Merge pull request #2081 from jamesagnew/feature_2020_09_02_term_multi_version_support

Feature 2020 09 02 term multi version support

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

@@ -20,14 +20,14 @@ package ca.uhn.fhir.util;
  * #L%
  */
 
-import org.apache.commons.lang3.Validate;
 import org.apache.commons.lang3.builder.CompareToBuilder;
 import org.apache.commons.lang3.builder.EqualsBuilder;
 import org.apache.commons.lang3.builder.HashCodeBuilder;
 
-public class VersionIndependentConcept implements Comparable<VersionIndependentConcept> {
+public class FhirVersionIndependentConcept implements Comparable<FhirVersionIndependentConcept> {
 
 	private final String mySystem;
+	private final String mySystemVersion;
 	private final String myCode;
 	private final String myDisplay;
 	private int myHashCode;
@@ -35,12 +35,17 @@ public class VersionIndependentConcept implements Comparable<VersionIndependentC
 	/**
 	 * Constructor
 	 */
-	public VersionIndependentConcept(String theSystem, String theCode) {
+	public FhirVersionIndependentConcept(String theSystem, String theCode) {
 		this(theSystem, theCode, null);
 	}
 
-	public VersionIndependentConcept(String theSystem, String theCode, String theDisplay) {
+	public FhirVersionIndependentConcept(String theSystem, String theCode, String theDisplay) {
+		this(theSystem, theCode, theDisplay, null);
+	}
+
+	public FhirVersionIndependentConcept(String theSystem, String theCode, String theDisplay, String theSystemVersion) {
 		mySystem = theSystem;
+		mySystemVersion = theSystemVersion;
 		myCode = theCode;
 		myDisplay = theDisplay;
 		myHashCode = new HashCodeBuilder(17, 37)
@@ -57,6 +62,9 @@ public class VersionIndependentConcept implements Comparable<VersionIndependentC
 		return mySystem;
 	}
 
+	public String getSystemVersion() {
+		return mySystemVersion;
+	}
 
 	public String getCode() {
 		return myCode;
@@ -72,7 +80,7 @@ public class VersionIndependentConcept implements Comparable<VersionIndependentC
 			return false;
 		}
 
-		VersionIndependentConcept that = (VersionIndependentConcept) theO;
+		FhirVersionIndependentConcept that = (FhirVersionIndependentConcept) theO;
 
 		return new EqualsBuilder()
 			.append(mySystem, that.mySystem)
@@ -86,7 +94,7 @@ public class VersionIndependentConcept implements Comparable<VersionIndependentC
 	}
 
 	@Override
-	public int compareTo(VersionIndependentConcept theOther) {
+	public int compareTo(FhirVersionIndependentConcept theOther) {
 		CompareToBuilder b = new CompareToBuilder();
 		b.append(mySystem, theOther.getSystem());
 		b.append(myCode, theOther.getCode());

hapi-fhir-base/src/main/resources/ca/uhn/fhir/i18n/hapi-messages.properties

@@ -125,6 +125,8 @@ ca.uhn.fhir.jpa.dao.dstu3.FhirResourceDaoConceptMapDstu3.matchesFound=Matches fo
 ca.uhn.fhir.jpa.dao.dstu3.FhirResourceDaoConceptMapDstu3.noMatchesFound=No matches found!
 ca.uhn.fhir.jpa.dao.r4.FhirResourceDaoConceptMapR4.matchesFound=Matches found!
 ca.uhn.fhir.jpa.dao.r4.FhirResourceDaoConceptMapR4.noMatchesFound=No matches found!
+ca.uhn.fhir.jpa.dao.r5.FhirResourceDaoConceptMapR5.matchesFound=Matches found!
+ca.uhn.fhir.jpa.dao.r5.FhirResourceDaoConceptMapR5.noMatchesFound=No matches found!
 ca.uhn.fhir.jpa.dao.r4.FhirResourceDaoSearchParameterR4.invalidSearchParamExpression=The expression "{0}" can not be evaluated and may be invalid: {1}
 
 ca.uhn.fhir.jpa.dao.predicate.PredicateBuilderToken.textModifierDisabledForSearchParam=The :text modifier is disabled for this search parameter
@@ -141,9 +143,13 @@ ca.uhn.fhir.jpa.binstore.BinaryAccessProvider.unknownType=Content in resource of
 
 
 ca.uhn.fhir.jpa.term.BaseTermReadSvcImpl.cannotCreateDuplicateCodeSystemUrl=Can not create multiple CodeSystem resources with CodeSystem.url "{0}", already have one with resource ID: {1}
+ca.uhn.fhir.jpa.term.BaseTermReadSvcImpl.cannotCreateDuplicateCodeSystemUrlAndVersion=Can not create multiple CodeSystem resources with CodeSystem.url "{0}" and CodeSystem.version "{1}", already have one with resource ID: {2}
 ca.uhn.fhir.jpa.term.BaseTermReadSvcImpl.cannotCreateDuplicateConceptMapUrl=Can not create multiple ConceptMap resources with ConceptMap.url "{0}", already have one with resource ID: {1}
+ca.uhn.fhir.jpa.term.BaseTermReadSvcImpl.cannotCreateDuplicateConceptMapUrlAndVersion=Can not create multiple ConceptMap resources with ConceptMap.url "{0}" and ConceptMap.version "{1}", already have one with resource ID: {2}
 ca.uhn.fhir.jpa.term.BaseTermReadSvcImpl.cannotCreateDuplicateValueSetUrl=Can not create multiple ValueSet resources with ValueSet.url "{0}", already have one with resource ID: {1}
 ca.uhn.fhir.jpa.term.BaseTermReadSvcImpl.expansionTooLarge=Expansion of ValueSet produced too many codes (maximum {0}) - Operation aborted!
+ca.uhn.fhir.jpa.term.BaseTermReadSvcImpl.cannotCreateDuplicateValueSetUrlAndVersion=Can not create multiple ValueSet resources with ValueSet.url "{0}" and ValueSet.version "{1}", already have one with resource ID: {2}
+ca.uhn.fhir.jpa.term.BaseTermReadSvcImpl.cannotUpdateUrlOrVersionForValueSetResource=Cannot update URL or version for ValueSet resource. Existing ValueSet resource with resource ID {0} found with ValueSet.url "{1}" and ValueSet.version "{2}"
 
 ca.uhn.fhir.jpa.patch.JsonPatchUtils.failedToApplyPatch=Failed to apply JSON patch to {0}: {1}
 

hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/5_2_0/2081-add-codeystem-validate-code-operation.yaml

@@ -0,0 +1,4 @@
+---
+type: add
+issue: 2081
+title: "An implementation of CodeSystem validate-code operation has been added for R4 and R5."

hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/5_2_0/2081-loinc-loader-multiple-version.yaml

@@ -0,0 +1,4 @@
+---
+type: add
+issue: 2081
+title: "Terminology loader for LOINC will now support specifying version and loading multiple versions of LOINC."

hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/5_2_0/2081-multiple-version-code-systems.yaml

@@ -0,0 +1,4 @@
+---
+type: add
+issue: 2081
+title: "Operations for CodeSystem, ValueSet and ConcepMap will now support multiple CodeSystem versions."

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

@@ -42,6 +42,8 @@ public interface IFhirResourceDaoCodeSystem<T extends IBaseResource, CD, CC> ext
 
 	SubsumesResult subsumes(IPrimitiveType<String> theCodeA, IPrimitiveType<String> theCodeB, IPrimitiveType<String> theSystem, CD theCodingA, CD theCodingB, RequestDetails theRequestDetails);
 
+	IValidationSupport.CodeValidationResult validateCode(IIdType theCodeSystemId, IPrimitiveType<String> theCodeSystemUrl, IPrimitiveType<String> theVersion, IPrimitiveType<String> theCode, IPrimitiveType<String> theDisplay, CD theCoding, CC theCodeableConcept, RequestDetails theRequestDetails);
+
 	class SubsumesResult {
 
 		private final ConceptSubsumptionOutcome myOutcome;

hapi-fhir-jpaserver-api/src/main/java/ca/uhn/fhir/jpa/api/model/TranslationQuery.java

@@ -23,11 +23,14 @@ package ca.uhn.fhir.jpa.api.model;
 import org.apache.commons.lang3.builder.EqualsBuilder;
 import org.apache.commons.lang3.builder.HashCodeBuilder;
 import org.hl7.fhir.r4.model.Coding;
+import org.hl7.fhir.r4.model.StringType;
 import org.hl7.fhir.r4.model.UriType;
 
 public class TranslationQuery {
 	private Coding myCoding;
 	private Long myResourceId;
+	private UriType myUrl;
+	private StringType myConceptMapVersion;
 	private UriType mySource;
 	private UriType myTarget;
 	private UriType myTargetSystem;
@@ -58,6 +61,30 @@ public class TranslationQuery {
 		myResourceId = theResourceId;
 	}
 
+	public boolean hasUrl() {
+		return myUrl != null && myUrl.hasValue();
+	}
+
+	public UriType getUrl() {
+		return myUrl;
+	}
+
+	public void setUrl(UriType theUrl) {
+		myUrl = theUrl;
+	}
+
+	public boolean hasConceptMapVersion() {
+		return myConceptMapVersion != null && myConceptMapVersion.hasValue();
+	}
+
+	public StringType getConceptMapVersion() {
+		return myConceptMapVersion;
+	}
+
+	public void setConceptMapVersion(StringType theConceptMapVersion) {
+		myConceptMapVersion = theConceptMapVersion;
+	}
+	
 	public boolean hasSource() {
 		return mySource != null && mySource.hasValue();
 	}
@@ -107,6 +134,8 @@ public class TranslationQuery {
 			.append(getCoding().getSystem(), that.getCoding().getSystem())
 			.append(getCoding().getVersion(), that.getCoding().getVersion())
 			.append(getResourceId(), that.getResourceId())
+			.append(getUrl(), that.getUrl())
+			.append(getConceptMapVersion(), that.getConceptMapVersion())
 			.append(getSource(), that.getSource())
 			.append(getTarget(), that.getTarget())
 			.append(getTargetSystem(), that.getTargetSystem())
@@ -120,6 +149,8 @@ public class TranslationQuery {
 			.append(getCoding().getSystem())
 			.append(getCoding().getVersion())
 			.append(getResourceId())
+			.append(getUrl())
+			.append(getConceptMapVersion())
 			.append(getSource())
 			.append(getTarget())
 			.append(getTargetSystem())

hapi-fhir-jpaserver-api/src/main/java/ca/uhn/fhir/jpa/api/model/TranslationRequest.java

@@ -1,5 +1,8 @@
 package ca.uhn.fhir.jpa.api.model;
 
+import java.util.ArrayList;
+import java.util.List;
+
 /*
  * #%L
  * HAPI FHIR JPA API
@@ -24,15 +27,15 @@ import org.apache.commons.lang3.Validate;
 import org.hl7.fhir.r4.model.BooleanType;
 import org.hl7.fhir.r4.model.CodeableConcept;
 import org.hl7.fhir.r4.model.Coding;
+import org.hl7.fhir.r4.model.StringType;
 import org.hl7.fhir.r4.model.UriType;
 
-import java.util.ArrayList;
-import java.util.List;
-
 public class TranslationRequest {
 	private CodeableConcept myCodeableConcept;
 	private Long myResourceId;
 	private BooleanType myReverse;
+	private UriType myUrl;
+	private StringType myConceptMapVersion;
 	private UriType mySource;
 	private UriType myTarget;
 	private UriType myTargetSystem;
@@ -90,6 +93,24 @@ public class TranslationRequest {
 		return false;
 	}
 
+	public UriType getUrl() {
+		return myUrl;
+	}
+
+	public TranslationRequest setUrl(UriType theUrl) {
+		myUrl = theUrl;
+		return this;
+	}
+	
+	public StringType getConceptMapVersion() {
+		return myConceptMapVersion;
+	}
+
+	public TranslationRequest setConceptMapVersion(StringType theConceptMapVersion) {
+		myConceptMapVersion = theConceptMapVersion;
+		return this;
+	}
+	
 	public UriType getSource() {
 		return mySource;
 	}
@@ -130,6 +151,14 @@ public class TranslationRequest {
 				translationQuery.setResourceId(this.getResourceId());
 			}
 
+			if (this.hasUrl()) {
+				translationQuery.setUrl(this.getUrl());
+			}
+			
+			if (this.hasConceptMapVersion()) {
+				translationQuery.setConceptMapVersion(this.getConceptMapVersion());
+			}
+			
 			if (this.hasSource()) {
 				translationQuery.setSource(this.getSource());
 			}
@@ -156,6 +185,14 @@ public class TranslationRequest {
 		return myReverse != null;
 	}
 
+	public boolean hasUrl() {
+		return myUrl != null && myUrl.hasValue();
+	}
+
+	public boolean hasConceptMapVersion() {
+		return myConceptMapVersion != null && myConceptMapVersion.hasValue();
+	}
+
 	public boolean hasSource() {
 		return mySource != null && mySource.hasValue();
 	}

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

@@ -23,6 +23,7 @@ package ca.uhn.fhir.jpa.dao;
 import ca.uhn.fhir.context.FhirContext;
 import ca.uhn.fhir.context.support.DefaultProfileValidationSupport;
 import ca.uhn.fhir.context.support.IValidationSupport;
+import ca.uhn.fhir.context.support.IValidationSupport.CodeValidationResult;
 import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoCodeSystem;
 import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoValueSet;
 import ca.uhn.fhir.rest.api.server.storage.ResourcePersistentId;
@@ -43,7 +44,6 @@ import ca.uhn.fhir.rest.param.TokenParam;
 import ca.uhn.fhir.rest.param.UriParam;
 import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
 import ca.uhn.fhir.rest.server.exceptions.ResourceNotFoundException;
-import org.apache.commons.codec.binary.StringUtils;
 import org.hl7.fhir.common.hapi.validation.support.CachingValidationSupport;
 import org.hl7.fhir.common.hapi.validation.support.ValidationSupportChain;
 import org.hl7.fhir.instance.model.api.IIdType;
@@ -57,6 +57,7 @@ import java.util.Collections;
 import java.util.List;
 import java.util.Set;
 
+import static ca.uhn.fhir.jpa.dao.FhirResourceDaoValueSetDstu2.toStringOrNull;
 import static ca.uhn.fhir.jpa.dao.dstu3.FhirResourceDaoValueSetDstu3.vsValidateCodeOptions;
 import static ca.uhn.fhir.jpa.util.LogicUtil.multiXor;
 import static org.apache.commons.lang3.StringUtils.isBlank;
@@ -303,4 +304,10 @@ public class FhirResourceDaoValueSetDstu2 extends BaseHapiFhirResourceDao<ValueS
 		return myTerminologySvc.validateCode(vsValidateCodeOptions(), theId, toStringOrNull(theValueSetIdentifier), toStringOrNull(theSystem), toStringOrNull(theCode), toStringOrNull(theDisplay), theCoding, theCodeableConcept);
 	}
 
+	@Override
+	public CodeValidationResult validateCode(IIdType theCodeSystemId, IPrimitiveType<String> theCodeSystemUrl, IPrimitiveType<String> theVersion, IPrimitiveType<String> theCode, 
+			IPrimitiveType<String> theDisplay, CodingDt theCoding, CodeableConceptDt theCodeableConcept, RequestDetails theRequestDetails) {
+		throw new UnsupportedOperationException();
+	}
+
 }

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

@@ -25,8 +25,11 @@ import ca.uhn.fhir.context.FhirVersionEnum;
 import ca.uhn.fhir.context.support.IValidationSupport;
 import ca.uhn.fhir.jpa.api.dao.DaoRegistry;
 import ca.uhn.fhir.jpa.searchparam.SearchParameterMap;
+import ca.uhn.fhir.rest.api.SortOrderEnum;
+import ca.uhn.fhir.rest.api.SortSpec;
 import ca.uhn.fhir.rest.api.server.IBundleProvider;
 import ca.uhn.fhir.rest.param.StringParam;
+import ca.uhn.fhir.rest.param.TokenParam;
 import ca.uhn.fhir.rest.param.UriParam;
 import com.github.benmanes.caffeine.cache.Cache;
 import com.github.benmanes.caffeine.cache.Caffeine;
@@ -121,18 +124,25 @@ public class JpaPersistedResourceValidationSupport implements IValidationSupport
 					SearchParameterMap params = new SearchParameterMap();
 					params.setLoadSynchronousUpTo(1);
 					params.add(IAnyResource.SP_RES_ID, new StringParam(theUri));
-					search = myDaoRegistry.getResourceDao("ValueSet").search(params);
+					search = myDaoRegistry.getResourceDao(resourceName).search(params);
 					if (search.size() == 0) {
 						params = new SearchParameterMap();
 						params.setLoadSynchronousUpTo(1);
 						params.add(ValueSet.SP_URL, new UriParam(theUri));
-						search = myDaoRegistry.getResourceDao("ValueSet").search(params);
+						search = myDaoRegistry.getResourceDao(resourceName).search(params);
 					}
 				} else {
+					int versionSeparator = theUri.lastIndexOf('|');
 					SearchParameterMap params = new SearchParameterMap();
 					params.setLoadSynchronousUpTo(1);
-					params.add(ValueSet.SP_URL, new UriParam(theUri));
-					search = myDaoRegistry.getResourceDao("ValueSet").search(params);
+					if (versionSeparator != -1) {
+						params.add(ValueSet.SP_VERSION, new TokenParam(theUri.substring(versionSeparator + 1)));
+						params.add(ValueSet.SP_URL, new UriParam(theUri.substring(0,versionSeparator)));
+					} else {
+						params.add(ValueSet.SP_URL, new UriParam(theUri));
+					}
+					params.setSort(new SortSpec("_lastUpdated").setOrder(SortOrderEnum.DESC));
+					search = myDaoRegistry.getResourceDao(resourceName).search(params);
 				}
 			} else if ("StructureDefinition".equals(resourceName)) {
 				// Don't allow the core FHIR definitions to be overwritten
@@ -156,9 +166,16 @@ public class JpaPersistedResourceValidationSupport implements IValidationSupport
 				}
 				search = myDaoRegistry.getResourceDao("Questionnaire").search(params);
 			} else if ("CodeSystem".equals(resourceName)) {
+				int versionSeparator = theUri.lastIndexOf('|');
 				SearchParameterMap params = new SearchParameterMap();
 				params.setLoadSynchronousUpTo(1);
-				params.add(CodeSystem.SP_URL, new UriParam(theUri));
+				if (versionSeparator != -1) {
+					params.add(CodeSystem.SP_VERSION, new TokenParam(theUri.substring(versionSeparator + 1)));
+					params.add(CodeSystem.SP_URL, new UriParam(theUri.substring(0,versionSeparator)));
+				} else {
+					params.add(CodeSystem.SP_URL, new UriParam(theUri));
+				}
+				params.setSort(new SortSpec("_lastUpdated").setOrder(SortOrderEnum.DESC));
 				search = myDaoRegistry.getResourceDao(resourceName).search(params);
 			} else if ("ImplementationGuide".equals(resourceName)) {
 				SearchParameterMap params = new SearchParameterMap();

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

@@ -35,9 +35,19 @@ public interface ITermCodeSystemVersionDao extends JpaRepository<TermCodeSystemV
 	@Query("DELETE FROM TermCodeSystemVersion csv WHERE csv.myCodeSystem = :cs")
 	void deleteForCodeSystem(@Param("cs") TermCodeSystem theCodeSystem);
 
+	@Modifying
+	@Query("DELETE FROM TermCodeSystemVersion csv WHERE csv.myId = :pid")
+	void delete(@Param("pid") Long codesystemversion_pid);
+
 	@Query("SELECT cs FROM TermCodeSystemVersion cs WHERE cs.myCodeSystemPid = :codesystem_pid")
 	List<TermCodeSystemVersion> findByCodeSystemPid(@Param("codesystem_pid") Long theCodeSystemPid);
 
+	@Query("SELECT cs FROM TermCodeSystemVersion cs WHERE cs.myCodeSystemPid = :codesystem_pid AND cs.myCodeSystemVersionId = :codesystem_version_id")
+	TermCodeSystemVersion findByCodeSystemPidAndVersion(@Param("codesystem_pid") Long theCodeSystemPid, @Param("codesystem_version_id") String theCodeSystemVersionId);
+
+	@Query("SELECT cs FROM TermCodeSystemVersion cs WHERE cs.myCodeSystemPid = :codesystem_pid AND cs.myCodeSystemVersionId IS NULL")
+	TermCodeSystemVersion findByCodeSystemPidVersionIsNull(@Param("codesystem_pid") Long theCodeSystemPid);
+
 	@Query("SELECT cs FROM TermCodeSystemVersion cs WHERE cs.myResourcePid = :resource_id")
 	List<TermCodeSystemVersion> findByCodeSystemResourcePid(@Param("resource_id") Long theCodeSystemResourcePid);
 

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

@@ -1,12 +1,15 @@
 package ca.uhn.fhir.jpa.dao.data;
 
-import ca.uhn.fhir.jpa.entity.TermConceptMap;
+import java.util.List;
+import java.util.Optional;
+
+import org.springframework.data.domain.Pageable;
 import org.springframework.data.jpa.repository.JpaRepository;
 import org.springframework.data.jpa.repository.Modifying;
 import org.springframework.data.jpa.repository.Query;
 import org.springframework.data.repository.query.Param;
 
-import java.util.Optional;
+import ca.uhn.fhir.jpa.entity.TermConceptMap;
 
 /*
  * #%L
@@ -36,6 +39,18 @@ public interface ITermConceptMapDao extends JpaRepository<TermConceptMap, Long>
 	@Query("SELECT cm FROM TermConceptMap cm WHERE cm.myResourcePid = :resource_pid")
 	Optional<TermConceptMap> findTermConceptMapByResourcePid(@Param("resource_pid") Long theResourcePid);
 
