransactionDetails.class, "invalidMatchUrlMultipleMatches", theConditionalUrl); throw new PreconditionFailedException(Msg.code(2207) + msg); } myResolvedMatchUrls.put(theConditionalUrl, thePersistentId); diff --git a/hapi-fhir-storage-batch2/src/main/java/ca/uhn/fhir/batch2/model/WorkChunkCreateEvent.java b/hapi-fhir-storage-batch2/src/main/java/ca/uhn/fhir/batch2/model/WorkChunkCreateEvent.java index 904b4f225df..5adab80eda1 100644 --- a/hapi-fhir-storage-batch2/src/main/java/ca/uhn/fhir/batch2/model/WorkChunkCreateEvent.java +++ b/hapi-fhir-storage-batch2/src/main/java/ca/uhn/fhir/batch2/model/WorkChunkCreateEvent.java @@ -1,3 +1,22 @@ +/*- + * #%L + * HAPI FHIR JPA Server - Batch2 Task Processor + * %% + * Copyright (C) 2014 - 2023 Smile CDR, Inc. + * %% + * Licensed under the Apache License, Version 2.0 (the "License"); + * you may not use this file except in compliance with the License. + * You may obtain a copy of the License at + * + * http://www.apache.org/licenses/LICENSE-2.0 + * + * Unless required by applicable law or agreed to in writing, software + * distributed under the License is distributed on an "AS IS" BASIS, + * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + * See the License for the specific language governing permissions and + * limitations under the License. + * #L% + */ package ca.uhn.fhir.batch2.model; import ca.uhn.fhir.batch2.coordinator.BatchWorkChunk; diff --git a/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/dao/BaseStorageDao.java b/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/dao/BaseStorageDao.java index bb1b10012bb..a4a41ddee74 100644 --- a/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/dao/BaseStorageDao.java +++ b/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/dao/BaseStorageDao.java @@ -256,7 +256,11 @@ public abstract class BaseStorageDao { protected DaoMethodOutcome toMethodOutcome(RequestDetails theRequest, @Nonnull final IBasePersistedResource theEntity, @Nonnull IBaseResource theResource, @Nullable String theMatchUrl, @Nonnull RestOperationTypeEnum theOperationType) { DaoMethodOutcome outcome = new DaoMethodOutcome(); - outcome.setPersistentId(theEntity.getPersistentId()); + + IResourcePersistentId persistentId = theEntity.getPersistentId(); + persistentId.setAssociatedResourceId(theResource.getIdElement()); + + outcome.setPersistentId(persistentId); outcome.setMatchUrl(theMatchUrl); outcome.setOperationType(theOperationType); diff --git a/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/dao/MatchResourceUrlService.java b/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/dao/MatchResourceUrlService.java index 86ba075d39f..954d0c9c33f 100644 --- a/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/dao/MatchResourceUrlService.java +++ b/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/dao/MatchResourceUrlService.java @@ -152,7 +152,7 @@ public class MatchResourceUrlService { if (retVal.size() == 1) { T pid = retVal.iterator().next(); - theTransactionDetails.addResolvedMatchUrl(matchUrl, pid); + theTransactionDetails.addResolvedMatchUrl(myContext, matchUrl, pid); if (myStorageSettings.isMatchUrlCacheEnabled()) { myMemoryCacheService.putAfterCommit(MemoryCacheService.CacheEnum.MATCH_URL, matchUrl, pid); } @@ -216,7 +216,7 @@ public class MatchResourceUrlService { Validate.notBlank(theMatchUrl); Validate.notNull(theResourcePersistentId); String matchUrl = massageForStorage(theResourceType, theMatchUrl); - theTransactionDetails.addResolvedMatchUrl(matchUrl, theResourcePersistentId); + theTransactionDetails.addResolvedMatchUrl(myContext, matchUrl, theResourcePersistentId); if (myStorageSettings.isMatchUrlCacheEnabled()) { myMemoryCacheService.putAfterCommit(MemoryCacheService.CacheEnum.MATCH_URL, matchUrl, theResourcePersistentId); } diff --git a/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/searchparam/extractor/BaseSearchParamWithInlineReferencesExtractor.java b/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/searchparam/extractor/BaseSearchParamWithInlineReferencesExtractor.java index 328d7d2f64d..74097054ca3 100644 --- a/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/searchparam/extractor/BaseSearchParamWithInlineReferencesExtractor.java +++ b/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/searchparam/extractor/BaseSearchParamWithInlineReferencesExtractor.java @@ -100,25 +100,30 @@ public abstract class BaseSearchParamWithInlineReferencesExtractor placeholderOpt = myDaoResourceLinkResolver.createPlaceholderTargetIfConfiguredToDoSo(matchResourceType, nextRef, null, theRequestDetails, theTransactionDetails); if (placeholderOpt.isPresent()) { match = (T) placeholderOpt.get().getPersistentId(); - match.setAssociatedResourceId(placeholderOpt.get().getIdDt()); - theTransactionDetails.addResolvedMatchUrl(nextIdText, match); + newId = myFhirContext.getVersion().newIdType(); + newId.setValue(placeholderOpt.get().getIdDt().getValue()); + match.setAssociatedResourceId(newId); + theTransactionDetails.addResolvedMatchUrl(myFhirContext, nextIdText, match); myMemoryCacheService.putAfterCommit(MemoryCacheService.CacheEnum.MATCH_URL, nextIdText, match); } else { String msg = myFhirContext.getLocalizer().getMessage(BaseStorageDao.class, "invalidMatchUrlNoMatches", nextId.getValue()); throw new ResourceNotFoundException(Msg.code(1091) + msg); } } else if (matches.size() > 1) { - String msg = myFhirContext.getLocalizer().getMessage(BaseStorageDao.class, "invalidMatchUrlMultipleMatches", nextId.getValue()); + String msg = myFhirContext.getLocalizer().getMessage(TransactionDetails.class, "invalidMatchUrlMultipleMatches", nextId.getValue()); throw new PreconditionFailedException(Msg.code(1092) + msg); } else { match = matches.iterator().next(); } - IIdType newId = myIdHelperService.translatePidIdToForcedId(myFhirContext, resourceTypeString, match); + if (newId == null) { + newId = myIdHelperService.translatePidIdToForcedId(myFhirContext, resourceTypeString, match); + } ourLog.debug("Replacing inline match URL[{}] with ID[{}}", nextId.getValue(), newId); if (theTransactionDetails != null) { diff --git a/hapi-fhir-base/src/test/java/ca/uhn/fhir/util/UrlUtilTest.java b/hapi-fhir-structures-r4/src/test/java/ca/uhn/fhir/util/UrlUtilTest.java similarity index 81% rename from hapi-fhir-base/src/test/java/ca/uhn/fhir/util/UrlUtilTest.java rename to hapi-fhir-structures-r4/src/test/java/ca/uhn/fhir/util/UrlUtilTest.java index a92e7dc73de..d8894a0e088 100644 --- a/hapi-fhir-base/src/test/java/ca/uhn/fhir/util/UrlUtilTest.java +++ b/hapi-fhir-structures-r4/src/test/java/ca/uhn/fhir/util/UrlUtilTest.java @@ -1,18 +1,26 @@ package ca.uhn.fhir.util; +import ca.uhn.fhir.context.FhirContext; import ca.uhn.fhir.rest.api.Constants; import org.apache.http.message.BasicNameValuePair; import org.junit.jupiter.api.Test; +import org.junit.jupiter.params.ParameterizedTest; +import org.junit.jupiter.params.provider.CsvSource; import static org.hamcrest.MatcherAssert.assertThat; import static org.hamcrest.Matchers.containsInAnyOrder; import static org.junit.jupiter.api.Assertions.assertAll; import static org.junit.jupiter.api.Assertions.assertEquals; import static org.junit.jupiter.api.Assertions.assertFalse; +import static org.junit.jupiter.api.Assertions.assertNull; import static org.junit.jupiter.api.Assertions.assertTrue; +import static org.mockito.ArgumentMatchers.eq; +import static org.mockito.Mockito.when; public class UrlUtilTest { + private final FhirContext myCtx = FhirContext.forR4Cached(); + @Test public void testNormalizeCanonicalUrl() { assertEquals("http://foo", UrlUtil.normalizeCanonicalUrlForComparison("http://foo/")); @@ -122,4 +130,37 @@ public class UrlUtilTest { containsInAnyOrder(new BasicNameValuePair("names", "homer|simpson"))); } + @ParameterizedTest + @CsvSource({ + "null, null", + "null, urn:uuid:12345", + "Patient, Patient", + "Patient, Patient?", + "Patient, Patient?identifier=foo", + "Patient, /Patient", + "Patient, /Patient?", + "Patient, /Patient?identifier=foo", + "Patient, http://foo/base/Patient?identifier=foo", + "Patient, http://foo/base/Patient/1", + "Patient, http://foo/base/Patient/1/_history/2", + "Patient, /Patient/1", + "Patient, /Patient/1/_history/2", + "Patient, Patient/1", + "Patient, Patient/1/_history/2", + }) + public void testDetermineResourceTypeInResourceUrl(String theExpected, String theUrl) { + String url = theUrl; + if (url.equals("null")) { + url = null; + } + + String actual = UrlUtil.determineResourceTypeInResourceUrl(myCtx, url); + + if (theExpected.equals("null")) { + assertNull(actual); + } else { + assertEquals(theExpected, actual); + } + } + }