-	@Query("SELECT cm FROM TermConceptMap cm WHERE cm.myUrl = :url")
+	// Keep backwards compatibility, recommend to use findTermConceptMapByUrlAndNullVersion instead
+	@Deprecated
+	@Query("SELECT cm FROM TermConceptMap cm WHERE cm.myUrl = :url and cm.myVersion is null")
 	Optional<TermConceptMap> findTermConceptMapByUrl(@Param("url") String theUrl);
+	
+	@Query("SELECT cm FROM TermConceptMap cm WHERE cm.myUrl = :url and cm.myVersion is null")
+	Optional<TermConceptMap> findTermConceptMapByUrlAndNullVersion(@Param("url") String theUrl);
+
+	// Note that last updated version is considered current version.
+	@Query(value="SELECT cm FROM TermConceptMap cm INNER JOIN ResourceTable r ON r.myId = cm.myResourcePid WHERE cm.myUrl = :url ORDER BY r.myUpdated DESC") 
+	List<TermConceptMap> getTermConceptMapEntitiesByUrlOrderByMostRecentUpdate(Pageable thePage, @Param("url") String theUrl);
+
+	@Query("SELECT cm FROM TermConceptMap cm WHERE cm.myUrl = :url AND cm.myVersion = :version")
+	Optional<TermConceptMap> findTermConceptMapByUrlAndVersion(@Param("url") String theUrl, @Param("version") String theVersion);
 }

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

@@ -28,6 +28,7 @@ import org.springframework.data.jpa.repository.JpaRepository;
 import org.springframework.data.jpa.repository.Query;
 import org.springframework.data.repository.query.Param;
 
+import java.util.List;
 import java.util.Optional;
 
 public interface ITermValueSetDao extends JpaRepository<TermValueSet, Long> {
@@ -35,10 +36,22 @@ public interface ITermValueSetDao extends JpaRepository<TermValueSet, Long> {
 	@Query("SELECT vs FROM TermValueSet vs WHERE vs.myResourcePid = :resource_pid")
 	Optional<TermValueSet> findByResourcePid(@Param("resource_pid") Long theResourcePid);
 
+	// Keeping for backwards compatibility but recommend using findTermValueSetByUrlAndNullVersion instead.
+	@Deprecated
 	@Query("SELECT vs FROM TermValueSet vs WHERE vs.myUrl = :url")
 	Optional<TermValueSet> findByUrl(@Param("url") String theUrl);
 
 	@Query("SELECT vs FROM TermValueSet vs WHERE vs.myExpansionStatus = :expansion_status")
 	Slice<TermValueSet> findByExpansionStatus(Pageable pageable, @Param("expansion_status") TermValueSetPreExpansionStatusEnum theExpansionStatus);
 
+	@Query(value="SELECT vs FROM TermValueSet vs INNER JOIN ResourceTable r ON r.myId = vs.myResourcePid WHERE vs.myUrl = :url ORDER BY r.myUpdated DESC")
+	List<TermValueSet> findTermValueSetByUrl(Pageable thePage, @Param("url") String theUrl);
+
+	@Query("SELECT vs FROM TermValueSet vs WHERE vs.myUrl = :url AND vs.myVersion IS NULL")
+	Optional<TermValueSet> findTermValueSetByUrlAndNullVersion(@Param("url") String theUrl);
+
+	@Query("SELECT vs FROM TermValueSet vs WHERE vs.myUrl = :url AND vs.myVersion = :version")
+	Optional<TermValueSet> findTermValueSetByUrlAndVersion(@Param("url") String theUrl, @Param("version") String theVersion);
+
+
 }

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

@@ -22,11 +22,10 @@ package ca.uhn.fhir.jpa.dao.dstu3;
 
 import ca.uhn.fhir.context.FhirContext;
 import ca.uhn.fhir.context.support.IValidationSupport;
+import ca.uhn.fhir.context.support.IValidationSupport.CodeValidationResult;
 import ca.uhn.fhir.context.support.ValidationSupportContext;
 import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoCodeSystem;
 import ca.uhn.fhir.jpa.dao.BaseHapiFhirResourceDao;
-import ca.uhn.fhir.jpa.dao.data.ITermCodeSystemDao;
-import ca.uhn.fhir.jpa.entity.TermCodeSystem;
 import ca.uhn.fhir.jpa.model.cross.IBasePersistedResource;
 import ca.uhn.fhir.jpa.term.api.ITermDeferredStorageSvc;
 import ca.uhn.fhir.rest.api.server.storage.ResourcePersistentId;
@@ -65,8 +64,6 @@ public class FhirResourceDaoCodeSystemDstu3 extends BaseHapiFhirResourceDao<Code
 	@Autowired
 	protected ITermDeferredStorageSvc myTermDeferredStorageSvc;
 	@Autowired
-	private ITermCodeSystemDao myCsDao;
-	@Autowired
 	private IValidationSupport myValidationSupport;
 	@Autowired
 	private FhirContext myFhirContext;
@@ -104,7 +101,11 @@ public class FhirResourceDaoCodeSystemDstu3 extends BaseHapiFhirResourceDao<Code
 		String system;
 		if (haveCoding) {
 			code = theCoding.getCode();
-			system = theCoding.getSystem();
+			if (theCoding.hasVersion()) {
+				system = theCoding.getSystem() + "|" + theCoding.getVersion();
+			} else {
+				system = theCoding.getSystem();
+			}
 		} else {
 			code = theCode.getValue();
 			system = theSystem.getValue();
@@ -133,13 +134,8 @@ public class FhirResourceDaoCodeSystemDstu3 extends BaseHapiFhirResourceDao<Code
 	protected void preDelete(CodeSystem theResourceToDelete, ResourceTable theEntityToDelete) {
 		super.preDelete(theResourceToDelete, theEntityToDelete);
 
-		String codeSystemUrl = theResourceToDelete.getUrl();
-		if (isNotBlank(codeSystemUrl)) {
-			TermCodeSystem persCs = myCsDao.findByCodeSystemUri(codeSystemUrl);
-			if (persCs != null) {
-				myTermDeferredStorageSvc.deleteCodeSystem(persCs);
-			}
-		}
+		myTermDeferredStorageSvc.deleteCodeSystemForResource(theEntityToDelete);
+
 	}
 
 	@Override
@@ -160,4 +156,10 @@ public class FhirResourceDaoCodeSystemDstu3 extends BaseHapiFhirResourceDao<Code
 		return retVal;
 	}
 
+	@Override
+	public CodeValidationResult validateCode(IIdType theCodeSystemId, IPrimitiveType<String> theCodeSystemUrl, IPrimitiveType<String> theVersion, IPrimitiveType<String> theCode, 
+			IPrimitiveType<String> theDisplay, Coding theCoding, CodeableConcept theCodeableConcept, RequestDetails theRequestDetails) {	
+		throw new UnsupportedOperationException();
+	}
+	
 }

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

@@ -21,22 +21,18 @@ package ca.uhn.fhir.jpa.dao.dstu3;
  */
 
 import ca.uhn.fhir.context.support.ConceptValidationOptions;
-import ca.uhn.fhir.context.support.DefaultProfileValidationSupport;
 import ca.uhn.fhir.context.support.IValidationSupport;
 import ca.uhn.fhir.context.support.ValidationSupportContext;
 import ca.uhn.fhir.context.support.ValueSetExpansionOptions;
-import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoCodeSystem;
 import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoValueSet;
 import ca.uhn.fhir.jpa.dao.BaseHapiFhirResourceDao;
 import ca.uhn.fhir.jpa.model.cross.IBasePersistedResource;
 import ca.uhn.fhir.jpa.model.entity.ResourceTable;
-import ca.uhn.fhir.jpa.term.api.ITermReadSvc;
 import ca.uhn.fhir.rest.api.server.RequestDetails;
 import ca.uhn.fhir.rest.api.server.storage.TransactionDetails;
 import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
 import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
 import ca.uhn.fhir.util.ElementUtil;
-import org.hl7.fhir.dstu3.model.CodeSystem;
 import org.hl7.fhir.dstu3.model.CodeableConcept;
 import org.hl7.fhir.dstu3.model.Coding;
 import org.hl7.fhir.dstu3.model.IntegerType;
@@ -49,9 +45,6 @@ import org.hl7.fhir.exceptions.FHIRException;
 import org.hl7.fhir.instance.model.api.IBaseResource;
 import org.hl7.fhir.instance.model.api.IIdType;
 import org.hl7.fhir.instance.model.api.IPrimitiveType;
-import org.slf4j.Logger;
-import org.slf4j.LoggerFactory;
-import org.springframework.beans.factory.annotation.Autowired;
 
 import java.util.Date;
 import java.util.List;
@@ -63,19 +56,9 @@ import static org.apache.commons.lang3.StringUtils.isNotBlank;
 import static org.hl7.fhir.convertors.conv30_40.ValueSet30_40.convertValueSet;
 
 public class FhirResourceDaoValueSetDstu3 extends BaseHapiFhirResourceDao<ValueSet> implements IFhirResourceDaoValueSet<ValueSet, Coding, CodeableConcept> {
-	private static final Logger ourLog = LoggerFactory.getLogger(FhirResourceDaoValueSetDstu3.class);
-
-	@Autowired
-	private ITermReadSvc myHapiTerminologySvc;
-
-	@Autowired
-	private DefaultProfileValidationSupport myDefaultProfileValidationSupport;
 
 	private IValidationSupport myValidationSupport;
 
-	@Autowired
-	private IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> myCodeSystemDao;
-
 	@Override
 	public void start() {
 		super.start();
@@ -143,8 +126,7 @@ public class FhirResourceDaoValueSetDstu3 extends BaseHapiFhirResourceDao<ValueS
 			filter.setValue(theFilter);
 		}
 
-		ValueSet retVal = doExpand(source);
-		return retVal;
+		return doExpand(source);
 
 		// if (defaultValueSet != null) {
 		// source = getContext().newJsonParser().parseResource(ValueSet.class, getContext().newJsonParser().encodeResourceToString(defaultValueSet));
@@ -178,8 +160,7 @@ public class FhirResourceDaoValueSetDstu3 extends BaseHapiFhirResourceDao<ValueS
 			filter.setValue(theFilter);
 		}
 
-		ValueSet retVal = doExpand(source, theOffset, theCount);
-		return retVal;
+		return doExpand(source, theOffset, theCount);
 	}
 
 	@Override
@@ -217,6 +198,9 @@ public class FhirResourceDaoValueSetDstu3 extends BaseHapiFhirResourceDao<ValueS
 		ValueSet toExpand = new ValueSet();
 		toExpand.setId(theSource.getId());
 		toExpand.setUrl(theSource.getUrl());
+		if (theSource.getVersion() != null) {
+			toExpand.setVersion(theSource.getVersion());
+		}
 
 		for (ConceptSetComponent next : theSource.getCompose().getInclude()) {
 			toExpand.getCompose().addInclude(next);
@@ -283,12 +267,12 @@ public class FhirResourceDaoValueSetDstu3 extends BaseHapiFhirResourceDao<ValueS
 				try {
 					ValueSet valueSet = (ValueSet) theResource;
 					org.hl7.fhir.r4.model.ValueSet converted = convertValueSet(valueSet);
-					myHapiTerminologySvc.storeTermValueSet(retVal, converted);
+					myTerminologySvc.storeTermValueSet(retVal, converted);
 				} catch (FHIRException fe) {
 					throw new InternalErrorException(fe);
 				}
 			} else {
-				myHapiTerminologySvc.deleteValueSetAndChildren(retVal);
+				myTerminologySvc.deleteValueSetAndChildren(retVal);
 			}
 		}
 

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

@@ -39,7 +39,7 @@ import ca.uhn.fhir.rest.param.TokenParam;
 import ca.uhn.fhir.rest.param.TokenParamModifier;
 import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
 import ca.uhn.fhir.rest.server.exceptions.MethodNotAllowedException;
-import ca.uhn.fhir.util.VersionIndependentConcept;
+import ca.uhn.fhir.util.FhirVersionIndependentConcept;
 import com.google.common.collect.Sets;
 import org.hibernate.query.criteria.internal.CriteriaBuilderImpl;
 import org.hibernate.query.criteria.internal.predicate.BooleanStaticAssertionPredicate;
@@ -160,7 +160,7 @@ class PredicateBuilderToken extends BasePredicateBuilder implements IPredicateBu
 																		From<?, ResourceIndexedSearchParamToken> theFrom,
 																		SearchFilterParser.CompareOperation operation,
 																		RequestPartitionId theRequestPartitionId) {
-		final List<VersionIndependentConcept> codes = new ArrayList<>();
+		final List<FhirVersionIndependentConcept> codes = new ArrayList<>();
 		String paramName = theSearchParam.getName();
 
 		TokenParamModifier modifier = null;
@@ -214,12 +214,12 @@ class PredicateBuilderToken extends BasePredicateBuilder implements IPredicateBu
 				validateHaveSystemAndCodeForToken(paramName, code, system);
 				codes.addAll(myTerminologySvc.findCodesBelow(system, code));
 			} else {
-				codes.add(new VersionIndependentConcept(system, code));
+				codes.add(new FhirVersionIndependentConcept(system, code));
 			}
 
 		}
 
-		List<VersionIndependentConcept> sortedCodesList = codes
+		List<FhirVersionIndependentConcept> sortedCodesList = codes
 			.stream()
 			.filter(t -> t.getCode() != null || t.getSystem() != null)
 			.sorted()
@@ -234,19 +234,19 @@ class PredicateBuilderToken extends BasePredicateBuilder implements IPredicateBu
 		List<Predicate> retVal = new ArrayList<>();
 
 		// System only
-		List<VersionIndependentConcept> systemOnlyCodes = sortedCodesList.stream().filter(t -> isBlank(t.getCode())).collect(Collectors.toList());
+		List<FhirVersionIndependentConcept> systemOnlyCodes = sortedCodesList.stream().filter(t -> isBlank(t.getCode())).collect(Collectors.toList());
 		if (!systemOnlyCodes.isEmpty()) {
 			retVal.add(addPredicate(theResourceName, paramName, theBuilder, theFrom, systemOnlyCodes, modifier, SearchBuilderTokenModeEnum.SYSTEM_ONLY, theRequestPartitionId));
 		}
 
 		// Code only
-		List<VersionIndependentConcept> codeOnlyCodes = sortedCodesList.stream().filter(t -> t.getSystem() == null).collect(Collectors.toList());
+		List<FhirVersionIndependentConcept> codeOnlyCodes = sortedCodesList.stream().filter(t -> t.getSystem() == null).collect(Collectors.toList());
 		if (!codeOnlyCodes.isEmpty()) {
 			retVal.add(addPredicate(theResourceName, paramName, theBuilder, theFrom, codeOnlyCodes, modifier, SearchBuilderTokenModeEnum.VALUE_ONLY, theRequestPartitionId));
 		}
 
 		// System and code
-		List<VersionIndependentConcept> systemAndCodeCodes = sortedCodesList.stream().filter(t -> isNotBlank(t.getCode()) && t.getSystem() != null).collect(Collectors.toList());
+		List<FhirVersionIndependentConcept> systemAndCodeCodes = sortedCodesList.stream().filter(t -> isNotBlank(t.getCode()) && t.getSystem() != null).collect(Collectors.toList());
 		if (!systemAndCodeCodes.isEmpty()) {
 			retVal.add(addPredicate(theResourceName, paramName, theBuilder, theFrom, systemAndCodeCodes, modifier, SearchBuilderTokenModeEnum.SYSTEM_AND_VALUE, theRequestPartitionId));
 		}
@@ -272,8 +272,8 @@ class PredicateBuilderToken extends BasePredicateBuilder implements IPredicateBu
 					String valueSet = valueSetUris.iterator().next();
 					ValueSetExpansionOptions options = new ValueSetExpansionOptions()
 						.setFailOnMissingCodeSystem(false);
-					List<VersionIndependentConcept> candidateCodes = myTerminologySvc.expandValueSet(options, valueSet);
-					for (VersionIndependentConcept nextCandidate : candidateCodes) {
+					List<FhirVersionIndependentConcept> candidateCodes = myTerminologySvc.expandValueSet(options, valueSet);
+					for (FhirVersionIndependentConcept nextCandidate : candidateCodes) {
 						if (nextCandidate.getCode().equals(code)) {
 							retVal = nextCandidate.getSystem();
 							break;
@@ -298,7 +298,7 @@ class PredicateBuilderToken extends BasePredicateBuilder implements IPredicateBu
 		}
 	}
 
-	private Predicate addPredicate(String theResourceName, String theParamName, CriteriaBuilder theBuilder, From<?, ResourceIndexedSearchParamToken> theFrom, List<VersionIndependentConcept> theTokens, TokenParamModifier theModifier, SearchBuilderTokenModeEnum theTokenMode, RequestPartitionId theRequestPartitionId) {
+	private Predicate addPredicate(String theResourceName, String theParamName, CriteriaBuilder theBuilder, From<?, ResourceIndexedSearchParamToken> theFrom, List<FhirVersionIndependentConcept> theTokens, TokenParamModifier theModifier, SearchBuilderTokenModeEnum theTokenMode, RequestPartitionId theRequestPartitionId) {
 		if (myDontUseHashesForSearch) {
 			final Path<String> systemExpression = theFrom.get("mySystem");
 			final Path<String> valueExpression = theFrom.get("myValue");
@@ -317,7 +317,7 @@ class PredicateBuilderToken extends BasePredicateBuilder implements IPredicateBu
 					orPredicates.add(orPredicate);
 					break;
 				case SYSTEM_AND_VALUE:
-					for (VersionIndependentConcept next : theTokens) {
+					for (FhirVersionIndependentConcept next : theTokens) {
 						orPredicates.add(theBuilder.and(
 							toEqualOrIsNullPredicate(systemExpression, next.getSystem()),
 							toEqualOrIsNullPredicate(valueExpression, next.getCode())

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoCodeSystemR4.java

@@ -22,11 +22,10 @@ package ca.uhn.fhir.jpa.dao.r4;
 
 import ca.uhn.fhir.context.FhirContext;
 import ca.uhn.fhir.context.support.IValidationSupport;
+import ca.uhn.fhir.context.support.IValidationSupport.CodeValidationResult;
 import ca.uhn.fhir.context.support.ValidationSupportContext;
 import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoCodeSystem;
 import ca.uhn.fhir.jpa.dao.BaseHapiFhirResourceDao;
-import ca.uhn.fhir.jpa.dao.data.ITermCodeSystemDao;
-import ca.uhn.fhir.jpa.entity.TermCodeSystem;
 import ca.uhn.fhir.jpa.model.cross.IBasePersistedResource;
 import ca.uhn.fhir.jpa.term.api.ITermDeferredStorageSvc;
 import ca.uhn.fhir.rest.api.server.storage.ResourcePersistentId;
@@ -52,14 +51,14 @@ import java.util.Date;
 import java.util.List;
 import java.util.Set;
 
+import static ca.uhn.fhir.jpa.dao.FhirResourceDaoValueSetDstu2.toStringOrNull;
+import static ca.uhn.fhir.jpa.dao.dstu3.FhirResourceDaoValueSetDstu3.vsValidateCodeOptions;
 import static org.apache.commons.lang3.StringUtils.isNotBlank;
 
 public class FhirResourceDaoCodeSystemR4 extends BaseHapiFhirResourceDao<CodeSystem> implements IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> {
 
 	private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(FhirResourceDaoCodeSystemR4.class);
 
-	@Autowired
-	private ITermCodeSystemDao myCsDao;
 	@Autowired
 	private IValidationSupport myValidationSupport;
 	@Autowired
@@ -99,7 +98,11 @@ public class FhirResourceDaoCodeSystemR4 extends BaseHapiFhirResourceDao<CodeSys
 		String system;
 		if (haveCoding) {
 			code = theCoding.getCode();
-			system = theCoding.getSystem();
+			if (theCoding.hasVersion()) {
+				system = theCoding.getSystem() + "|" + theCoding.getVersion();
+			} else {
+				system = theCoding.getSystem();
+			}
 		} else {
 			code = theCode.getValue();
 			system = theSystem.getValue();
@@ -131,13 +134,8 @@ public class FhirResourceDaoCodeSystemR4 extends BaseHapiFhirResourceDao<CodeSys
 	protected void preDelete(CodeSystem theResourceToDelete, ResourceTable theEntityToDelete) {
 		super.preDelete(theResourceToDelete, theEntityToDelete);
 
-		String codeSystemUrl = theResourceToDelete.getUrl();
-		if (isNotBlank(codeSystemUrl)) {
-			TermCodeSystem persCs = myCsDao.findByCodeSystemUri(codeSystemUrl);
-			if (persCs != null) {
-				myTermDeferredStorageSvc.deleteCodeSystem(persCs);
-			}
-		}
+		myTermDeferredStorageSvc.deleteCodeSystemForResource(theEntityToDelete);
+
 	}
 
 	@Override
@@ -155,5 +153,13 @@ public class FhirResourceDaoCodeSystemR4 extends BaseHapiFhirResourceDao<CodeSys
 		return retVal;
 	}
 
+	@Override
+	public CodeValidationResult validateCode(IIdType theCodeSystemId, IPrimitiveType<String> theCodeSystemUrl,
+			IPrimitiveType<String> theVersion, IPrimitiveType<String> theCode, IPrimitiveType<String> theDisplay,
+			Coding theCoding, CodeableConcept theCodeableConcept, RequestDetails theRequestDetails) {
+
+		return myTerminologySvc.codeSystemValidateCode(theCodeSystemId, toStringOrNull(theCodeSystemUrl), toStringOrNull(theVersion), toStringOrNull(theCode), toStringOrNull(theDisplay), theCoding, theCodeableConcept);
+
+	}
 
 }

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoConceptMapR4.java

@@ -32,6 +32,8 @@ import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.rest.api.server.storage.TransactionDetails;
 import ca.uhn.fhir.jpa.term.api.ITermReadSvc;
 import ca.uhn.fhir.rest.api.server.RequestDetails;
+
+import org.hl7.fhir.convertors.VersionConvertor_40_50;
 import org.hl7.fhir.instance.model.api.IBaseResource;
 import org.hl7.fhir.r4.model.BooleanType;
 import org.hl7.fhir.r4.model.CodeType;
@@ -39,6 +41,7 @@ import org.hl7.fhir.r4.model.Coding;
 import org.hl7.fhir.r4.model.ConceptMap;
 import org.hl7.fhir.r4.model.StringType;
 import org.hl7.fhir.r4.model.UriType;
+import org.hl7.fhir.r4.model.Enumerations.ConceptMapEquivalence;
 import org.springframework.beans.factory.annotation.Autowired;
 
 import java.util.Date;
@@ -152,7 +155,11 @@ public class FhirResourceDaoConceptMapR4 extends BaseHapiFhirResourceDao<Concept
 					translationMatch.setSource(new UriType(element.getConceptMapUrl()));
 
 					if (element.getConceptMapGroupElementTargets().size() == 1) {
-						translationMatch.setEquivalence(new CodeType(element.getConceptMapGroupElementTargets().get(0).getEquivalence().toCode()));
+						
+						ConceptMapEquivalence eq = element.getConceptMapGroupElementTargets().get(0).getEquivalence();
+						if (eq != null) {
+							translationMatch.setEquivalence(new CodeType(eq.toCode()));
+						}
 					}
 
 					retVal.addMatch(translationMatch);

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoValueSetR4.java

@@ -20,26 +20,21 @@ package ca.uhn.fhir.jpa.dao.r4;
  * #L%
  */
 
-import ca.uhn.fhir.context.support.DefaultProfileValidationSupport;
 import ca.uhn.fhir.context.support.IValidationSupport;
 import ca.uhn.fhir.context.support.ValidationSupportContext;
 import ca.uhn.fhir.context.support.ValueSetExpansionOptions;
-import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoCodeSystem;
 import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoValueSet;
 import ca.uhn.fhir.jpa.dao.BaseHapiFhirResourceDao;
 import ca.uhn.fhir.jpa.model.cross.IBasePersistedResource;
 import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.rest.api.server.storage.TransactionDetails;
-import ca.uhn.fhir.jpa.term.api.ITermReadSvc;
 import ca.uhn.fhir.rest.api.server.RequestDetails;
 import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
 import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
 import ca.uhn.fhir.util.ElementUtil;
-import org.apache.commons.codec.binary.StringUtils;
 import org.hl7.fhir.instance.model.api.IBaseResource;
 import org.hl7.fhir.instance.model.api.IIdType;
 import org.hl7.fhir.instance.model.api.IPrimitiveType;
-import org.hl7.fhir.r4.model.CodeSystem;
 import org.hl7.fhir.r4.model.CodeableConcept;
 import org.hl7.fhir.r4.model.Coding;
 import org.hl7.fhir.r4.model.IntegerType;
@@ -48,7 +43,6 @@ import org.hl7.fhir.r4.model.ValueSet.ConceptSetComponent;
 import org.hl7.fhir.r4.model.ValueSet.ConceptSetFilterComponent;
 import org.hl7.fhir.r4.model.ValueSet.FilterOperator;
 import org.hl7.fhir.r4.model.ValueSet.ValueSetExpansionContainsComponent;
-import org.springframework.beans.factory.annotation.Autowired;
 
 import java.util.Date;
 import java.util.List;
@@ -60,15 +54,7 @@ import static org.apache.commons.lang3.StringUtils.isNotBlank;
 
 public class FhirResourceDaoValueSetR4 extends BaseHapiFhirResourceDao<ValueSet> implements IFhirResourceDaoValueSet<ValueSet, Coding, CodeableConcept> {
 
-	@Autowired
-	private ITermReadSvc myHapiTerminologySvc;
-
-	@Autowired
-	private DefaultProfileValidationSupport myDefaultProfileValidationSupport;
-
 	private IValidationSupport myValidationSupport;
-	@Autowired
-	private IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> myCodeSystemDao;
 
 	@Override
 	public void start() {
@@ -123,8 +109,7 @@ public class FhirResourceDaoValueSetR4 extends BaseHapiFhirResourceDao<ValueSet>
 			filter.setValue(theFilter);
 		}
 
-		ValueSet retVal = doExpand(source);
-		return retVal;
+		return doExpand(source);
 
 		// if (defaultValueSet != null) {
 		// source = getContext().newJsonParser().parseResource(ValueSet.class, getContext().newJsonParser().encodeResourceToString(defaultValueSet));
@@ -158,8 +143,7 @@ public class FhirResourceDaoValueSetR4 extends BaseHapiFhirResourceDao<ValueSet>
 			filter.setValue(theFilter);
 		}
 
-		ValueSet retVal = doExpand(source, theOffset, theCount);
-		return retVal;
+		return doExpand(source, theOffset, theCount);
 	}
 
 	@Override
@@ -197,6 +181,9 @@ public class FhirResourceDaoValueSetR4 extends BaseHapiFhirResourceDao<ValueSet>
 		ValueSet toExpand = new ValueSet();
 		toExpand.setId(theSource.getId());
 		toExpand.setUrl(theSource.getUrl());
+		if (theSource.getVersion() != null) {
+			toExpand.setVersion(theSource.getVersion());
+		}
 
 		for (ConceptSetComponent next : theSource.getCompose().getInclude()) {
 			toExpand.getCompose().addInclude(next);
@@ -262,9 +249,9 @@ public class FhirResourceDaoValueSetR4 extends BaseHapiFhirResourceDao<ValueSet>
 		if (myDaoConfig.isPreExpandValueSets() && !retVal.isUnchangedInCurrentOperation()) {
 			if (retVal.getDeleted() == null) {
 				ValueSet valueSet = (ValueSet) theResource;
-				myHapiTerminologySvc.storeTermValueSet(retVal, valueSet);
+				myTerminologySvc.storeTermValueSet(retVal, valueSet);
 			} else {
-				myHapiTerminologySvc.deleteValueSetAndChildren(retVal);
+				myTerminologySvc.deleteValueSetAndChildren(retVal);
 			}
 		}
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/r5/FhirResourceDaoCodeSystemR5.java

@@ -23,11 +23,10 @@ package ca.uhn.fhir.jpa.dao.r5;
 import ca.uhn.fhir.context.FhirContext;
 import ca.uhn.fhir.context.support.IValidationSupport;
 import ca.uhn.fhir.context.support.ValidationSupportContext;
+import ca.uhn.fhir.context.support.IValidationSupport.CodeValidationResult;
 import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoCodeSystem;
 import ca.uhn.fhir.jpa.dao.BaseHapiFhirResourceDao;
-import ca.uhn.fhir.jpa.dao.data.ITermCodeSystemDao;
 import ca.uhn.fhir.jpa.dao.index.IdHelperService;
-import ca.uhn.fhir.jpa.entity.TermCodeSystem;
 import ca.uhn.fhir.jpa.model.cross.IBasePersistedResource;
 import ca.uhn.fhir.jpa.term.api.ITermDeferredStorageSvc;
 import ca.uhn.fhir.rest.api.server.storage.ResourcePersistentId;
@@ -53,6 +52,8 @@ import java.util.Date;
 import java.util.List;
 import java.util.Set;
 
+import static ca.uhn.fhir.jpa.dao.FhirResourceDaoValueSetDstu2.toStringOrNull;
+import static ca.uhn.fhir.jpa.dao.dstu3.FhirResourceDaoValueSetDstu3.vsValidateCodeOptions;
 import static org.apache.commons.lang3.StringUtils.isNotBlank;
 
 public class FhirResourceDaoCodeSystemR5 extends BaseHapiFhirResourceDao<CodeSystem> implements IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> {
@@ -63,8 +64,6 @@ public class FhirResourceDaoCodeSystemR5 extends BaseHapiFhirResourceDao<CodeSys
 	@Autowired
 	protected IdHelperService myIdHelperService;
 	@Autowired
-	private ITermCodeSystemDao myCsDao;
-	@Autowired
 	private IValidationSupport myValidationSupport;
 	@Autowired
 	private FhirContext myFhirContext;
@@ -101,7 +100,11 @@ public class FhirResourceDaoCodeSystemR5 extends BaseHapiFhirResourceDao<CodeSys
 		String system;
 		if (haveCoding) {
 			code = theCoding.getCode();
-			system = theCoding.getSystem();
+			if (theCoding.hasVersion()) {
+				system = theCoding.getSystem() + "|" + theCoding.getVersion();
+			} else {
+				system = theCoding.getSystem();
+			}
 		} else {
 			code = theCode.getValue();
 			system = theSystem.getValue();
@@ -133,13 +136,8 @@ public class FhirResourceDaoCodeSystemR5 extends BaseHapiFhirResourceDao<CodeSys
 	protected void preDelete(CodeSystem theResourceToDelete, ResourceTable theEntityToDelete) {
 		super.preDelete(theResourceToDelete, theEntityToDelete);
 
-		String codeSystemUrl = theResourceToDelete.getUrl();
-		if (isNotBlank(codeSystemUrl)) {
-			TermCodeSystem persCs = myCsDao.findByCodeSystemUri(codeSystemUrl);
-			if (persCs != null) {
-				myTermDeferredStorageSvc.deleteCodeSystem(persCs);
-			}
-		}
+		myTermDeferredStorageSvc.deleteCodeSystemForResource(theEntityToDelete);
+
 	}
 
 	@Override
@@ -157,5 +155,11 @@ public class FhirResourceDaoCodeSystemR5 extends BaseHapiFhirResourceDao<CodeSys
 		return retVal;
 	}
 
+	@Override
+	public CodeValidationResult validateCode(IIdType theCodeSystemId, IPrimitiveType<String> theCodeSystemUrl,
+			IPrimitiveType<String> theVersion, IPrimitiveType<String> theCode, IPrimitiveType<String> theDisplay,
+			Coding theCoding, CodeableConcept theCodeableConcept, RequestDetails theRequestDetails) {
 
+		return myTerminologySvc.codeSystemValidateCode(theCodeSystemId, toStringOrNull(theCodeSystemUrl), toStringOrNull(theVersion), toStringOrNull(theCode), toStringOrNull(theDisplay), theCoding, theCodeableConcept);
+	}
 }

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/r5/FhirResourceDaoConceptMapR5.java

@@ -1,5 +1,21 @@
 package ca.uhn.fhir.jpa.dao.r5;
 
+import java.util.Date;
+import java.util.HashSet;
+import java.util.List;
+import java.util.Set;
+
+import org.hl7.fhir.convertors.VersionConvertor_40_50;
+import org.hl7.fhir.instance.model.api.IBaseResource;
+import org.hl7.fhir.r4.model.Enumerations.ConceptMapEquivalence;
+import org.hl7.fhir.r5.model.BooleanType;
+import org.hl7.fhir.r5.model.CodeType;
+import org.hl7.fhir.r5.model.Coding;
+import org.hl7.fhir.r5.model.ConceptMap;
+import org.hl7.fhir.r5.model.StringType;
+import org.hl7.fhir.r5.model.UriType;
+import org.springframework.beans.factory.annotation.Autowired;
+
 /*
  * #%L
  * HAPI FHIR JPA Server
@@ -29,23 +45,9 @@ import ca.uhn.fhir.jpa.entity.TermConceptMapGroupElement;
 import ca.uhn.fhir.jpa.entity.TermConceptMapGroupElementTarget;
 import ca.uhn.fhir.jpa.model.cross.IBasePersistedResource;
 import ca.uhn.fhir.jpa.model.entity.ResourceTable;
-import ca.uhn.fhir.rest.api.server.storage.TransactionDetails;
 import ca.uhn.fhir.jpa.term.api.ITermReadSvc;
 import ca.uhn.fhir.rest.api.server.RequestDetails;
-import org.hl7.fhir.convertors.VersionConvertor_40_50;
-import org.hl7.fhir.instance.model.api.IBaseResource;
-import org.hl7.fhir.r5.model.BooleanType;
-import org.hl7.fhir.r5.model.CodeType;
-import org.hl7.fhir.r5.model.Coding;
-import org.hl7.fhir.r5.model.ConceptMap;
-import org.hl7.fhir.r5.model.StringType;
-import org.hl7.fhir.r5.model.UriType;
-import org.springframework.beans.factory.annotation.Autowired;
-
-import java.util.Date;
-import java.util.HashSet;
-import java.util.List;
-import java.util.Set;
+import ca.uhn.fhir.rest.api.server.storage.TransactionDetails;
 
 public class FhirResourceDaoConceptMapR5 extends BaseHapiFhirResourceDao<ConceptMap> implements IFhirResourceDaoConceptMap<ConceptMap> {
 	@Autowired
@@ -153,7 +155,11 @@ public class FhirResourceDaoConceptMapR5 extends BaseHapiFhirResourceDao<Concept
 					translationMatch.setSource(VersionConvertor_40_50.convertUri(new UriType(element.getConceptMapUrl())));
 
 					if (element.getConceptMapGroupElementTargets().size() == 1) {
-						translationMatch.setEquivalence(VersionConvertor_40_50.convertCode(new CodeType(element.getConceptMapGroupElementTargets().get(0).getEquivalence().toCode())));
+						
+						ConceptMapEquivalence eq = element.getConceptMapGroupElementTargets().get(0).getEquivalence();
+						if (eq != null) {
+							translationMatch.setEquivalence(VersionConvertor_40_50.convertCode(new CodeType(eq.toCode())));
+						}
 					}
 
 					retVal.addMatch(translationMatch);

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/r5/FhirResourceDaoValueSetR5.java

@@ -20,26 +20,20 @@ package ca.uhn.fhir.jpa.dao.r5;
  * #L%
  */
 
-import ca.uhn.fhir.context.support.ConceptValidationOptions;
 import ca.uhn.fhir.context.support.IValidationSupport;
 import ca.uhn.fhir.context.support.ValidationSupportContext;
 import ca.uhn.fhir.context.support.ValueSetExpansionOptions;
-import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoCodeSystem;
 import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoValueSet;
 import ca.uhn.fhir.jpa.dao.BaseHapiFhirResourceDao;
 import ca.uhn.fhir.jpa.model.cross.IBasePersistedResource;
 import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.rest.api.server.storage.TransactionDetails;
-import ca.uhn.fhir.jpa.term.api.ITermReadSvc;
-import ca.uhn.fhir.jpa.util.LogicUtil;
 import ca.uhn.fhir.rest.api.server.RequestDetails;
 import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
 import ca.uhn.fhir.util.ElementUtil;
-import org.apache.commons.codec.binary.StringUtils;
 import org.hl7.fhir.instance.model.api.IBaseResource;
 import org.hl7.fhir.instance.model.api.IIdType;
 import org.hl7.fhir.instance.model.api.IPrimitiveType;
-import org.hl7.fhir.r5.model.CodeSystem;
 import org.hl7.fhir.r5.model.CodeableConcept;
 import org.hl7.fhir.r5.model.Coding;
 import org.hl7.fhir.r5.model.Enumerations;
@@ -48,11 +42,7 @@ import org.hl7.fhir.r5.model.ValueSet;
 import org.hl7.fhir.r5.model.ValueSet.ConceptSetComponent;
 import org.hl7.fhir.r5.model.ValueSet.ConceptSetFilterComponent;
 import org.hl7.fhir.r5.model.ValueSet.ValueSetExpansionContainsComponent;
-import org.hl7.fhir.utilities.validation.ValidationOptions;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.beans.factory.annotation.Qualifier;
 
-import java.util.Collections;
 import java.util.Date;
 import java.util.List;
 
@@ -64,18 +54,8 @@ import static org.apache.commons.lang3.StringUtils.isNotBlank;
 
 public class FhirResourceDaoValueSetR5 extends BaseHapiFhirResourceDao<ValueSet> implements IFhirResourceDaoValueSet<ValueSet, Coding, CodeableConcept> {
 
-	@Autowired
-	private ITermReadSvc myHapiTerminologySvc;
-
-	@Autowired
-	@Qualifier("myDefaultProfileValidationSupport")
-	private IValidationSupport myDefaultProfileValidationSupport;
-
 	private IValidationSupport myValidationSupport;
 
-	@Autowired
-	private IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> myCodeSystemDao;
-
 	@Override
 	public void start() {
 		super.start();
@@ -164,8 +144,7 @@ public class FhirResourceDaoValueSetR5 extends BaseHapiFhirResourceDao<ValueSet>
 			filter.setValue(theFilter);
 		}
 
-		ValueSet retVal = doExpand(source, theOffset, theCount);
-		return retVal;
+		return doExpand(source, theOffset, theCount);
 	}
 
 	@Override
@@ -203,6 +182,9 @@ public class FhirResourceDaoValueSetR5 extends BaseHapiFhirResourceDao<ValueSet>
 		ValueSet toExpand = new ValueSet();
 		toExpand.setId(theSource.getId());
 		toExpand.setUrl(theSource.getUrl());
+		if (theSource.getVersion() != null) {
+			toExpand.setVersion(theSource.getVersion());
+		}
 
 		for (ConceptSetComponent next : theSource.getCompose().getInclude()) {
 			toExpand.getCompose().addInclude(next);
@@ -267,9 +249,9 @@ public class FhirResourceDaoValueSetR5 extends BaseHapiFhirResourceDao<ValueSet>
 		if (myDaoConfig.isPreExpandValueSets() && !retVal.isUnchangedInCurrentOperation()) {
 			if (retVal.getDeleted() == null) {
 				ValueSet valueSet = (ValueSet) theResource;
-				myHapiTerminologySvc.storeTermValueSet(retVal, org.hl7.fhir.convertors.conv40_50.ValueSet40_50.convertValueSet(valueSet));
+				myTerminologySvc.storeTermValueSet(retVal, org.hl7.fhir.convertors.conv40_50.ValueSet40_50.convertValueSet(valueSet));
 			} else {
-				myHapiTerminologySvc.deleteValueSetAndChildren(retVal);
+				myTerminologySvc.deleteValueSetAndChildren(retVal);
 			}
 		}
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/entity/TermCodeSystem.java

@@ -58,7 +58,7 @@ public class TermCodeSystem implements Serializable {
 	@Column(name = "PID")
 	private Long myPid;
 	@OneToOne(fetch = FetchType.LAZY)
-	@JoinColumn(name = "RES_ID", referencedColumnName = "RES_ID", nullable = false, updatable = false, foreignKey = @ForeignKey(name = "FK_TRMCODESYSTEM_RES"))
+	@JoinColumn(name = "RES_ID", referencedColumnName = "RES_ID", nullable = false, updatable = true, foreignKey = @ForeignKey(name = "FK_TRMCODESYSTEM_RES"))
 	private ResourceTable myResource;
 	@Column(name = "RES_ID", insertable = false, updatable = false)
 	private Long myResourcePid;

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/entity/TermCodeSystemVersion.java

@@ -40,17 +40,21 @@ import javax.persistence.OneToMany;
 import javax.persistence.OneToOne;
 import javax.persistence.SequenceGenerator;
 import javax.persistence.Table;
+import javax.persistence.UniqueConstraint;
 import java.io.Serializable;
 import java.util.ArrayList;
 import java.util.Collection;
 
 import static org.apache.commons.lang3.StringUtils.length;
 
-@Table(name = "TRM_CODESYSTEM_VER"
+@Table(name = "TRM_CODESYSTEM_VER",
 	// Note, we used to have a constraint named IDX_CSV_RESOURCEPID_AND_VER (don't reuse this)
-)
+	uniqueConstraints = {
+	@UniqueConstraint(name = TermCodeSystemVersion.IDX_CODESYSTEM_AND_VER, columnNames = {"CODESYSTEM_PID", "CS_VERSION_ID"})
+})
 @Entity()
 public class TermCodeSystemVersion implements Serializable {
+	public static final String IDX_CODESYSTEM_AND_VER = "IDX_CODESYSTEM_AND_VER";
 	public static final int MAX_VERSION_LENGTH = 200;
 	private static final long serialVersionUID = 1L;
 	@OneToMany(fetch = FetchType.LAZY, mappedBy = "myCodeSystem")

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/entity/TermConcept.java

@@ -23,7 +23,6 @@ package ca.uhn.fhir.jpa.entity;
 import ca.uhn.fhir.context.support.IValidationSupport;
 import ca.uhn.fhir.jpa.entity.TermConceptParentChildLink.RelationshipTypeEnum;
 import ca.uhn.fhir.jpa.search.DeferConceptIndexingInterceptor;
-import ca.uhn.fhir.util.VersionIndependentConcept;
 import ca.uhn.fhir.util.ValidateUtil;
 import org.apache.commons.lang3.Validate;
 import org.apache.commons.lang3.builder.EqualsBuilder;

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/entity/TermConceptMap.java

@@ -35,12 +35,13 @@ import static org.apache.commons.lang3.StringUtils.length;
 
 @Entity
 @Table(name = "TRM_CONCEPT_MAP", uniqueConstraints = {
-	@UniqueConstraint(name = "IDX_CONCEPT_MAP_URL", columnNames = {"URL"})
+	@UniqueConstraint(name = "IDX_CONCEPT_MAP_URL", columnNames = {"URL", "VER"})
 })
 public class TermConceptMap implements Serializable {
 	private static final long serialVersionUID = 1L;
 
 	static final int MAX_URL_LENGTH = 200;
+	public static final int MAX_VER_LENGTH = 200;
 
 	@Id()
 	@SequenceGenerator(name = "SEQ_CONCEPT_MAP_PID", sequenceName = "SEQ_CONCEPT_MAP_PID")
@@ -64,6 +65,9 @@ public class TermConceptMap implements Serializable {
 	@Column(name = "URL", nullable = false, length = MAX_URL_LENGTH)
 	private String myUrl;
 
+	@Column(name = "VER", nullable = true, length = MAX_VER_LENGTH)
+	private String myVersion;
+	
 	@OneToMany(mappedBy = "myConceptMap")
 	private List<TermConceptMapGroup> myConceptMapGroups;
 
@@ -131,6 +135,17 @@ public class TermConceptMap implements Serializable {
 		return this;
 	}
 
+	public String getVersion() {
+		return myVersion;
+	}
+
+	public TermConceptMap setVersion(String theVersion) {
+		ValidateUtil.isNotTooLongOrThrowIllegalArgument(theVersion, MAX_VER_LENGTH,
+			"Version exceeds maximum length (" + MAX_VER_LENGTH + "): " + length(theVersion));
+		myVersion = theVersion;
+		return this;
+	}
+	
 	@Override
 	public String toString() {
 		return new ToStringBuilder(this, ToStringStyle.SHORT_PREFIX_STYLE)
@@ -140,6 +155,7 @@ public class TermConceptMap implements Serializable {
 			.append("mySource", mySource)
 			.append("myTarget", myTarget)
 			.append("myUrl", myUrl)
+			.append("myVersion", myVersion)
 			.append(myConceptMapGroups != null ? ("myConceptMapGroups - size=" + myConceptMapGroups.size()) : ("myConceptMapGroups=(null)"))
 			.toString();
 	}

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/entity/TermValueSet.java

@@ -37,7 +37,7 @@ import static org.apache.commons.lang3.StringUtils.left;
 import static org.apache.commons.lang3.StringUtils.length;
 
 @Table(name = "TRM_VALUESET", uniqueConstraints = {
-	@UniqueConstraint(name = "IDX_VALUESET_URL", columnNames = {"URL"})
+	@UniqueConstraint(name = "IDX_VALUESET_URL", columnNames = {"URL", "VER"})
 })
 @Entity()
 public class TermValueSet implements Serializable {
@@ -46,6 +46,7 @@ public class TermValueSet implements Serializable {
 	public static final int MAX_EXPANSION_STATUS_LENGTH = 50;
 	public static final int MAX_NAME_LENGTH = 200;
 	public static final int MAX_URL_LENGTH = 200;
+	public static final int MAX_VER_LENGTH = 200;
 
 	@Id()
 	@SequenceGenerator(name = "SEQ_VALUESET_PID", sequenceName = "SEQ_VALUESET_PID")
@@ -56,6 +57,9 @@ public class TermValueSet implements Serializable {
 	@Column(name = "URL", nullable = false, length = MAX_URL_LENGTH)
 	private String myUrl;
 
+	@Column(name = "VER", nullable = true, length = MAX_VER_LENGTH)
+	private String myVersion;
+
 	@OneToOne()
 	@JoinColumn(name = "RES_ID", referencedColumnName = "RES_ID", nullable = false, updatable = false, foreignKey = @ForeignKey(name = "FK_TRMVALUESET_RES"))
 	private ResourceTable myResource;
@@ -183,6 +187,17 @@ public class TermValueSet implements Serializable {
 		myExpansionStatus = theExpansionStatus;
 	}
 
+	public String getVersion() {
+		return myVersion;
+	}
+
+	public TermValueSet setVersion(String theVersion) {
+		ValidateUtil.isNotTooLongOrThrowIllegalArgument(theVersion, MAX_VER_LENGTH,
+			"Version exceeds maximum length (" + MAX_VER_LENGTH + "): " + length(theVersion));
+		myVersion = theVersion;
+		return this;
+	}
+
 	@Override
 	public boolean equals(Object theO) {
 		if (this == theO) return true;

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/dstu3/BaseJpaResourceProviderCodeSystemDstu3.java

@@ -53,6 +53,7 @@ public class BaseJpaResourceProviderCodeSystemDstu3 extends JpaResourceProviderD
 		@OperationParam(name = "code", min = 0, max = 1) CodeType theCode,
 		@OperationParam(name = "system", min = 0, max = 1) UriType theSystem,
 		@OperationParam(name = "coding", min = 0, max = 1) Coding theCoding,
+		@OperationParam(name="version", min=0, max=1) StringType theVersion,
 		@OperationParam(name = "property", min = 0, max = OperationParam.MAX_UNLIMITED) List<CodeType> theProperties,
 		RequestDetails theRequestDetails
 	) {
@@ -60,7 +61,12 @@ public class BaseJpaResourceProviderCodeSystemDstu3 extends JpaResourceProviderD
 		startRequest(theServletRequest);
 		try {
 			IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> dao = (IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept>) getDao();
-			IValidationSupport.LookupCodeResult result = dao.lookupCode(theCode, theSystem, theCoding, theRequestDetails);
+			IValidationSupport.LookupCodeResult result;
+			if (theVersion != null) {
+				result = dao.lookupCode(theCode, new UriType(theSystem.getValue() + "|" + theVersion), theCoding, theRequestDetails);
+			} else {
+				result = dao.lookupCode(theCode, theSystem, theCoding, theRequestDetails);
+			}
 			result.throwNotFoundIfAppropriate();
 			return (Parameters) result.toParameters(theRequestDetails.getFhirContext(), theProperties);
 		} catch (FHIRException e) {
@@ -84,13 +90,18 @@ public class BaseJpaResourceProviderCodeSystemDstu3 extends JpaResourceProviderD
 		@OperationParam(name = "system", min = 0, max = 1) UriType theSystem,
 		@OperationParam(name = "codingA", min = 0, max = 1) Coding theCodingA,
 		@OperationParam(name = "codingB", min = 0, max = 1) Coding theCodingB,
+		@OperationParam(name = "version", min = 0, max = 1) StringType theVersion,
 		RequestDetails theRequestDetails
 	) {
 
 		startRequest(theServletRequest);
 		try {
 			IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> dao = (IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept>) getDao();
-			IFhirResourceDaoCodeSystem.SubsumesResult result = dao.subsumes(theCodeA, theCodeB, theSystem, theCodingA, theCodingB, theRequestDetails);
+			IFhirResourceDaoCodeSystem.SubsumesResult result;
+			if (theVersion != null) {
+				theSystem = new UriType(theSystem.asStringValue() + "|" + theVersion.toString());
+			}
+			result = dao.subsumes(theCodeA, theCodeB, theSystem, theCodingA, theCodingB, theRequestDetails);
 			return (Parameters) result.toParameters(theRequestDetails.getFhirContext());
 		} finally {
 			endRequest(theServletRequest);

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/dstu3/BaseJpaResourceProviderConceptMapDstu3.java

@@ -54,6 +54,8 @@ public class BaseJpaResourceProviderConceptMapDstu3 extends JpaResourceProviderD
 	public Parameters translate(
 		HttpServletRequest theServletRequest,
 		@IdParam(optional = true) IdType theId,
+		@OperationParam(name = "url", min = 0, max = 1) UriType theUrl,
+		@OperationParam(name = "conceptMapVersion", min = 0, max = 1) StringType theConceptMapVersion,
 		@OperationParam(name = "code", min = 0, max = 1) CodeType theSourceCode,
 		@OperationParam(name = "system", min = 0, max = 1) UriType theSourceCodeSystem,
 		@OperationParam(name = "version", min = 0, max = 1) StringType theSourceCodeSystemVersion,
@@ -65,6 +67,10 @@ public class BaseJpaResourceProviderConceptMapDstu3 extends JpaResourceProviderD
 		@OperationParam(name = "reverse", min = 0, max = 1) BooleanType theReverse,
 		RequestDetails theRequestDetails
 	) {
+		boolean haveUrl = theUrl != null
+			&& theUrl.hasValue();
+		boolean haveConceptMapVersion = theConceptMapVersion != null
+			&& theConceptMapVersion.hasValue();
 		boolean haveSourceCode = theSourceCode != null
 			&& theSourceCode.hasValue();
 		boolean haveSourceCodeSystem = theSourceCodeSystem != null
@@ -93,6 +99,15 @@ public class BaseJpaResourceProviderConceptMapDstu3 extends JpaResourceProviderD
 
 		TranslationRequest translationRequest = new TranslationRequest();
 		try {
+			
+			if (haveUrl) {
+				translationRequest.setUrl(VersionConvertor_30_40.convertUri(theUrl));
+			}
+			
+			if (haveConceptMapVersion) {
+				translationRequest.setConceptMapVersion(VersionConvertor_30_40.convertString(theConceptMapVersion));
+			}
+			
 			// Convert from DSTU3 to R4
 			if (haveSourceCode) {
 				translationRequest.getCodeableConcept().addCoding().setCodeElement(VersionConvertor_30_40.convertCode(theSourceCode));

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/dstu3/BaseJpaResourceProviderValueSetDstu3.java

@@ -46,6 +46,7 @@ public class BaseJpaResourceProviderValueSetDstu3 extends JpaResourceProviderDst
 		// Note: url is correct and identifier is not, but identifier was only added as
 		// of 3.1.0 so we'll leave url for now. See: https://groups.google.com/d/msgid/hapi-fhir/CAN2Cfy8kW%2BAOkgC6VjPsU3gRCpExCNZBmJdi-k5R_TWeyWH4tA%40mail.gmail.com?utm_medium=email&utm_source=footer
 		@OperationParam(name = "url", min = 0, max = 1) UriType theUrl,
+		@OperationParam(name = "valueSetVersion", min = 0, max = 1) StringType theValueSetVersion,
 		@OperationParam(name = "identifier", min = 0, max = 1) UriType theIdentifier,
 		@OperationParam(name = "filter", min = 0, max = 1) StringType theFilter,
 		@OperationParam(name = "offset", min = 0, max = 1) IntegerType theOffset,
@@ -60,6 +61,7 @@ public class BaseJpaResourceProviderValueSetDstu3 extends JpaResourceProviderDst
 
 		boolean haveIdentifier = url != null && isNotBlank(url.getValue());
 		boolean haveValueSet = theValueSet != null && !theValueSet.isEmpty();
+		boolean haveValueSetVersion = theValueSetVersion != null && !theValueSetVersion.isEmpty();
 
 		if (!haveId && !haveIdentifier && !haveValueSet) {
 			throw new InvalidRequestException("$expand operation at the type level (no ID specified) requires an identifier or a valueSet as a part of the request.");
@@ -99,7 +101,11 @@ public class BaseJpaResourceProviderValueSetDstu3 extends JpaResourceProviderDst
 				if (haveId) {
 					return dao.expand(theId, toFilterString(theFilter), offset, count, theRequestDetails);
 				} else if (haveIdentifier) {
-					return dao.expandByIdentifier(url.getValue(), toFilterString(theFilter), offset, count);
+					if (haveValueSetVersion) {
+						return dao.expandByIdentifier(url.getValue() + "|" + theValueSetVersion.getValue(), toFilterString(theFilter), offset, count);
+					} else {
+						return dao.expandByIdentifier(url.getValue(), toFilterString(theFilter), offset, count);
+					}
 				} else {
 					return dao.expand(theValueSet, toFilterString(theFilter), offset, count);
 				}
@@ -107,7 +113,11 @@ public class BaseJpaResourceProviderValueSetDstu3 extends JpaResourceProviderDst
 				if (haveId) {
 					return dao.expand(theId, toFilterString(theFilter), theRequestDetails);
 				} else if (haveIdentifier) {
-					return dao.expandByIdentifier(url.getValue(), toFilterString(theFilter));
+					if (haveValueSetVersion) {
+						return dao.expandByIdentifier(url.getValue() + "|" + theValueSetVersion.getValue(), toFilterString(theFilter));
+					} else {
+						return dao.expandByIdentifier(url.getValue(), toFilterString(theFilter));
+					}
 				} else {
 					return dao.expand(theValueSet, toFilterString(theFilter));
 				}
@@ -123,7 +133,6 @@ public class BaseJpaResourceProviderValueSetDstu3 extends JpaResourceProviderDst
 	}
 
 
-	@SuppressWarnings("unchecked")
 	@Operation(name = JpaConstants.OPERATION_VALIDATE_CODE, idempotent = true, returnParameters = {
 		@OperationParam(name = "result", type = BooleanType.class, min = 1),
 		@OperationParam(name = "message", type = StringType.class),
@@ -134,8 +143,10 @@ public class BaseJpaResourceProviderValueSetDstu3 extends JpaResourceProviderDst
 		@IdParam(optional = true) IdType theId,
 		@OperationParam(name = "identifier", min = 0, max = 1) UriType theValueSetIdentifier,
 		@OperationParam(name = "url", min = 0, max = 1) UriType theValueSetUrl,
+		@OperationParam(name = "valueSetVersion", min = 0, max = 1) StringType theValueSetVersion,
 		@OperationParam(name = "code", min = 0, max = 1) CodeType theCode,
 		@OperationParam(name = "system", min = 0, max = 1) UriType theSystem,
+		@OperationParam(name = "systemVersion", min = 0, max = 1) StringType theSystemVersion,
 		@OperationParam(name = "display", min = 0, max = 1) StringType theDisplay,
 		@OperationParam(name = "coding", min = 0, max = 1) Coding theCoding,
 		@OperationParam(name = "codeableConcept", min = 0, max = 1) CodeableConcept theCodeableConcept,
@@ -150,7 +161,19 @@ public class BaseJpaResourceProviderValueSetDstu3 extends JpaResourceProviderDst
 		startRequest(theServletRequest);
 		try {
 			IFhirResourceDaoValueSet<ValueSet, Coding, CodeableConcept> dao = (IFhirResourceDaoValueSet<ValueSet, Coding, CodeableConcept>) getDao();
-			IValidationSupport.CodeValidationResult result = dao.validateCode(url, theId, theCode, theSystem, theDisplay, theCoding, theCodeableConcept, theRequestDetails);
+			UriType valueSetIdentifier;
+			if (theValueSetVersion != null) {
+				valueSetIdentifier = new UriType(url.getValue() + "|" + theValueSetVersion);
+			} else {
+				valueSetIdentifier = url;
+			}
+			UriType codeSystemIdentifier;
+			if (theSystemVersion != null) {
+				codeSystemIdentifier = new UriType(theSystem.getValue() + "|" + theSystemVersion);
+			} else {
+				codeSystemIdentifier = theSystem;
+			}
+			IValidationSupport.CodeValidationResult result = dao.validateCode(valueSetIdentifier, theId, theCode, codeSystemIdentifier, theDisplay, theCoding, theCodeableConcept, theRequestDetails);
 			return (Parameters) BaseJpaResourceProviderValueSetDstu2.toValidateCodeResult(getContext(), result);
 		} finally {
 			endRequest(theServletRequest);

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/r4/BaseJpaResourceProviderCodeSystemR4.java

@@ -1,5 +1,19 @@
 package ca.uhn.fhir.jpa.provider.r4;
 
+import java.util.List;
+
+import javax.servlet.http.HttpServletRequest;
+
+import org.hl7.fhir.r4.model.BooleanType;
+import org.hl7.fhir.r4.model.CodeSystem;
+import org.hl7.fhir.r4.model.CodeType;
+import org.hl7.fhir.r4.model.CodeableConcept;
+import org.hl7.fhir.r4.model.Coding;
+import org.hl7.fhir.r4.model.IdType;
+import org.hl7.fhir.r4.model.Parameters;
+import org.hl7.fhir.r4.model.StringType;
+import org.hl7.fhir.r4.model.UriType;
+
 /*
  * #%L
  * HAPI FHIR JPA Server
@@ -23,20 +37,11 @@ package ca.uhn.fhir.jpa.provider.r4;
 import ca.uhn.fhir.context.support.IValidationSupport;
 import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoCodeSystem;
 import ca.uhn.fhir.jpa.model.util.JpaConstants;
+import ca.uhn.fhir.jpa.provider.BaseJpaResourceProviderValueSetDstu2;
+import ca.uhn.fhir.rest.annotation.IdParam;
 import ca.uhn.fhir.rest.annotation.Operation;
 import ca.uhn.fhir.rest.annotation.OperationParam;
 import ca.uhn.fhir.rest.api.server.RequestDetails;
-import org.hl7.fhir.r4.model.BooleanType;
-import org.hl7.fhir.r4.model.CodeSystem;
-import org.hl7.fhir.r4.model.CodeType;
-import org.hl7.fhir.r4.model.CodeableConcept;
-import org.hl7.fhir.r4.model.Coding;
-import org.hl7.fhir.r4.model.Parameters;
-import org.hl7.fhir.r4.model.StringType;
-import org.hl7.fhir.r4.model.UriType;
-
-import javax.servlet.http.HttpServletRequest;
-import java.util.List;
 
 public class BaseJpaResourceProviderCodeSystemR4 extends JpaResourceProviderR4<CodeSystem> {
 
@@ -55,6 +60,7 @@ public class BaseJpaResourceProviderCodeSystemR4 extends JpaResourceProviderR4<C
 			@OperationParam(name="code", min=0, max=1) CodeType theCode, 
 			@OperationParam(name="system", min=0, max=1) UriType theSystem,
 			@OperationParam(name="coding", min=0, max=1) Coding theCoding,
+			@OperationParam(name="version", min=0, max=1) StringType theVersion,
 			@OperationParam(name = "property", min = 0, max = OperationParam.MAX_UNLIMITED) List<CodeType> theProperties,
 			RequestDetails theRequestDetails
 			) {
@@ -62,7 +68,12 @@ public class BaseJpaResourceProviderCodeSystemR4 extends JpaResourceProviderR4<C
 		startRequest(theServletRequest);
 		try {
 			IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> dao = (IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept>) getDao();
-			IValidationSupport.LookupCodeResult result = dao.lookupCode(theCode, theSystem, theCoding, theRequestDetails);
+			IValidationSupport.LookupCodeResult result;
+			if (theVersion != null) {
+				result = dao.lookupCode(theCode, new UriType(theSystem.getValue() + "|" + theVersion), theCoding, theRequestDetails);
+			} else {
+				result = dao.lookupCode(theCode, theSystem, theCoding, theRequestDetails);
+			}
 			result.throwNotFoundIfAppropriate();
 			return (Parameters) result.toParameters(theRequestDetails.getFhirContext(), theProperties);
 		} finally {
@@ -84,16 +95,53 @@ public class BaseJpaResourceProviderCodeSystemR4 extends JpaResourceProviderR4<C
 		@OperationParam(name="system", min=0, max=1) UriType theSystem,
 		@OperationParam(name="codingA", min=0, max=1) Coding theCodingA,
 		@OperationParam(name="codingB", min=0, max=1) Coding theCodingB,
+		@OperationParam(name="version", min=0, max=1) StringType theVersion,
 		RequestDetails theRequestDetails
 	) {
 
 		startRequest(theServletRequest);
 		try {
 			IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> dao = (IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept>) getDao();
-			IFhirResourceDaoCodeSystem.SubsumesResult result = dao.subsumes(theCodeA, theCodeB, theSystem, theCodingA, theCodingB, theRequestDetails);
+			IFhirResourceDaoCodeSystem.SubsumesResult result;
+			if (theVersion != null) {
+				theSystem = new UriType(theSystem.asStringValue() + "|" + theVersion.toString());
+			}
+			result = dao.subsumes(theCodeA, theCodeB, theSystem, theCodingA, theCodingB, theRequestDetails);
 			return (Parameters) result.toParameters(theRequestDetails.getFhirContext());
 		} finally {
 			endRequest(theServletRequest);
 		}
 	}
+	
+	/**
+	 * $validate-code operation
+	 */
+	@SuppressWarnings("unchecked")
+	@Operation(name = JpaConstants.OPERATION_VALIDATE_CODE, idempotent = true, returnParameters = {
+		@OperationParam(name = "result", type = BooleanType.class, min = 1),
+		@OperationParam(name = "message", type = StringType.class),
+		@OperationParam(name = "display", type = StringType.class)
+	})
+	public Parameters validateCode(
+		HttpServletRequest theServletRequest,
+		@IdParam(optional = true) IdType theId,
+		@OperationParam(name = "url", min = 0, max = 1) UriType theCodeSystemUrl,
+		@OperationParam(name = "version", min = 0, max = 1) StringType theVersion,
+		@OperationParam(name = "code", min = 0, max = 1) CodeType theCode,
+		@OperationParam(name = "display", min = 0, max = 1) StringType theDisplay,
+		@OperationParam(name = "coding", min = 0, max = 1) Coding theCoding,
+		@OperationParam(name = "codeableConcept", min = 0, max = 1) CodeableConcept theCodeableConcept,
+		RequestDetails theRequestDetails
+	) {
+
+		startRequest(theServletRequest);
+		try {
+			IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> dao = (IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept>) getDao();
+				
+			IValidationSupport.CodeValidationResult result = dao.validateCode(theId, theCodeSystemUrl, theVersion, theCode, theDisplay, theCoding, theCodeableConcept, theRequestDetails);
+			return (Parameters) BaseJpaResourceProviderValueSetDstu2.toValidateCodeResult(getContext(), result);
+		} finally {
+			endRequest(theServletRequest);
+		}
+	}
 }

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/r4/BaseJpaResourceProviderConceptMapR4.java

@@ -49,6 +49,8 @@ public class BaseJpaResourceProviderConceptMapR4 extends JpaResourceProviderR4<C
 	public Parameters translate(
 		HttpServletRequest theServletRequest,
 		@IdParam(optional = true) IdType theId,
+		@OperationParam(name = "url", min = 0, max = 1) UriType theUrl,
+		@OperationParam(name = "conceptMapVersion", min = 0, max = 1) StringType theConceptMapVersion,
 		@OperationParam(name = "code", min = 0, max = 1) CodeType theSourceCode,
 		@OperationParam(name = "system", min = 0, max = 1) UriType theSourceCodeSystem,
 		@OperationParam(name = "version", min = 0, max = 1) StringType theSourceCodeSystemVersion,
@@ -60,6 +62,10 @@ public class BaseJpaResourceProviderConceptMapR4 extends JpaResourceProviderR4<C
 		@OperationParam(name = "reverse", min = 0, max = 1) BooleanType theReverse,
 		RequestDetails theRequestDetails
 	) {
+		boolean haveUrl = theUrl != null
+			&& theUrl.hasValue();
+		boolean haveConceptMapVersion = theConceptMapVersion != null
+				&& theConceptMapVersion.hasValue();
 		boolean haveSourceCode = theSourceCode != null
 			&& theSourceCode.hasCode();
 		boolean haveSourceCodeSystem = theSourceCodeSystem != null
@@ -88,6 +94,14 @@ public class BaseJpaResourceProviderConceptMapR4 extends JpaResourceProviderR4<C
 
 		TranslationRequest translationRequest = new TranslationRequest();
 
+		if (haveUrl) {
+			translationRequest.setUrl(theUrl);
+		}
+		
+		if (haveConceptMapVersion) {
+			translationRequest.setConceptMapVersion(theConceptMapVersion);
+		}
+		
 		if (haveSourceCode) {
 			translationRequest.getCodeableConcept().addCoding().setCodeElement(theSourceCode);
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/r4/BaseJpaResourceProviderValueSetR4.java

@@ -44,6 +44,7 @@ public class BaseJpaResourceProviderValueSetR4 extends JpaResourceProviderR4<Val
 		@IdParam(optional = true) IdType theId,
 		@OperationParam(name = "valueSet", min = 0, max = 1) ValueSet theValueSet,
 		@OperationParam(name = "url", min = 0, max = 1) UriType theUrl,
+		@OperationParam(name = "valueSetVersion", min = 0, max = 1) StringType theValueSetVersion,
 		@OperationParam(name = "filter", min = 0, max = 1) StringType theFilter,
 		@OperationParam(name = "offset", min = 0, max = 1) IntegerType theOffset,
 		@OperationParam(name = "count", min = 0, max = 1) IntegerType theCount,
@@ -52,6 +53,7 @@ public class BaseJpaResourceProviderValueSetR4 extends JpaResourceProviderR4<Val
 		boolean haveId = theId != null && theId.hasIdPart();
 		boolean haveIdentifier = theUrl != null && isNotBlank(theUrl.getValue());
 		boolean haveValueSet = theValueSet != null && !theValueSet.isEmpty();
+		boolean haveValueSetVersion = theValueSetVersion != null && !theValueSetVersion.isEmpty();
 
 		if (!haveId && !haveIdentifier && !haveValueSet) {
 			throw new InvalidRequestException("$expand operation at the type level (no ID specified) requires a url or a valueSet as a part of the request.");
@@ -91,7 +93,11 @@ public class BaseJpaResourceProviderValueSetR4 extends JpaResourceProviderR4<Val
 				if (haveId) {
 					return dao.expand(theId, toFilterString(theFilter), offset, count, theRequestDetails);
 				} else if (haveIdentifier) {
-					return dao.expandByIdentifier(theUrl.getValue(), toFilterString(theFilter), offset, count);
+					if (haveValueSetVersion) {
+						return dao.expandByIdentifier(theUrl.getValue() + "|" + theValueSetVersion.getValue(), toFilterString(theFilter), offset, count);
+					} else {
+						return dao.expandByIdentifier(theUrl.getValue(), toFilterString(theFilter), offset, count);
+					}
 				} else {
 					return dao.expand(theValueSet, toFilterString(theFilter), offset, count);
 				}
@@ -99,7 +105,11 @@ public class BaseJpaResourceProviderValueSetR4 extends JpaResourceProviderR4<Val
 				if (haveId) {
 					return dao.expand(theId, toFilterString(theFilter), theRequestDetails);
 				} else if (haveIdentifier) {
-					return dao.expandByIdentifier(theUrl.getValue(), toFilterString(theFilter));
+					if (haveValueSetVersion) {
+						return dao.expandByIdentifier(theUrl.getValue() + "|" + theValueSetVersion.getValue(), toFilterString(theFilter));
+					} else {
+						return dao.expandByIdentifier(theUrl.getValue(), toFilterString(theFilter));
+					}
 				} else {
 					return dao.expand(theValueSet, toFilterString(theFilter));
 				}
@@ -125,8 +135,10 @@ public class BaseJpaResourceProviderValueSetR4 extends JpaResourceProviderR4<Val
 		HttpServletRequest theServletRequest,
 		@IdParam(optional = true) IdType theId,
 		@OperationParam(name = "url", min = 0, max = 1) UriType theValueSetUrl,
+		@OperationParam(name = "valueSetVersion", min = 0, max = 1) StringType theValueSetVersion,
 		@OperationParam(name = "code", min = 0, max = 1) CodeType theCode,
 		@OperationParam(name = "system", min = 0, max = 1) UriType theSystem,
+		@OperationParam(name = "systemVersion", min = 0, max = 1) StringType theSystemVersion,
 		@OperationParam(name = "display", min = 0, max = 1) StringType theDisplay,
 		@OperationParam(name = "coding", min = 0, max = 1) Coding theCoding,
 		@OperationParam(name = "codeableConcept", min = 0, max = 1) CodeableConcept theCodeableConcept,
@@ -136,7 +148,19 @@ public class BaseJpaResourceProviderValueSetR4 extends JpaResourceProviderR4<Val
 		startRequest(theServletRequest);
 		try {
 			IFhirResourceDaoValueSet<ValueSet, Coding, CodeableConcept> dao = (IFhirResourceDaoValueSet<ValueSet, Coding, CodeableConcept>) getDao();
-			IValidationSupport.CodeValidationResult result = dao.validateCode(theValueSetUrl, theId, theCode, theSystem, theDisplay, theCoding, theCodeableConcept, theRequestDetails);
+			UriType valueSetIdentifier;
+			if (theValueSetVersion != null) {
+				valueSetIdentifier = new UriType(theValueSetUrl.getValue() + "|" + theValueSetVersion);
+			} else {
+				valueSetIdentifier = theValueSetUrl;
+			}
+			UriType codeSystemIdentifier;
+			if (theSystemVersion != null) {
+				codeSystemIdentifier = new UriType(theSystem.getValue() + "|" + theSystemVersion);
+			} else {
+				codeSystemIdentifier = theSystem;
+			}
+			IValidationSupport.CodeValidationResult result = dao.validateCode(valueSetIdentifier, theId, theCode, codeSystemIdentifier, theDisplay, theCoding, theCodeableConcept, theRequestDetails);
 			return (Parameters) BaseJpaResourceProviderValueSetDstu2.toValidateCodeResult(getContext(), result);
 		} finally {
 			endRequest(theServletRequest);

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/r5/BaseJpaResourceProviderCodeSystemR5.java

@@ -23,9 +23,13 @@ package ca.uhn.fhir.jpa.provider.r5;
 import ca.uhn.fhir.context.support.IValidationSupport;
 import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoCodeSystem;
 import ca.uhn.fhir.jpa.model.util.JpaConstants;
+import ca.uhn.fhir.jpa.provider.BaseJpaResourceProviderValueSetDstu2;
+import ca.uhn.fhir.rest.annotation.IdParam;
 import ca.uhn.fhir.rest.annotation.Operation;
 import ca.uhn.fhir.rest.annotation.OperationParam;
 import ca.uhn.fhir.rest.api.server.RequestDetails;
+
+import org.hl7.fhir.r5.model.IdType;
 import org.hl7.fhir.r5.model.BooleanType;
 import org.hl7.fhir.r5.model.CodeSystem;
 import org.hl7.fhir.r5.model.CodeType;
@@ -55,6 +59,7 @@ public class BaseJpaResourceProviderCodeSystemR5 extends JpaResourceProviderR5<C
 			@OperationParam(name="code", min=0, max=1) CodeType theCode, 
 			@OperationParam(name="system", min=0, max=1) UriType theSystem,
 			@OperationParam(name="coding", min=0, max=1) Coding theCoding,
+			@OperationParam(name="version", min=0, max=1) StringType theVersion,
 			@OperationParam(name = "property", min = 0, max = OperationParam.MAX_UNLIMITED) List<CodeType> theProperties,
 			RequestDetails theRequestDetails
 			) {
@@ -62,7 +67,12 @@ public class BaseJpaResourceProviderCodeSystemR5 extends JpaResourceProviderR5<C
 		startRequest(theServletRequest);
 		try {
 			IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> dao = (IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept>) getDao();
-			IValidationSupport.LookupCodeResult result = dao.lookupCode(theCode, theSystem, theCoding, theRequestDetails);
+			IValidationSupport.LookupCodeResult result;
+			if (theVersion != null) {
+				result = dao.lookupCode(theCode, new UriType(theSystem.getValue() + "|" + theVersion), theCoding, theRequestDetails);
+			} else {
+				result = dao.lookupCode(theCode, theSystem, theCoding, theRequestDetails);
+			}
 			result.throwNotFoundIfAppropriate();
 			return (Parameters) result.toParameters(theRequestDetails.getFhirContext(), theProperties);
 		} finally {
@@ -84,16 +94,53 @@ public class BaseJpaResourceProviderCodeSystemR5 extends JpaResourceProviderR5<C
 		@OperationParam(name="system", min=0, max=1) UriType theSystem,
 		@OperationParam(name="codingA", min=0, max=1) Coding theCodingA,
 		@OperationParam(name="codingB", min=0, max=1) Coding theCodingB,
+		@OperationParam(name="version", min=0, max=1) StringType theVersion,
 		RequestDetails theRequestDetails
 	) {
 
 		startRequest(theServletRequest);
 		try {
 			IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> dao = (IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept>) getDao();
-			IFhirResourceDaoCodeSystem.SubsumesResult result = dao.subsumes(theCodeA, theCodeB, theSystem, theCodingA, theCodingB, theRequestDetails);
+			IFhirResourceDaoCodeSystem.SubsumesResult result;
+			if (theVersion != null) {
+				theSystem = new UriType(theSystem.asStringValue() + "|" + theVersion.toString());
+			}
+			result = dao.subsumes(theCodeA, theCodeB, theSystem, theCodingA, theCodingB, theRequestDetails);
 			return (Parameters) result.toParameters(theRequestDetails.getFhirContext());
 		} finally {
 			endRequest(theServletRequest);
 		}
 	}
+	
+	/**
+	 * $validate-code operation
+	 */
+	@SuppressWarnings("unchecked")
+	@Operation(name = JpaConstants.OPERATION_VALIDATE_CODE, idempotent = true, returnParameters = {
+		@OperationParam(name = "result", type = BooleanType.class, min = 1),
+		@OperationParam(name = "message", type = StringType.class),
+		@OperationParam(name = "display", type = StringType.class)
+	})
+	public Parameters validateCode(
+		HttpServletRequest theServletRequest,
+		@IdParam(optional = true) IdType theId,
+		@OperationParam(name = "url", min = 0, max = 1) UriType theCodeSystemUrl,
+		@OperationParam(name = "version", min = 0, max = 1) StringType theVersion,
+		@OperationParam(name = "code", min = 0, max = 1) CodeType theCode,
+		@OperationParam(name = "display", min = 0, max = 1) StringType theDisplay,
+		@OperationParam(name = "coding", min = 0, max = 1) Coding theCoding,
+		@OperationParam(name = "codeableConcept", min = 0, max = 1) CodeableConcept theCodeableConcept,
+		RequestDetails theRequestDetails
+	) {
+
+		startRequest(theServletRequest);
+		try {
+			IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept> dao = (IFhirResourceDaoCodeSystem<CodeSystem, Coding, CodeableConcept>) getDao();
+				
+			IValidationSupport.CodeValidationResult result = dao.validateCode(theId, theCodeSystemUrl, theVersion, theCode, theDisplay, theCoding, theCodeableConcept, theRequestDetails);
+			return (Parameters) BaseJpaResourceProviderValueSetDstu2.toValidateCodeResult(getContext(), result);
+		} finally {
+			endRequest(theServletRequest);
+		}
+	}
 }

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/r5/BaseJpaResourceProviderConceptMapR5.java

@@ -50,6 +50,8 @@ public class BaseJpaResourceProviderConceptMapR5 extends JpaResourceProviderR5<C
 	public Parameters translate(
 		HttpServletRequest theServletRequest,
 		@IdParam(optional = true) IdType theId,
+		@OperationParam(name = "url", min = 0, max = 1) UriType theUrl,
+		@OperationParam(name = "conceptMapVersion", min = 0, max = 1) StringType theConceptMapVersion,		
 		@OperationParam(name = "code", min = 0, max = 1) CodeType theSourceCode,
 		@OperationParam(name = "system", min = 0, max = 1) UriType theSourceCodeSystem,
 		@OperationParam(name = "version", min = 0, max = 1) StringType theSourceCodeSystemVersion,
@@ -61,6 +63,10 @@ public class BaseJpaResourceProviderConceptMapR5 extends JpaResourceProviderR5<C
 		@OperationParam(name = "reverse", min = 0, max = 1) BooleanType theReverse,
 		RequestDetails theRequestDetails
 	) {
+		boolean haveUrl = theUrl != null
+			&& theUrl.hasValue();
+		boolean haveConceptMapVersion = theConceptMapVersion != null
+			&& theConceptMapVersion.hasValue();
 		boolean haveSourceCode = theSourceCode != null
 			&& theSourceCode.hasCode();
 		boolean haveSourceCodeSystem = theSourceCodeSystem != null
@@ -89,6 +95,14 @@ public class BaseJpaResourceProviderConceptMapR5 extends JpaResourceProviderR5<C
 
 		TranslationRequest translationRequest = new TranslationRequest();
 
+		if (haveUrl) {
+			translationRequest.setUrl(VersionConvertor_40_50.convertUri(theUrl));
+		}
+		
+		if (haveConceptMapVersion) {
+			translationRequest.setConceptMapVersion(VersionConvertor_40_50.convertString(theConceptMapVersion));
+		}
+		
 		if (haveSourceCode) {
 			translationRequest.getCodeableConcept().addCoding().setCodeElement(VersionConvertor_40_50.convertCode(theSourceCode));
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/r5/BaseJpaResourceProviderValueSetR5.java

@@ -44,6 +44,7 @@ public class BaseJpaResourceProviderValueSetR5 extends JpaResourceProviderR5<Val
 		@IdParam(optional = true) IdType theId,
 		@OperationParam(name = "valueSet", min = 0, max = 1) ValueSet theValueSet,
 		@OperationParam(name = "url", min = 0, max = 1) UriType theUrl,
+		@OperationParam(name = "valueSetVersion", min = 0, max = 1) StringType theValueSetVersion,
 		@OperationParam(name = "filter", min = 0, max = 1) StringType theFilter,
 		@OperationParam(name = "offset", min = 0, max = 1) IntegerType theOffset,
 		@OperationParam(name = "count", min = 0, max = 1) IntegerType theCount,
@@ -52,6 +53,7 @@ public class BaseJpaResourceProviderValueSetR5 extends JpaResourceProviderR5<Val
 		boolean haveId = theId != null && theId.hasIdPart();
 		boolean haveIdentifier = theUrl != null && isNotBlank(theUrl.getValue());
 		boolean haveValueSet = theValueSet != null && !theValueSet.isEmpty();
+		boolean haveValueSetVersion = theValueSetVersion != null && !theValueSetVersion.isEmpty();
 
 		if (!haveId && !haveIdentifier && !haveValueSet) {
 			throw new InvalidRequestException("$expand operation at the type level (no ID specified) requires a url or a valueSet as a part of the request.");
@@ -91,7 +93,11 @@ public class BaseJpaResourceProviderValueSetR5 extends JpaResourceProviderR5<Val
 				if (haveId) {
 					return dao.expand(theId, toFilterString(theFilter), offset, count, theRequestDetails);
 				} else if (haveIdentifier) {
-					return dao.expandByIdentifier(theUrl.getValue(), toFilterString(theFilter), offset, count);
+					if (haveValueSetVersion) {
+						return dao.expandByIdentifier(theUrl.getValue() + "|" + theValueSetVersion.getValue(), toFilterString(theFilter), offset, count);
+					} else {
+						return dao.expandByIdentifier(theUrl.getValue(), toFilterString(theFilter), offset, count);
+					}
 				} else {
 					return dao.expand(theValueSet, toFilterString(theFilter), offset, count);
 				}
@@ -99,7 +105,11 @@ public class BaseJpaResourceProviderValueSetR5 extends JpaResourceProviderR5<Val
 				if (haveId) {
 					return dao.expand(theId, toFilterString(theFilter), theRequestDetails);
 				} else if (haveIdentifier) {
-					return dao.expandByIdentifier(theUrl.getValue(), toFilterString(theFilter));
+					if (haveValueSetVersion) {
+						return dao.expandByIdentifier(theUrl.getValue() + "|" + theValueSetVersion.getValue(), toFilterString(theFilter));
+					} else {
+						return dao.expandByIdentifier(theUrl.getValue(), toFilterString(theFilter));
+					}
 				} else {
 					return dao.expand(theValueSet, toFilterString(theFilter));
 				}
@@ -125,8 +135,10 @@ public class BaseJpaResourceProviderValueSetR5 extends JpaResourceProviderR5<Val
 		HttpServletRequest theServletRequest,
 		@IdParam(optional = true) IdType theId,
 		@OperationParam(name = "url", min = 0, max = 1) UriType theValueSetUrl,
+		@OperationParam(name = "valueSetVersion", min = 0, max = 1) StringType theValueSetVersion,
 		@OperationParam(name = "code", min = 0, max = 1) CodeType theCode,
 		@OperationParam(name = "system", min = 0, max = 1) UriType theSystem,
+		@OperationParam(name = "systemVersion", min = 0, max = 1) StringType theSystemVersion,
 		@OperationParam(name = "display", min = 0, max = 1) StringType theDisplay,
 		@OperationParam(name = "coding", min = 0, max = 1) Coding theCoding,
 		@OperationParam(name = "codeableConcept", min = 0, max = 1) CodeableConcept theCodeableConcept,
@@ -136,7 +148,19 @@ public class BaseJpaResourceProviderValueSetR5 extends JpaResourceProviderR5<Val
 		startRequest(theServletRequest);
 		try {
 			IFhirResourceDaoValueSet<ValueSet, Coding, CodeableConcept> dao = (IFhirResourceDaoValueSet<ValueSet, Coding, CodeableConcept>) getDao();
-			IValidationSupport.CodeValidationResult result = dao.validateCode(theValueSetUrl, theId, theCode, theSystem, theDisplay, theCoding, theCodeableConcept, theRequestDetails);
+			UriType valueSetIdentifier;
+			if (theValueSetVersion != null) {
+				valueSetIdentifier = new UriType(theValueSetUrl.getValue() + "|" + theValueSetVersion);
+			} else {
+				valueSetIdentifier = theValueSetUrl;
+			}
+			UriType codeSystemIdentifier;
+			if (theSystemVersion != null) {
+				codeSystemIdentifier = new UriType(theSystem.getValue() + "|" + theSystemVersion);
+			} else {
+				codeSystemIdentifier = theSystem;
+			}
+			IValidationSupport.CodeValidationResult result = dao.validateCode(valueSetIdentifier, theId, theCode, codeSystemIdentifier, theDisplay, theCoding, theCodeableConcept, theRequestDetails);
 			return (Parameters) BaseJpaResourceProviderValueSetDstu2.toValidateCodeResult(getContext(), result);
 		} finally {
 			endRequest(theServletRequest);

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/TermCodeSystemStorageSvcImpl.java

@@ -231,6 +231,15 @@ public class TermCodeSystemStorageSvcImpl implements ITermCodeSystemStorageSvc {
 		});
 	}
 
+	@Override
+	@Transactional(propagation = Propagation.NEVER)
+	public void deleteCodeSystemVersion(TermCodeSystemVersion theCodeSystemVersion) {
+		// Delete TermCodeSystemVersion
+		ourLog.info(" * Deleting TermCodeSystemVersion {}", theCodeSystemVersion.getCodeSystemVersionId());
+		deleteCodeSystemVersion(theCodeSystemVersion.getPid());
+
+	}
+
 	/**
 	 * Returns the number of saved concepts
 	 */
@@ -284,16 +293,19 @@ public class TermCodeSystemStorageSvcImpl implements ITermCodeSystemStorageSvc {
 				ResourcePersistentId codeSystemResourcePid = getCodeSystemResourcePid(theCodeSystem.getIdElement());
 
 				/*
-				 * If this is a not-present codesystem, we don't want to store a new version if one
-				 * already exists, since that will wipe out the existing concepts. We do create or update
-				 * the TermCodeSystem table though, since that allows the DB to reject changes
-				 * that would result in duplicate CodeSysten.url values.
+				 * If this is a not-present codesystem and codesystem version already exists, we don't want to
+				 * overwrite the existing version since that will wipe out the existing concepts. We do create
+				 * or update the TermCodeSystem table though, since that allows the DB to reject changes that would
+				 * result in duplicate CodeSystem.url values.
 				 */
 				if (theCodeSystem.getContent() == CodeSystem.CodeSystemContentMode.NOTPRESENT) {
-					TermCodeSystem codeSystem = myCodeSystemDao.findByCodeSystemUri(theCodeSystem.getUrl());
-					if (codeSystem != null) {
-						getOrCreateTermCodeSystem(codeSystemResourcePid, theCodeSystem.getUrl(), theCodeSystem.getUrl(), theResourceEntity);
-						return;
+					TermCodeSystem termCodeSystem = myCodeSystemDao.findByCodeSystemUri(theCodeSystem.getUrl());
+					if (termCodeSystem != null) {
+						TermCodeSystemVersion codeSystemVersion = getExistingTermCodeSystemVersion(termCodeSystem.getPid(), theCodeSystem.getVersion());
+						if (codeSystemVersion != null) {
+							TermCodeSystem myCodeSystemEntity = getOrCreateDistinctTermCodeSystem(codeSystemResourcePid, theCodeSystem.getUrl(), theCodeSystem.getUrl(), theCodeSystem.getVersion(), theResourceEntity);
+							return;
+						}
 					}
 				}
 
@@ -338,11 +350,11 @@ public class TermCodeSystemStorageSvcImpl implements ITermCodeSystemStorageSvc {
 		ValidateUtil.isTrueOrThrowInvalidRequest(theCodeSystemVersion.getResource() != null, "No resource supplied");
 		ValidateUtil.isNotBlankOrThrowInvalidRequest(theSystemUri, "No system URI supplied");
 
-		// Grab the existing versions so we can delete them later
+		// Grab the existing version so we can delete it
 		List<TermCodeSystemVersion> existing = myCodeSystemVersionDao.findByCodeSystemResourcePid(theCodeSystemResourcePid.getIdAsLong());
 
 		/*
-		 * For now we always delete old versions. At some point it would be nice to allow configuration to keep old versions.
+		 * Delete version being replaced.
 		 */
 
 		for (TermCodeSystemVersion next : existing) {
@@ -351,16 +363,11 @@ public class TermCodeSystemStorageSvcImpl implements ITermCodeSystemStorageSvc {
 			deleteCodeSystemVersion(codeSystemVersionPid);
 		}
 
-		ourLog.debug("Flushing...");
-		myConceptDao.flush();
-		ourLog.debug("Done flushing");
-
 		/*
 		 * Do the upload
 		 */
 
-		TermCodeSystem codeSystem = getOrCreateTermCodeSystem(theCodeSystemResourcePid, theSystemUri, theSystemName, theCodeSystemResourceTable);
-
+		TermCodeSystem codeSystem = getOrCreateDistinctTermCodeSystem(theCodeSystemResourcePid, theSystemUri, theSystemName, theSystemVersionId, theCodeSystemResourceTable);
 		theCodeSystemVersion.setCodeSystem(codeSystem);
 
 		theCodeSystemVersion.setCodeSystemDisplayName(theSystemName);
@@ -408,6 +415,17 @@ public class TermCodeSystemStorageSvcImpl implements ITermCodeSystemStorageSvc {
 		}
 	}
 
+	private TermCodeSystemVersion getExistingTermCodeSystemVersion(Long theCodeSystemVersionPid, String theCodeSystemVersion) {
+		TermCodeSystemVersion existing;
+		if (theCodeSystemVersion == null) {
+			existing = myCodeSystemVersionDao.findByCodeSystemPidVersionIsNull(theCodeSystemVersionPid);
+		} else {
+			existing = myCodeSystemVersionDao.findByCodeSystemPidAndVersion(theCodeSystemVersionPid, theCodeSystemVersion);
+		}
+
+		return existing;
+	}
+
 	private void deleteCodeSystemVersion(final Long theCodeSystemVersionPid) {
 		ourLog.info(" * Deleting code system version {}", theCodeSystemVersionPid);
 
@@ -455,10 +473,12 @@ public class TermCodeSystemStorageSvcImpl implements ITermCodeSystemStorageSvc {
 				ourLog.info(" * Removing code system version {} as current version of code system {}", theCodeSystemVersionPid, codeSystem.getPid());
 				codeSystem.setCurrentVersion(null);
 				myCodeSystemDao.save(codeSystem);
+				myCodeSystemDao.flush();
 			}
 
 			ourLog.info(" * Deleting code system version");
-			myCodeSystemVersionDao.deleteById(theCodeSystemVersionPid);
+			myCodeSystemVersionDao.delete(theCodeSystemVersionPid);
+			myCodeSystemVersionDao.flush();
 		});
 
 	}
@@ -651,28 +671,48 @@ public class TermCodeSystemStorageSvcImpl implements ITermCodeSystemStorageSvc {
 	}
 
 	@Nonnull
-	private TermCodeSystem getOrCreateTermCodeSystem(ResourcePersistentId theCodeSystemResourcePid, String theSystemUri, String theSystemName, ResourceTable theCodeSystemResourceTable) {
+	private TermCodeSystem getOrCreateDistinctTermCodeSystem(ResourcePersistentId theCodeSystemResourcePid, String theSystemUri, String theSystemName, String theSystemVersionId, ResourceTable theCodeSystemResourceTable) {
 		TermCodeSystem codeSystem = myCodeSystemDao.findByCodeSystemUri(theSystemUri);
 		if (codeSystem == null) {
 			codeSystem = myCodeSystemDao.findByResourcePid(theCodeSystemResourcePid.getIdAsLong());
 			if (codeSystem == null) {
 				codeSystem = new TermCodeSystem();
 			}
-			codeSystem.setResource(theCodeSystemResourceTable);
 		} else {
-			if (!ObjectUtil.equals(codeSystem.getResource().getId(), theCodeSystemResourceTable.getId())) {
-				String msg = myContext.getLocalizer().getMessage(BaseTermReadSvcImpl.class, "cannotCreateDuplicateCodeSystemUrl", theSystemUri,
-					codeSystem.getResource().getIdDt().toUnqualifiedVersionless().getValue());
-				throw new UnprocessableEntityException(msg);
-			}
+			checkForCodeSystemVersionDuplicate(codeSystem, theSystemUri, theSystemVersionId, theCodeSystemResourceTable);
 		}
 
+		codeSystem.setResource(theCodeSystemResourceTable);
 		codeSystem.setCodeSystemUri(theSystemUri);
 		codeSystem.setName(theSystemName);
 		codeSystem = myCodeSystemDao.save(codeSystem);
 		return codeSystem;
 	}
 
+	private void checkForCodeSystemVersionDuplicate(TermCodeSystem theCodeSystem, String theSystemUri, String theSystemVersionId, ResourceTable theCodeSystemResourceTable) {
+		TermCodeSystemVersion codeSystemVersionEntity;
+		String msg = null;
+		if (theSystemVersionId == null) {
+			// Check if a non-versioned TermCodeSystemVersion entity already exists for this TermCodeSystem.
+			codeSystemVersionEntity = myCodeSystemVersionDao.findByCodeSystemPidVersionIsNull(theCodeSystem.getPid());
+			if (codeSystemVersionEntity != null) {
+				msg = myContext.getLocalizer().getMessage(BaseTermReadSvcImpl.class, "cannotCreateDuplicateCodeSystemUrl", theSystemUri, codeSystemVersionEntity.getResource().getIdDt().toUnqualifiedVersionless().getValue());
+			}
+		} else {
+			// Check if a TermCodeSystemVersion entity already exists for this TermCodeSystem and version.
+			codeSystemVersionEntity = myCodeSystemVersionDao.findByCodeSystemPidAndVersion(theCodeSystem.getPid(), theSystemVersionId);
+			if (codeSystemVersionEntity != null) {
+				msg = myContext.getLocalizer().getMessage(BaseTermReadSvcImpl.class, "cannotCreateDuplicateCodeSystemUrlAndVersion", theSystemUri,	theSystemVersionId, codeSystemVersionEntity.getResource().getIdDt().toUnqualifiedVersionless().getValue());
+			}
+		}
+		// Throw exception if the TermCodeSystemVersion is being duplicated.
+		if (codeSystemVersionEntity != null) {
+			if (!ObjectUtil.equals(codeSystemVersionEntity.getResource().getId(), theCodeSystemResourceTable.getId())) {
+				throw new UnprocessableEntityException(msg);
+			}
+		}
+	}
+
 	private void populateCodeSystemVersionProperties(TermCodeSystemVersion theCodeSystemVersion, CodeSystem theCodeSystemResource, ResourceTable theResourceTable) {
 		theCodeSystemVersion.setResource(theResourceTable);
 		theCodeSystemVersion.setCodeSystemDisplayName(theCodeSystemResource.getName());

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/TermDeferredStorageSvcImpl.java

@@ -20,14 +20,15 @@ package ca.uhn.fhir.jpa.term;
  * #L%
  */
 
-import ca.uhn.fhir.jpa.api.config.DaoConfig;
 import ca.uhn.fhir.jpa.dao.data.ITermCodeSystemDao;
 import ca.uhn.fhir.jpa.dao.data.ITermCodeSystemVersionDao;
 import ca.uhn.fhir.jpa.dao.data.ITermConceptDao;
 import ca.uhn.fhir.jpa.dao.data.ITermConceptParentChildLinkDao;
 import ca.uhn.fhir.jpa.entity.TermCodeSystem;
+import ca.uhn.fhir.jpa.entity.TermCodeSystemVersion;
 import ca.uhn.fhir.jpa.entity.TermConcept;
 import ca.uhn.fhir.jpa.entity.TermConceptParentChildLink;
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.jpa.model.sched.HapiJob;
 import ca.uhn.fhir.jpa.model.sched.ISchedulerService;
 import ca.uhn.fhir.jpa.model.sched.ScheduledJobDefinition;
@@ -67,13 +68,12 @@ public class TermDeferredStorageSvcImpl implements ITermDeferredStorageSvc {
    @Autowired
 	protected PlatformTransactionManager myTransactionMgr;
 	private boolean myProcessDeferred = true;
-	private List<TermCodeSystem> myDefferedCodeSystemsDeletions = Collections.synchronizedList(new ArrayList<>());
-	private List<TermConcept> myDeferredConcepts = Collections.synchronizedList(new ArrayList<>());
-	private List<ValueSet> myDeferredValueSets = Collections.synchronizedList(new ArrayList<>());
-	private List<ConceptMap> myDeferredConceptMaps = Collections.synchronizedList(new ArrayList<>());
-	private List<TermConceptParentChildLink> myConceptLinksToSaveLater = Collections.synchronizedList(new ArrayList<>());
-	@Autowired
-	private DaoConfig myDaoConfig;
+	final private List<TermCodeSystem> myDefferedCodeSystemsDeletions = Collections.synchronizedList(new ArrayList<>());
+	final private List<TermCodeSystemVersion> myDefferedCodeSystemVersionsDeletions = Collections.synchronizedList(new ArrayList<>());
+	final private List<TermConcept> myDeferredConcepts = Collections.synchronizedList(new ArrayList<>());
+	final private List<ValueSet> myDeferredValueSets = Collections.synchronizedList(new ArrayList<>());
+	final private List<ConceptMap> myDeferredConceptMaps = Collections.synchronizedList(new ArrayList<>());
+	final private List<TermConceptParentChildLink> myConceptLinksToSaveLater = Collections.synchronizedList(new ArrayList<>());
 	@Autowired
 	private ITermConceptParentChildLinkDao myConceptParentChildLinkDao;
 	@Autowired
@@ -115,6 +115,21 @@ public class TermDeferredStorageSvcImpl implements ITermDeferredStorageSvc {
 		myDefferedCodeSystemsDeletions.add(theCodeSystem);
 	}
 
+	@Override
+	@Transactional
+	public void deleteCodeSystemForResource(ResourceTable theCodeSystemToDelete) {
+		List<TermCodeSystemVersion> codeSystemVersionsToDelete = myCodeSystemVersionDao.findByCodeSystemResourcePid(theCodeSystemToDelete.getResourceId());
+		for (TermCodeSystemVersion codeSystemVersionToDelete : codeSystemVersionsToDelete){
+			if (codeSystemVersionToDelete != null) {
+				myDefferedCodeSystemVersionsDeletions.add(codeSystemVersionToDelete);
+			}
+		}
+		TermCodeSystem codeSystemToDelete = myCodeSystemDao.findByResourcePid(theCodeSystemToDelete.getResourceId());
+		if (codeSystemToDelete != null) {
+			deleteCodeSystem(codeSystemToDelete);
+		}
+	}
+
 	@Override
 	public void saveAllDeferred() {
 		while (!isStorageQueueEmpty()) {
@@ -211,6 +226,7 @@ public class TermDeferredStorageSvcImpl implements ITermDeferredStorageSvc {
 		myDeferredConceptMaps.clear();
 		myDeferredConcepts.clear();
 		myDefferedCodeSystemsDeletions.clear();
+		myConceptLinksToSaveLater.clear();
 	}
 
 	@Transactional(propagation = Propagation.NEVER)
@@ -266,6 +282,12 @@ public class TermDeferredStorageSvcImpl implements ITermDeferredStorageSvc {
 	}
 
 	private void processDeferredCodeSystemDeletions() {
+
+		for (TermCodeSystemVersion next : myDefferedCodeSystemVersionsDeletions) {
+			myCodeSystemStorageSvc.deleteCodeSystemVersion(next);
+		}
+
+		myDefferedCodeSystemVersionsDeletions.clear();
 		for (TermCodeSystem next : myDefferedCodeSystemsDeletions) {
 			myCodeSystemStorageSvc.deleteCodeSystem(next);
 		}
@@ -274,8 +296,7 @@ public class TermDeferredStorageSvcImpl implements ITermDeferredStorageSvc {
 
 	@Override
 	public boolean isStorageQueueEmpty() {
-		boolean retVal = true;
-		retVal &= !isProcessDeferredPaused();
+		boolean retVal = !isProcessDeferredPaused();
 		retVal &= !isDeferredConcepts();
 		retVal &= !isConceptLinksToSaveLater();
 		retVal &= !isDeferredValueSets();
@@ -300,7 +321,7 @@ public class TermDeferredStorageSvcImpl implements ITermDeferredStorageSvc {
 	}
 
 	private boolean isDeferredCodeSystemDeletions() {
-		return !myDefferedCodeSystemsDeletions.isEmpty();
+		return !myDefferedCodeSystemsDeletions.isEmpty() || !myDefferedCodeSystemVersionsDeletions.isEmpty();
 	}
 
 	private boolean isDeferredConcepts() {
@@ -345,11 +366,6 @@ public class TermDeferredStorageSvcImpl implements ITermDeferredStorageSvc {
 		myTransactionMgr = theTxManager;
 	}
 
-	@VisibleForTesting
-	void setDaoConfigForUnitTest(DaoConfig theDaoConfig) {
-		myDaoConfig = theDaoConfig;
-	}
-
 	@VisibleForTesting
 	void setCodeSystemStorageSvcForUnitTest(ITermCodeSystemStorageSvc theCodeSystemStorageSvc) {
 		myCodeSystemStorageSvc = theCodeSystemStorageSvc;

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/TermLoaderSvcImpl.java

@@ -378,6 +378,11 @@ public class TermLoaderSvcImpl implements ITermLoaderSvc {
 		try {
 			String loincCsString = IOUtils.toString(BaseTermReadSvcImpl.class.getResourceAsStream("/ca/uhn/fhir/jpa/term/loinc/loinc.xml"), Charsets.UTF_8);
 			loincCs = FhirContext.forR4().newXmlParser().parseResource(CodeSystem.class, loincCsString);
+			String  codeSystemVersionId = theUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+			if (codeSystemVersionId != null) {
+				loincCs.setVersion(codeSystemVersionId);
+				loincCs.setId(loincCs.getId() + "-" + codeSystemVersionId);
+			}
 		} catch (IOException e) {
 			throw new InternalErrorException("Failed to load loinc.xml", e);
 		}
@@ -475,7 +480,7 @@ public class TermLoaderSvcImpl implements ITermLoaderSvc {
 
 		IOUtils.closeQuietly(theDescriptors);
 
-		valueSets.add(getValueSetLoincAll());
+		valueSets.add(getValueSetLoincAll(theUploadProperties));
 
 		for (Entry<String, TermConcept> next : code2concept.entrySet()) {
 			TermConcept nextConcept = next.getValue();
@@ -494,12 +499,20 @@ public class TermLoaderSvcImpl implements ITermLoaderSvc {
 		return new UploadStatistics(conceptCount, target);
 	}
 
-	private ValueSet getValueSetLoincAll() {
+	private ValueSet getValueSetLoincAll(Properties theUploadProperties) {
 		ValueSet retVal = new ValueSet();
 
-		retVal.setId("loinc-all");
+		String codeSystemVersionId = theUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		String valueSetId;
+		if (codeSystemVersionId != null) {
+			valueSetId = "loinc-all" + "-" + codeSystemVersionId;
+		} else {
+			valueSetId = "loinc-all";
+			codeSystemVersionId = "1.0.0";
+		}
+		retVal.setId(valueSetId);
 		retVal.setUrl("http://loinc.org/vs");
-		retVal.setVersion("1.0.0");
+		retVal.setVersion(codeSystemVersionId);
 		retVal.setName("All LOINC codes");
 		retVal.setStatus(Enumerations.PublicationStatus.ACTIVE);
 		retVal.setDate(new Date());

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/TermReadSvcDstu2.java

@@ -26,14 +26,14 @@ import ca.uhn.fhir.context.support.ValueSetExpansionOptions;
 import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.model.dstu2.composite.CodeableConceptDt;
 import ca.uhn.fhir.model.dstu2.composite.CodingDt;
-import ca.uhn.fhir.util.VersionIndependentConcept;
+import ca.uhn.fhir.util.FhirVersionIndependentConcept;
+import org.hl7.fhir.instance.model.api.IBaseCoding;
 import org.hl7.fhir.instance.model.api.IBaseDatatype;
 import org.hl7.fhir.instance.model.api.IBaseResource;
 import org.hl7.fhir.r4.model.CodeSystem;
 import org.hl7.fhir.r4.model.CodeableConcept;
 import org.hl7.fhir.r4.model.Coding;
 import org.hl7.fhir.r4.model.ValueSet;
-import org.hl7.fhir.utilities.validation.ValidationOptions;
 import org.springframework.beans.factory.annotation.Autowired;
 
 import javax.annotation.Nullable;
@@ -47,23 +47,23 @@ public class TermReadSvcDstu2 extends BaseTermReadSvcImpl {
 	@Autowired
 	private IValidationSupport myValidationSupport;
 
-	private void addAllChildren(String theSystemString, org.hl7.fhir.dstu2.model.ValueSet.ConceptDefinitionComponent theCode, List<VersionIndependentConcept> theListToPopulate) {
+	private void addAllChildren(String theSystemString, ca.uhn.fhir.model.dstu2.resource.ValueSet.CodeSystemConcept theCode, List<FhirVersionIndependentConcept> theListToPopulate) {
 		if (isNotBlank(theCode.getCode())) {
-			theListToPopulate.add(new VersionIndependentConcept(theSystemString, theCode.getCode()));
+			theListToPopulate.add(new FhirVersionIndependentConcept(theSystemString, theCode.getCode()));
 		}
-		for (org.hl7.fhir.dstu2.model.ValueSet.ConceptDefinitionComponent nextChild : theCode.getConcept()) {
+		for (ca.uhn.fhir.model.dstu2.resource.ValueSet.CodeSystemConcept nextChild : theCode.getConcept()) {
 			addAllChildren(theSystemString, nextChild, theListToPopulate);
 		}
 	}
 
-	private boolean addTreeIfItContainsCode(String theSystemString, org.hl7.fhir.dstu2.model.ValueSet.ConceptDefinitionComponent theNext, String theCode, List<VersionIndependentConcept> theListToPopulate) {
+	private boolean addTreeIfItContainsCode(String theSystemString, ca.uhn.fhir.model.dstu2.resource.ValueSet.CodeSystemConcept theNext, String theCode, List<FhirVersionIndependentConcept> theListToPopulate) {
 		boolean foundCodeInChild = false;
-		for (org.hl7.fhir.dstu2.model.ValueSet.ConceptDefinitionComponent nextChild : theNext.getConcept()) {
+		for (ca.uhn.fhir.model.dstu2.resource.ValueSet.CodeSystemConcept nextChild : theNext.getConcept()) {
 			foundCodeInChild |= addTreeIfItContainsCode(theSystemString, nextChild, theCode, theListToPopulate);
 		}
 
 		if (theCode.equals(theNext.getCode()) || foundCodeInChild) {
-			theListToPopulate.add(new VersionIndependentConcept(theSystemString, theNext.getCode()));
+			theListToPopulate.add(new FhirVersionIndependentConcept(theSystemString, theNext.getCode()));
 			return true;
 		}
 
@@ -95,30 +95,30 @@ public class TermReadSvcDstu2 extends BaseTermReadSvcImpl {
 		throw new UnsupportedOperationException();
 	}
 
-	private void findCodesAbove(org.hl7.fhir.dstu2.model.ValueSet theSystem, String theSystemString, String theCode, List<VersionIndependentConcept> theListToPopulate) {
-		List<org.hl7.fhir.dstu2.model.ValueSet.ConceptDefinitionComponent> conceptList = theSystem.getCodeSystem().getConcept();
-		for (org.hl7.fhir.dstu2.model.ValueSet.ConceptDefinitionComponent next : conceptList) {
+	private void findCodesAbove(ca.uhn.fhir.model.dstu2.resource.ValueSet theSystem, String theSystemString, String theCode, List<FhirVersionIndependentConcept> theListToPopulate) {
+		List<ca.uhn.fhir.model.dstu2.resource.ValueSet.CodeSystemConcept> conceptList = theSystem.getCodeSystem().getConcept();
+		for (ca.uhn.fhir.model.dstu2.resource.ValueSet.CodeSystemConcept next : conceptList) {
 			addTreeIfItContainsCode(theSystemString, next, theCode, theListToPopulate);
 		}
 	}
 
 	@Override
-	public List<VersionIndependentConcept> findCodesAboveUsingBuiltInSystems(String theSystem, String theCode) {
-		ArrayList<VersionIndependentConcept> retVal = new ArrayList<>();
-		org.hl7.fhir.dstu2.model.ValueSet system = (org.hl7.fhir.dstu2.model.ValueSet) myValidationSupport.fetchCodeSystem(theSystem);
+	public List<FhirVersionIndependentConcept> findCodesAboveUsingBuiltInSystems(String theSystem, String theCode) {
+		ArrayList<FhirVersionIndependentConcept> retVal = new ArrayList<>();
+		ca.uhn.fhir.model.dstu2.resource.ValueSet system = (ca.uhn.fhir.model.dstu2.resource.ValueSet) myValidationSupport.fetchCodeSystem(theSystem);
 		if (system != null) {
 			findCodesAbove(system, theSystem, theCode, retVal);
 		}
 		return retVal;
 	}
 
-	private void findCodesBelow(org.hl7.fhir.dstu2.model.ValueSet theSystem, String theSystemString, String theCode, List<VersionIndependentConcept> theListToPopulate) {
-		List<org.hl7.fhir.dstu2.model.ValueSet.ConceptDefinitionComponent> conceptList = theSystem.getCodeSystem().getConcept();
+	private void findCodesBelow(ca.uhn.fhir.model.dstu2.resource.ValueSet theSystem, String theSystemString, String theCode, List<FhirVersionIndependentConcept> theListToPopulate) {
+		List<ca.uhn.fhir.model.dstu2.resource.ValueSet.CodeSystemConcept> conceptList = theSystem.getCodeSystem().getConcept();
 		findCodesBelow(theSystemString, theCode, theListToPopulate, conceptList);
 	}
 
-	private void findCodesBelow(String theSystemString, String theCode, List<VersionIndependentConcept> theListToPopulate, List<org.hl7.fhir.dstu2.model.ValueSet.ConceptDefinitionComponent> conceptList) {
-		for (org.hl7.fhir.dstu2.model.ValueSet.ConceptDefinitionComponent next : conceptList) {
+	private void findCodesBelow(String theSystemString, String theCode, List<FhirVersionIndependentConcept> theListToPopulate, List<ca.uhn.fhir.model.dstu2.resource.ValueSet.CodeSystemConcept> conceptList) {
+		for (ca.uhn.fhir.model.dstu2.resource.ValueSet.CodeSystemConcept next : conceptList) {
 			if (theCode.equals(next.getCode())) {
 				addAllChildren(theSystemString, next, theListToPopulate);
 			} else {
@@ -128,9 +128,9 @@ public class TermReadSvcDstu2 extends BaseTermReadSvcImpl {
 	}
 
 	@Override
-	public List<VersionIndependentConcept> findCodesBelowUsingBuiltInSystems(String theSystem, String theCode) {
-		ArrayList<VersionIndependentConcept> retVal = new ArrayList<>();
-		org.hl7.fhir.dstu2.model.ValueSet system = (org.hl7.fhir.dstu2.model.ValueSet) myValidationSupport.fetchCodeSystem(theSystem);
+	public List<FhirVersionIndependentConcept> findCodesBelowUsingBuiltInSystems(String theSystem, String theCode) {
+		ArrayList<FhirVersionIndependentConcept> retVal = new ArrayList<>();
+		ca.uhn.fhir.model.dstu2.resource.ValueSet system = (ca.uhn.fhir.model.dstu2.resource.ValueSet) myValidationSupport.fetchCodeSystem(theSystem);
 		if (system != null) {
 			findCodesBelow(system, theSystem, theCode, retVal);
 		}
@@ -148,6 +148,17 @@ public class TermReadSvcDstu2 extends BaseTermReadSvcImpl {
 		return retVal;
 	}
 
+	@Nullable
+	@Override
+	protected Coding toCanonicalCoding(@Nullable IBaseCoding theCoding) {
+		Coding retVal = null;
+		if (theCoding != null) {
+			CodingDt coding = (CodingDt) theCoding;
+			retVal = new Coding(coding.getSystem(), coding.getCode(), coding.getDisplay());
+		}
+		return retVal;
+	}
+
 	@Nullable
 	@Override
 	protected CodeableConcept toCanonicalCodeableConcept(@Nullable IBaseDatatype theCodeableConcept) {
@@ -157,7 +168,7 @@ public class TermReadSvcDstu2 extends BaseTermReadSvcImpl {
 			CodeableConceptDt cc = (CodeableConceptDt) theCodeableConcept;
 			outcome.setText(cc.getText());
 			for (CodingDt next : cc.getCoding()) {
-				outcome.addCoding(toCanonicalCoding(next));
+				outcome.addCoding(toCanonicalCoding((IBaseDatatype)next));
 			}
 		}
 		return outcome;

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/TermReadSvcDstu3.java

@@ -5,33 +5,25 @@ import ca.uhn.fhir.context.support.ConceptValidationOptions;
 import ca.uhn.fhir.context.support.IValidationSupport;
 import ca.uhn.fhir.context.support.ValidationSupportContext;
 import ca.uhn.fhir.context.support.ValueSetExpansionOptions;
-import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoValueSet;
 import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.jpa.term.api.ITermReadSvcDstu3;
 import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
-import ca.uhn.fhir.util.CoverageIgnore;
 import ca.uhn.fhir.util.ValidateUtil;
-import ca.uhn.fhir.util.VersionIndependentConcept;
 import org.hl7.fhir.convertors.VersionConvertor_30_40;
-import org.hl7.fhir.convertors.VersionConvertor_40_50;
 import org.hl7.fhir.convertors.conv30_40.CodeSystem30_40;
 import org.hl7.fhir.dstu3.model.CodeSystem;
 import org.hl7.fhir.dstu3.model.CodeableConcept;
 import org.hl7.fhir.dstu3.model.Coding;
 import org.hl7.fhir.dstu3.model.ValueSet;
 import org.hl7.fhir.exceptions.FHIRException;
+import org.hl7.fhir.instance.model.api.IBaseCoding;
 import org.hl7.fhir.instance.model.api.IBaseDatatype;
 import org.hl7.fhir.instance.model.api.IBaseResource;
-import org.hl7.fhir.utilities.validation.ValidationOptions;
 import org.springframework.beans.factory.annotation.Autowired;
 import org.springframework.transaction.PlatformTransactionManager;
-import org.springframework.transaction.TransactionDefinition;
-import org.springframework.transaction.support.TransactionTemplate;
 
 import javax.annotation.Nullable;
-import java.util.Optional;
 
-import static org.apache.commons.lang3.StringUtils.isNotBlank;
 import static org.hl7.fhir.convertors.conv30_40.ValueSet30_40.convertValueSet;
 
 /*
@@ -112,6 +104,12 @@ public class TermReadSvcDstu3 extends BaseTermReadSvcImpl implements IValidation
 		return VersionConvertor_30_40.convertCoding((org.hl7.fhir.dstu3.model.Coding) theCoding);
 	}
 
+	@Override
+	@Nullable
+	protected org.hl7.fhir.r4.model.Coding toCanonicalCoding(IBaseCoding theCoding) {
+		return VersionConvertor_30_40.convertCoding((org.hl7.fhir.dstu3.model.Coding) theCoding);
+	}
+
 	@Override
 	@Nullable
 	protected org.hl7.fhir.r4.model.CodeableConcept toCanonicalCodeableConcept(IBaseDatatype theCoding) {

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/TermReadSvcR4.java

@@ -8,6 +8,7 @@ import ca.uhn.fhir.context.support.ValueSetExpansionOptions;
 import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.jpa.term.api.ITermReadSvcR4;
 import ca.uhn.fhir.jpa.term.ex.ExpansionTooCostlyException;
+import org.hl7.fhir.instance.model.api.IBaseCoding;
 import org.hl7.fhir.instance.model.api.IBaseDatatype;
 import org.hl7.fhir.instance.model.api.IBaseResource;
 import org.hl7.fhir.r4.model.CodeSystem;
@@ -107,6 +108,11 @@ public class TermReadSvcR4 extends BaseTermReadSvcImpl implements ITermReadSvcR4
 		return (Coding) theCoding;
 	}
 
+	@Override
+	protected Coding toCanonicalCoding(IBaseCoding theCoding) {
+		return (Coding) theCoding;
+	}
+
 	@Override
 	protected CodeableConcept toCanonicalCodeableConcept(IBaseDatatype theCodeableConcept) {
 		return (CodeableConcept) theCodeableConcept;

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/TermReadSvcR5.java

@@ -12,6 +12,7 @@ import ca.uhn.fhir.jpa.term.ex.ExpansionTooCostlyException;
 import ca.uhn.fhir.util.ValidateUtil;
 import org.hl7.fhir.convertors.VersionConvertor_40_50;
 import org.hl7.fhir.convertors.conv40_50.CodeSystem40_50;
+import org.hl7.fhir.instance.model.api.IBaseCoding;
 import org.hl7.fhir.instance.model.api.IBaseDatatype;
 import org.hl7.fhir.instance.model.api.IBaseResource;
 import org.hl7.fhir.r5.model.CodeSystem;
@@ -111,6 +112,12 @@ public class TermReadSvcR5 extends BaseTermReadSvcImpl implements IValidationSup
 		return VersionConvertor_40_50.convertCoding((Coding) theCoding);
 	}
 
+	@Override
+	@Nullable
+	protected org.hl7.fhir.r4.model.Coding toCanonicalCoding(IBaseCoding theCoding) {
+		return VersionConvertor_40_50.convertCoding((Coding) theCoding);
+	}
+
 	@Override
 	@Nullable
 	protected org.hl7.fhir.r4.model.CodeableConcept toCanonicalCodeableConcept(IBaseDatatype theCoding) {
@@ -135,4 +142,10 @@ public class TermReadSvcR5 extends BaseTermReadSvcImpl implements IValidationSup
 		org.hl7.fhir.r4.model.ValueSet valueSetR4 = toCanonicalValueSet(valueSet);
 		return super.isValueSetPreExpandedForCodeValidation(valueSetR4);
 	}
+
+	@Override
+	public LookupCodeResult lookupCode(ValidationSupportContext theValidationSupportContext, String theSystem, String theCode) {
+		return super.lookupCode(theSystem, theCode);
+	}
+
 }

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/ValueSetConceptAccumulator.java

@@ -42,13 +42,12 @@ public class ValueSetConceptAccumulator implements IValueSetConceptAccumulator {
 	private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(ValueSetConceptAccumulator.class);
 
 	private TermValueSet myTermValueSet;
-	private ITermValueSetDao myValueSetDao;
-	private ITermValueSetConceptDao myValueSetConceptDao;
-	private ITermValueSetConceptDesignationDao myValueSetConceptDesignationDao;
+	final private ITermValueSetDao myValueSetDao;
+	final private ITermValueSetConceptDao myValueSetConceptDao;
+	final private ITermValueSetConceptDesignationDao myValueSetConceptDesignationDao;
 	private int myConceptsSaved;
 	private int myDesignationsSaved;
 	private int myConceptsExcluded;
-	private int myCount;
 
 	public ValueSetConceptAccumulator(@Nonnull TermValueSet theTermValueSet, @Nonnull ITermValueSetDao theValueSetDao, @Nonnull ITermValueSetConceptDao theValueSetConceptDao, @Nonnull ITermValueSetConceptDesignationDao theValueSetConceptDesignationDao) {
 		myTermValueSet = theTermValueSet;

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/ValueSetExpansionComponentWithConceptAccumulator.java

@@ -26,6 +26,7 @@ import ca.uhn.fhir.jpa.term.ex.ExpansionTooCostlyException;
 import ca.uhn.fhir.model.api.annotation.Block;
 import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
 import ca.uhn.fhir.util.HapiExtensions;
+import org.apache.commons.lang3.StringUtils;
 import org.hl7.fhir.r4.model.StringType;
 import org.hl7.fhir.r4.model.ValueSet;
 
@@ -67,7 +68,7 @@ public class ValueSetExpansionComponentWithConceptAccumulator extends ValueSet.V
 	public void includeConcept(String theSystem, String theCode, String theDisplay) {
 		incrementConceptsCount();
 		ValueSet.ValueSetExpansionContainsComponent contains = this.addContains();
-		contains.setSystem(theSystem);
+		setSystemAndVersion(theSystem, contains);
 		contains.setCode(theCode);
 		contains.setDisplay(theDisplay);
 	}
@@ -76,7 +77,7 @@ public class ValueSetExpansionComponentWithConceptAccumulator extends ValueSet.V
 	public void includeConceptWithDesignations(String theSystem, String theCode, String theDisplay, Collection<TermConceptDesignation> theDesignations) {
 		incrementConceptsCount();
 		ValueSet.ValueSetExpansionContainsComponent contains = this.addContains();
-		contains.setSystem(theSystem);
+		setSystemAndVersion(theSystem, contains);
 		contains.setCode(theCode);
 		contains.setDisplay(theDisplay);
 		if (theDesignations != null) {
@@ -95,11 +96,26 @@ public class ValueSetExpansionComponentWithConceptAccumulator extends ValueSet.V
 
 	@Override
 	public void excludeConcept(String theSystem, String theCode) {
-		this
-			.getContains()
-			.removeIf(t ->
-				theSystem.equals(t.getSystem()) &&
-					theCode.equals(t.getCode()));
+		String excludeSystem;
+		String excludeSystemVersion;
+		int versionSeparator = theSystem.indexOf("|");
+		if(versionSeparator > -1) {
+			excludeSystemVersion = theSystem.substring(versionSeparator + 1);
+			excludeSystem = theSystem.substring(0, versionSeparator);
+		} else {
+			excludeSystem = theSystem;
+			excludeSystemVersion = null;
+		}
+		if (excludeSystemVersion != null) {
+			this.getContains().removeIf(t ->
+				excludeSystem.equals(t.getSystem()) &&
+				theCode.equals(t.getCode()) &&
+				excludeSystemVersion.equals(t.getVersion()));
+		} else {
+			this.getContains().removeIf(t ->
+					theSystem.equals(t.getSystem()) &&
+						theCode.equals(t.getCode()));
+		}
 	}
 
 	private void incrementConceptsCount() {
@@ -108,4 +124,17 @@ public class ValueSetExpansionComponentWithConceptAccumulator extends ValueSet.V
 			throw new ExpansionTooCostlyException(msg);
 		}
 	}
+
+	private void setSystemAndVersion(String theSystemAndVersion, ValueSet.ValueSetExpansionContainsComponent myComponent) {
+		if (StringUtils.isNotEmpty((theSystemAndVersion))) {
+			int versionSeparator = theSystemAndVersion.lastIndexOf('|');
+			if (versionSeparator != -1) {
+				myComponent.setVersion(theSystemAndVersion.substring(versionSeparator + 1));
+				myComponent.setSystem(theSystemAndVersion.substring(0,versionSeparator));
+			} else {
+				myComponent.setSystem(theSystemAndVersion);
+			}
+		}
+	}
+
 }

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/api/ITermCodeSystemStorageSvc.java

@@ -41,6 +41,8 @@ public interface ITermCodeSystemStorageSvc {
 
 	void deleteCodeSystem(TermCodeSystem theCodeSystem);
 
+	void deleteCodeSystemVersion(TermCodeSystemVersion theCodeSystemVersion);
+
 	void storeNewCodeSystemVersion(ResourcePersistentId theCodeSystemResourcePid, String theSystemUri, String theSystemName, String theSystemVersionId, TermCodeSystemVersion theCodeSystemVersion, ResourceTable theCodeSystemResourceTable);
 
 	/**

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/api/ITermDeferredStorageSvc.java

@@ -21,8 +21,10 @@ package ca.uhn.fhir.jpa.term.api;
  */
 
 import ca.uhn.fhir.jpa.entity.TermCodeSystem;
+import ca.uhn.fhir.jpa.entity.TermCodeSystemVersion;
 import ca.uhn.fhir.jpa.entity.TermConcept;
 import ca.uhn.fhir.jpa.entity.TermConceptParentChildLink;
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import org.hl7.fhir.r4.model.ConceptMap;
 import org.hl7.fhir.r4.model.ValueSet;
 
@@ -54,6 +56,8 @@ public interface ITermDeferredStorageSvc {
 
 	void deleteCodeSystem(TermCodeSystem theCodeSystem);
 
+	void deleteCodeSystemForResource(ResourceTable theCodeSystemResourceToDelete);
+
 	/**
 	 * This is mostly here for unit tests - Saves any and all deferred concepts and links
 	 */

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/api/ITermReadSvc.java

@@ -10,9 +10,7 @@ import ca.uhn.fhir.jpa.entity.TermConceptMapGroupElement;
 import ca.uhn.fhir.jpa.entity.TermConceptMapGroupElementTarget;
 import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.jpa.term.IValueSetConceptAccumulator;
-import ca.uhn.fhir.model.dstu2.composite.CodeableConceptDt;
-import ca.uhn.fhir.model.dstu2.composite.CodingDt;
-import ca.uhn.fhir.util.VersionIndependentConcept;
+import ca.uhn.fhir.util.FhirVersionIndependentConcept;
 import org.hl7.fhir.instance.model.api.IBaseCoding;
 import org.hl7.fhir.instance.model.api.IBaseDatatype;
 import org.hl7.fhir.instance.model.api.IBaseResource;
@@ -21,7 +19,6 @@ import org.hl7.fhir.instance.model.api.IPrimitiveType;
 import org.hl7.fhir.r4.model.CodeSystem;
 import org.hl7.fhir.r4.model.ConceptMap;
 import org.hl7.fhir.r4.model.ValueSet;
-import org.hl7.fhir.utilities.validation.ValidationOptions;
 
 import javax.annotation.Nullable;
 import java.util.List;
@@ -71,21 +68,21 @@ public interface ITermReadSvc extends IValidationSupport {
 
 	void expandValueSet(@Nullable ValueSetExpansionOptions theExpansionOptions, IBaseResource theValueSetToExpand, IValueSetConceptAccumulator theValueSetCodeAccumulator);
 
-	List<VersionIndependentConcept> expandValueSet(ValueSetExpansionOptions theExpansionOptions, String theValueSet);
+	List<FhirVersionIndependentConcept> expandValueSet(ValueSetExpansionOptions theExpansionOptions, String theValueSet);
 
 	Optional<TermConcept> findCode(String theCodeSystem, String theCode);
 
 	Set<TermConcept> findCodesAbove(Long theCodeSystemResourcePid, Long theCodeSystemResourceVersionPid, String theCode);
 
-	List<VersionIndependentConcept> findCodesAbove(String theSystem, String theCode);
+	List<FhirVersionIndependentConcept> findCodesAbove(String theSystem, String theCode);
 
-	List<VersionIndependentConcept> findCodesAboveUsingBuiltInSystems(String theSystem, String theCode);
+	List<FhirVersionIndependentConcept> findCodesAboveUsingBuiltInSystems(String theSystem, String theCode);
 
 	Set<TermConcept> findCodesBelow(Long theCodeSystemResourcePid, Long theCodeSystemResourceVersionPid, String theCode);
 
-	List<VersionIndependentConcept> findCodesBelow(String theSystem, String theCode);
+	List<FhirVersionIndependentConcept> findCodesBelow(String theSystem, String theCode);
 
-	List<VersionIndependentConcept> findCodesBelowUsingBuiltInSystems(String theSystem, String theCode);
+	List<FhirVersionIndependentConcept> findCodesBelowUsingBuiltInSystems(String theSystem, String theCode);
 
 	CodeSystem fetchCanonicalCodeSystemFromCompleteContext(String theSystem);
 
@@ -122,4 +119,9 @@ public interface ITermReadSvc extends IValidationSupport {
 	 */
 	boolean isValueSetPreExpandedForCodeValidation(IBaseResource theValueSet);
 
+	/**
+	 * Version independent
+	 */
+	CodeValidationResult codeSystemValidateCode(IIdType theCodeSystemId, String theValueSetUrl, String theVersion, String theCode, String theDisplay, IBaseDatatype theCoding, IBaseDatatype theCodeableConcept);
+
 }

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/BaseLoincHandler.java

@@ -52,7 +52,7 @@ public abstract class BaseLoincHandler implements IRecordHandler {
 	private final List<ValueSet> myValueSets;
 	private final Map<String, ValueSet> myIdToValueSet = new HashMap<>();
 	private final Map<String, TermConcept> myCode2Concept;
-	private final Properties myUploadProperties;
+	protected final Properties myUploadProperties;
 
 	BaseLoincHandler(Map<String, TermConcept> theCode2Concept, List<ValueSet> theValueSets, List<ConceptMap> theConceptMaps, Properties theUploadProperties) {
 		myValueSets = theValueSets;
@@ -115,7 +115,7 @@ public abstract class BaseLoincHandler implements IRecordHandler {
 			conceptMap.setId(theMapping.getConceptMapId());
 			conceptMap.setUrl(theMapping.getConceptMapUri());
 			conceptMap.setName(theMapping.getConceptMapName());
-			conceptMap.setVersion(myUploadProperties.getProperty(LOINC_CONCEPTMAP_VERSION.getCode()));
+			conceptMap.setVersion(theMapping.getConceptMapVersion());
 			conceptMap.setPublisher(REGENSTRIEF_INSTITUTE_INC);
 			conceptMap.addContact()
 				.setName(REGENSTRIEF_INSTITUTE_INC)
@@ -191,6 +191,8 @@ public abstract class BaseLoincHandler implements IRecordHandler {
 		String version = null;
 		if (isNotBlank(theVersionPropertyName)) {
 			version = myUploadProperties.getProperty(theVersionPropertyName);
+		} else {
+			version = myUploadProperties.getProperty(LOINC_CONCEPTMAP_VERSION.getCode());
 		}
 
 		ValueSet vs;
@@ -226,6 +228,7 @@ public abstract class BaseLoincHandler implements IRecordHandler {
 		private String myCopyright;
 		private String myConceptMapId;
 		private String myConceptMapUri;
+		private String myConceptMapVersion;
 		private String myConceptMapName;
 		private String mySourceCodeSystem;
 		private String mySourceCode;
@@ -263,6 +266,15 @@ public abstract class BaseLoincHandler implements IRecordHandler {
 			return this;
 		}
 
+		String getConceptMapVersion() {
+			return myConceptMapVersion;
+		}
+
+		ConceptMapping setConceptMapVersion(String theConceptMapVersion) {
+			myConceptMapVersion = theConceptMapVersion;
+			return this;
+		}
+
 		String getCopyright() {
 			return myCopyright;
 		}

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/BaseLoincTop2000LabResultsHandler.java

@@ -31,6 +31,7 @@ import java.util.List;
 import java.util.Map;
 import java.util.Properties;
 
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CODESYSTEM_VERSION;
 import static org.apache.commons.lang3.StringUtils.trim;
 
 public class BaseLoincTop2000LabResultsHandler extends BaseLoincHandler implements IRecordHandler {
@@ -41,7 +42,12 @@ public class BaseLoincTop2000LabResultsHandler extends BaseLoincHandler implemen
 
 	public BaseLoincTop2000LabResultsHandler(Map<String, TermConcept> theCode2concept, List<ValueSet> theValueSets, String theValueSetId, String theValueSetUri, String theValueSetName, List<ConceptMap> theConceptMaps, Properties theUploadProperties) {
 		super(theCode2concept, theValueSets, theConceptMaps, theUploadProperties);
-		myValueSetId = theValueSetId;
+		String versionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		if (versionId != null) {
+			myValueSetId = theValueSetId + "-" + versionId;
+		} else {
+			myValueSetId = theValueSetId;
+		}
 		myValueSetUri = theValueSetUri;
 		myValueSetName = theValueSetName;
 	}

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincAnswerListHandler.java

@@ -74,7 +74,14 @@ public class LoincAnswerListHandler extends BaseLoincHandler {
 		}
 
 		// Answer list ValueSet
-		ValueSet vs = getValueSet(answerListId, "http://loinc.org/vs/" + answerListId, answerListName, LOINC_ANSWERLIST_VERSION.getCode());
+		String valueSetId;
+		String codeSystemVersionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		if (codeSystemVersionId != null) {
+			valueSetId = answerListId + "-" + codeSystemVersionId;
+		} else {
+			valueSetId = answerListId;
+		}
+		ValueSet vs = getValueSet(valueSetId, "http://loinc.org/vs/" + answerListId, answerListName, LOINC_ANSWERLIST_VERSION.getCode());
 		if (vs.getIdentifier().isEmpty()) {
 			vs.addIdentifier()
 				.setSystem("urn:ietf:rfc:3986")

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincDocumentOntologyHandler.java

@@ -33,6 +33,7 @@ import java.util.List;
 import java.util.Map;
 import java.util.Properties;
 
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CODESYSTEM_VERSION;
 import static org.apache.commons.lang3.StringUtils.trim;
 
 public class LoincDocumentOntologyHandler extends BaseLoincHandler implements IRecordHandler {
@@ -57,7 +58,14 @@ public class LoincDocumentOntologyHandler extends BaseLoincHandler implements IR
 		String partName = trim(theRecord.get("PartName"));
 
 		// RSNA Codes VS
-		ValueSet vs = getValueSet(DOCUMENT_ONTOLOGY_CODES_VS_ID, DOCUMENT_ONTOLOGY_CODES_VS_URI, DOCUMENT_ONTOLOGY_CODES_VS_NAME, null);
+		String valueSetId;
+		String codeSystemVersionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		if (codeSystemVersionId != null) {
+			valueSetId = DOCUMENT_ONTOLOGY_CODES_VS_ID + "-" + codeSystemVersionId;
+		} else {
+			valueSetId = DOCUMENT_ONTOLOGY_CODES_VS_ID;
+		}
+		ValueSet vs = getValueSet(valueSetId, DOCUMENT_ONTOLOGY_CODES_VS_URI, DOCUMENT_ONTOLOGY_CODES_VS_NAME, null);
 		addCodeAsIncludeToValueSet(vs, ITermLoaderSvc.LOINC_URI, loincNumber, null);
 
 		// Part Properties

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincGroupFileHandler.java

@@ -30,6 +30,7 @@ import java.util.List;
 import java.util.Map;
 import java.util.Properties;
 
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CODESYSTEM_VERSION;
 import static org.apache.commons.lang3.StringUtils.trim;
 
 public class LoincGroupFileHandler extends BaseLoincHandler implements IRecordHandler {
@@ -47,7 +48,18 @@ public class LoincGroupFileHandler extends BaseLoincHandler implements IRecordHa
 		String groupId = trim(theRecord.get("GroupId"));
 		String groupName = trim(theRecord.get("Group"));
 
-		ValueSet parentValueSet = getValueSet(parentGroupId, VS_URI_PREFIX + parentGroupId, null, null);
+		String codeSystemVersionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		String parentGroupValueSetId;
+		String groupValueSetId;
+		if (codeSystemVersionId != null) {
+			parentGroupValueSetId = parentGroupId + "-" + codeSystemVersionId;
+			groupValueSetId = groupId + "-" + codeSystemVersionId;
+		} else {
+			parentGroupValueSetId = parentGroupId;
+			groupValueSetId = groupId;
+		}
+
+		ValueSet parentValueSet = getValueSet(parentGroupValueSetId, VS_URI_PREFIX + parentGroupId, null, null);
 		parentValueSet
 			.getCompose()
 			.getIncludeFirstRep()
@@ -55,7 +67,7 @@ public class LoincGroupFileHandler extends BaseLoincHandler implements IRecordHa
 
 		// Create group to set its name (terms are added in a different
 		// handler)
-		getValueSet(groupId, VS_URI_PREFIX + groupId, groupName, null);
+		getValueSet(groupValueSetId, VS_URI_PREFIX + groupId, groupName, null);
 	}
 
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincGroupTermsFileHandler.java

@@ -31,6 +31,8 @@ import java.util.List;
 import java.util.Map;
 import java.util.Properties;
 
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CODESYSTEM_VERSION;
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CONCEPTMAP_VERSION;
 import static org.apache.commons.lang3.StringUtils.trim;
 
 public class LoincGroupTermsFileHandler extends BaseLoincHandler implements IRecordHandler {
@@ -43,9 +45,16 @@ public class LoincGroupTermsFileHandler extends BaseLoincHandler implements IRec
 	public void accept(CSVRecord theRecord) {
 		//"Category","GroupId","Archetype","LoincNumber","LongCommonName"
 		String groupId = trim(theRecord.get("GroupId"));
+		String codeSystemVersionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		String valueSetId;
+		if (codeSystemVersionId != null) {
+			valueSetId = groupId + "-" + codeSystemVersionId;
+		} else {
+			valueSetId = groupId;
+		}
 		String loincNumber = trim(theRecord.get("LoincNumber"));
 
-		ValueSet valueSet = getValueSet(groupId, LoincGroupFileHandler.VS_URI_PREFIX + groupId, null, null);
+		ValueSet valueSet = getValueSet(valueSetId, LoincGroupFileHandler.VS_URI_PREFIX + groupId, null, null);
 		addCodeAsIncludeToValueSet(valueSet, ITermLoaderSvc.LOINC_URI, loincNumber, null);
 	}
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincIeeeMedicalDeviceCodeHandler.java

@@ -32,6 +32,8 @@ import java.util.List;
 import java.util.Map;
 import java.util.Properties;
 
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CODESYSTEM_VERSION;
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CONCEPTMAP_VERSION;
 import static org.apache.commons.lang3.StringUtils.trim;
 
 public class LoincIeeeMedicalDeviceCodeHandler extends BaseLoincHandler implements IRecordHandler {
@@ -51,6 +53,7 @@ public class LoincIeeeMedicalDeviceCodeHandler extends BaseLoincHandler implemen
 	@Override
 	public void accept(CSVRecord theRecord) {
 
+		String loincIeeeCmVersion = myUploadProperties.getProperty(LOINC_CONCEPTMAP_VERSION.getCode());
 		String loincNumber = trim(theRecord.get("LOINC_NUM"));
 		String longCommonName = trim(theRecord.get("LOINC_LONG_COMMON_NAME"));
 		String ieeeCode = trim(theRecord.get("IEEE_CF_CODE10"));
@@ -59,10 +62,18 @@ public class LoincIeeeMedicalDeviceCodeHandler extends BaseLoincHandler implemen
 		// LOINC Part -> IEEE 11073:10101 Mappings
 		String sourceCodeSystemUri = ITermLoaderSvc.LOINC_URI;
 		String targetCodeSystemUri = ITermLoaderSvc.IEEE_11073_10101_URI;
+		String conceptMapId;
+		String codeSystemVersionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		if (codeSystemVersionId != null) {
+			conceptMapId = LOINC_IEEE_CM_ID + "-" + codeSystemVersionId;
+		} else {
+			conceptMapId = LOINC_IEEE_CM_ID;
+		}
 		addConceptMapEntry(
 			new ConceptMapping()
-				.setConceptMapId(LOINC_IEEE_CM_ID)
+				.setConceptMapId(conceptMapId)
 				.setConceptMapUri(LOINC_IEEE_CM_URI)
+				.setConceptMapVersion(loincIeeeCmVersion)
 				.setConceptMapName(LOINC_IEEE_CM_NAME)
 				.setSourceCodeSystem(sourceCodeSystemUri)
 				.setSourceCode(loincNumber)
@@ -71,7 +82,7 @@ public class LoincIeeeMedicalDeviceCodeHandler extends BaseLoincHandler implemen
 				.setTargetCode(ieeeCode)
 				.setTargetDisplay(ieeeDisplayName)
 				.setEquivalence(Enumerations.ConceptMapEquivalence.EQUAL),
-			CM_COPYRIGHT);
+				CM_COPYRIGHT);
 
 	}
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincImagingDocumentCodeHandler.java

@@ -31,11 +31,12 @@ import java.util.List;
 import java.util.Map;
 import java.util.Properties;
 
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CODESYSTEM_VERSION;
 import static org.apache.commons.lang3.StringUtils.trim;
 
 public class LoincImagingDocumentCodeHandler extends BaseLoincHandler implements IRecordHandler {
 
-	public static final String VS_ID = "loinc-imaging-document-codes";
+	public static final String VS_ID_BASE = "loinc-imaging-document-codes";
 	public static final String VS_URI = "http://loinc.org/vs/loinc-imaging-document-codes";
 	public static final String VS_NAME = "LOINC Imaging Document Codes";
 
@@ -48,7 +49,15 @@ public class LoincImagingDocumentCodeHandler extends BaseLoincHandler implements
 		String loincNumber = trim(theRecord.get("LOINC_NUM"));
 		String displayName = trim(theRecord.get("LONG_COMMON_NAME"));
 
-		ValueSet valueSet = getValueSet(VS_ID, VS_URI, VS_NAME,null);
+		String codeSystemVersionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		String valueSetId;
+		if (codeSystemVersionId != null) {
+			valueSetId = VS_ID_BASE + "-" + codeSystemVersionId;
+		} else {
+			valueSetId = VS_ID_BASE;
+		}
+
+		ValueSet valueSet = getValueSet(valueSetId, VS_URI, VS_NAME,null);
 		addCodeAsIncludeToValueSet(valueSet, ITermLoaderSvc.LOINC_URI, loincNumber, displayName);
 	}
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincParentGroupFileHandler.java

@@ -30,6 +30,7 @@ import java.util.List;
 import java.util.Map;
 import java.util.Properties;
 
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CODESYSTEM_VERSION;
 import static org.apache.commons.lang3.StringUtils.trim;
 
 public class LoincParentGroupFileHandler extends BaseLoincHandler implements IRecordHandler {
@@ -42,9 +43,16 @@ public class LoincParentGroupFileHandler extends BaseLoincHandler implements IRe
 	public void accept(CSVRecord theRecord) {
 		// "ParentGroupId","ParentGroup","Status"
 		String parentGroupId = trim(theRecord.get("ParentGroupId"));
+		String codeSystemVersionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		String valueSetId;
+		if (codeSystemVersionId != null) {
+			valueSetId = parentGroupId + "-" + codeSystemVersionId;
+		} else {
+			valueSetId = parentGroupId;
+		}
 		String parentGroupName = trim(theRecord.get("ParentGroup"));
 
-		getValueSet(parentGroupId, LoincGroupFileHandler.VS_URI_PREFIX + parentGroupId, parentGroupName, null);
+		getValueSet(valueSetId, LoincGroupFileHandler.VS_URI_PREFIX + parentGroupId, parentGroupName, null);
 	}
 
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincPartRelatedCodeMappingHandler.java

@@ -33,6 +33,8 @@ import java.util.List;
 import java.util.Map;
 import java.util.Properties;
 
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CODESYSTEM_VERSION;
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CONCEPTMAP_VERSION;
 import static org.apache.commons.lang3.StringUtils.defaultString;
 import static org.apache.commons.lang3.StringUtils.trim;
 
@@ -75,6 +77,9 @@ public class LoincPartRelatedCodeMappingHandler extends BaseLoincHandler impleme
 		String extCodeSystemVersion = trim(theRecord.get("ExtCodeSystemVersion"));
 		String extCodeSystemCopyrightNotice = trim(theRecord.get("ExtCodeSystemCopyrightNotice"));
 
+		// ConceptMap version from properties files
+		String loincPartMapVersion = myUploadProperties.getProperty(LOINC_CONCEPTMAP_VERSION.getCode());
+		
 		Enumerations.ConceptMapEquivalence equivalence;
 		switch (trim(defaultString(mapType))) {
 			case "":
@@ -125,11 +130,19 @@ public class LoincPartRelatedCodeMappingHandler extends BaseLoincHandler impleme
 				loincPartMapName = "Unknown Mapping";
 				break;
 		}
+		String conceptMapId;
+		String codeSystemVersionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		if (codeSystemVersionId != null) {
+			conceptMapId = loincPartMapId + "-" + codeSystemVersionId;
+		} else {
+			conceptMapId = loincPartMapId;
+		}
 
 		addConceptMapEntry(
 			new ConceptMapping()
-				.setConceptMapId(loincPartMapId)
+				.setConceptMapId(conceptMapId)
 				.setConceptMapUri(loincPartMapUri)
+				.setConceptMapVersion(loincPartMapVersion)
 				.setConceptMapName(loincPartMapName)
 				.setSourceCodeSystem(ITermLoaderSvc.LOINC_URI)
 				.setSourceCode(partNumber)

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincRsnaPlaybookHandler.java

@@ -31,6 +31,8 @@ import org.hl7.fhir.r4.model.ValueSet;
 
 import java.util.*;
 
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CODESYSTEM_VERSION;
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CONCEPTMAP_VERSION;
 import static org.apache.commons.lang3.StringUtils.isNotBlank;
 import static org.apache.commons.lang3.StringUtils.trim;
 
@@ -80,6 +82,9 @@ public class LoincRsnaPlaybookHandler extends BaseLoincHandler implements IRecor
 		String rpid = trim(theRecord.get("RPID"));
 		String longName = trim(theRecord.get("LongName"));
 
+		// ConceptMap version from properties files
+		String loincRsnaCmVersion = myUploadProperties.getProperty(LOINC_CONCEPTMAP_VERSION.getCode());
+		
 		// RSNA Codes VS
 		ValueSet vs;
 		if (!myIdToValueSet.containsKey(RSNA_CODES_VS_ID)) {
@@ -170,12 +175,24 @@ public class LoincRsnaPlaybookHandler extends BaseLoincHandler implements IRecor
 			code.addPropertyCoding(loincCodePropName, ITermLoaderSvc.LOINC_URI, partNumber, partName);
 		}
 
+		String partConceptMapId;
+		String termConceptMapId;
+		String codeSystemVersionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		if (codeSystemVersionId != null) {
+			partConceptMapId = LoincPartRelatedCodeMappingHandler.LOINC_PART_TO_RID_PART_MAP_ID + "-" + codeSystemVersionId;
+			termConceptMapId = LoincPartRelatedCodeMappingHandler.LOINC_TERM_TO_RPID_PART_MAP_ID + "-" + codeSystemVersionId;
+		} else {
+			partConceptMapId = LoincPartRelatedCodeMappingHandler.LOINC_PART_TO_RID_PART_MAP_ID;
+			termConceptMapId = LoincPartRelatedCodeMappingHandler.LOINC_TERM_TO_RPID_PART_MAP_ID;
+		}
+
 		// LOINC Part -> Radlex RID code mappings
 		if (isNotBlank(rid)) {
 			addConceptMapEntry(
 				new ConceptMapping()
-					.setConceptMapId(LoincPartRelatedCodeMappingHandler.LOINC_PART_TO_RID_PART_MAP_ID)
+					.setConceptMapId(partConceptMapId)
 					.setConceptMapUri(LoincPartRelatedCodeMappingHandler.LOINC_PART_TO_RID_PART_MAP_URI)
+					.setConceptMapVersion(loincRsnaCmVersion)
 					.setConceptMapName(LoincPartRelatedCodeMappingHandler.LOINC_PART_TO_RID_PART_MAP_NAME)
 					.setSourceCodeSystem(ITermLoaderSvc.LOINC_URI)
 					.setSourceCode(partNumber)
@@ -191,8 +208,9 @@ public class LoincRsnaPlaybookHandler extends BaseLoincHandler implements IRecor
 		if (isNotBlank(rpid)) {
 			addConceptMapEntry(
 				new ConceptMapping()
-					.setConceptMapId(LoincPartRelatedCodeMappingHandler.LOINC_TERM_TO_RPID_PART_MAP_ID)
+					.setConceptMapId(termConceptMapId)
 					.setConceptMapUri(LoincPartRelatedCodeMappingHandler.LOINC_TERM_TO_RPID_PART_MAP_URI)
+					.setConceptMapVersion(loincRsnaCmVersion)
 					.setConceptMapName(LoincPartRelatedCodeMappingHandler.LOINC_TERM_TO_RPID_PART_MAP_NAME)
 					.setSourceCodeSystem(ITermLoaderSvc.LOINC_URI)
 					.setSourceCode(loincNumber)

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincUniversalOrderSetHandler.java

@@ -29,11 +29,12 @@ import org.hl7.fhir.r4.model.ValueSet;
 
 import java.util.*;
 
+import static ca.uhn.fhir.jpa.term.loinc.LoincUploadPropertiesEnum.LOINC_CODESYSTEM_VERSION;
 import static org.apache.commons.lang3.StringUtils.trim;
 
 public class LoincUniversalOrderSetHandler extends BaseLoincHandler implements IRecordHandler {
 
-	public static final String VS_ID = "loinc-universal-order-set";
+	public static final String VS_ID_BASE = "loinc-universal-order-set";
 	public static final String VS_URI = "http://loinc.org/vs/loinc-universal-order-set";
 	public static final String VS_NAME = "LOINC Universal Order Set";
 
@@ -47,7 +48,15 @@ public class LoincUniversalOrderSetHandler extends BaseLoincHandler implements I
 		String displayName = trim(theRecord.get("LONG_COMMON_NAME"));
 		String orderObs = trim(theRecord.get("ORDER_OBS"));
 
-		ValueSet valueSet = getValueSet(VS_ID, VS_URI, VS_NAME, null);
+		String codeSystemVersionId = myUploadProperties.getProperty(LOINC_CODESYSTEM_VERSION.getCode());
+		String valueSetId;
+		if (codeSystemVersionId != null) {
+			valueSetId = VS_ID_BASE + "-" + codeSystemVersionId;
+		} else {
+			valueSetId = VS_ID_BASE;
+		}
+
+		ValueSet valueSet = getValueSet(valueSetId, VS_URI, VS_NAME, null);
 		addCodeAsIncludeToValueSet(valueSet, ITermLoaderSvc.LOINC_URI, loincNumber, displayName);
 	}
 

hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincUploadPropertiesEnum.java

@@ -96,6 +96,9 @@ public enum LoincUploadPropertiesEnum {
 	/*
 	 * OPTIONAL
 	 */
+	// This is the version identifier for the LOINC code system
+	LOINC_CODESYSTEM_VERSION("loinc.codesystem.version"),
+
 	// This is the version identifier for the answer list file
 	LOINC_ANSWERLIST_VERSION("loinc.answerlist.version"),
 

hapi-fhir-jpaserver-base/src/main/resources/ca/uhn/fhir/jpa/term/loinc/loincupload.properties

@@ -61,6 +61,10 @@ loinc.universal.lab.order.valueset.file=AccessoryFiles/LoincUniversalLabOrdersVa
 ### OPTIONAL ###
 ################
 
+# This is the version identifier for the LOINC code system
+## Key may be omitted if only a single version of LOINC is being kept.
+#loinc.codesystem.version=2.68
+
 # This is the version identifier for the answer list file
 ## Key may be omitted
 loinc.answerlist.version=Beta.1

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

@@ -40,7 +40,7 @@ import ca.uhn.fhir.test.utilities.UnregisterScheduledProcessor;
 import ca.uhn.fhir.util.BundleUtil;
 import ca.uhn.fhir.util.StopWatch;
 import ca.uhn.fhir.util.TestUtil;
-import ca.uhn.fhir.util.VersionIndependentConcept;
+import ca.uhn.fhir.util.FhirVersionIndependentConcept;
 import org.apache.commons.io.IOUtils;
 import org.hibernate.HibernateException;
 import org.hibernate.Session;
@@ -507,9 +507,9 @@ public abstract class BaseJpaTest extends BaseTest {
 		return retVal;
 	}
 
-	protected static Set<String> toCodes(List<VersionIndependentConcept> theConcepts) {
+	protected static Set<String> toCodes(List<FhirVersionIndependentConcept> theConcepts) {
 		HashSet<String> retVal = new HashSet<>();
-		for (VersionIndependentConcept next : theConcepts) {
+		for (FhirVersionIndependentConcept next : theConcepts) {
 			retVal.add(next.getCode());
 		}
 		return retVal;

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu2/FhirResourceDaoValueSetDstu2Test.java

@@ -1,6 +1,7 @@
 package ca.uhn.fhir.jpa.dao.dstu2;
 
 import ca.uhn.fhir.context.support.IValidationSupport;
+import ca.uhn.fhir.jpa.api.dao.IFhirResourceDaoCodeSystem;
 import ca.uhn.fhir.model.dstu2.composite.CodeableConceptDt;
 import ca.uhn.fhir.model.dstu2.composite.CodingDt;
 import ca.uhn.fhir.model.dstu2.resource.ValueSet;
@@ -21,7 +22,10 @@ import static org.hamcrest.Matchers.not;
 import static org.hamcrest.Matchers.stringContainsInOrder;
 import static org.junit.jupiter.api.Assertions.assertEquals;
 import static org.junit.jupiter.api.Assertions.assertFalse;
+import static org.junit.jupiter.api.Assertions.assertNotNull;
 import static org.junit.jupiter.api.Assertions.assertTrue;
+import static org.junit.jupiter.api.Assertions.fail;
+
 
 public class FhirResourceDaoValueSetDstu2Test extends BaseJpaDstu2Test {
 
@@ -228,5 +232,15 @@ public class FhirResourceDaoValueSetDstu2Test extends BaseJpaDstu2Test {
 		assertThat(resp, not(containsString("<code value=\"8450-9\"/>")));
 	}
 
+	@Test
+	public void testValidateCodeForCodeSystemOperationNotSupported() {
+		try {
+			((IFhirResourceDaoCodeSystem)myValueSetDao).validateCode(null, null, null, null, null, null, null, null);
+			fail();
+		} catch (UnsupportedOperationException theE) {
+			assertNotNull(theE);
+		}
 
+	}
+	
 }

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/BaseJpaDstu3Test.java

@@ -52,7 +52,6 @@ import ca.uhn.fhir.rest.api.Constants;
 import ca.uhn.fhir.rest.api.EncodingEnum;
 import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
 import ca.uhn.fhir.rest.server.provider.ResourceProviderFactory;
-import ca.uhn.fhir.util.TestUtil;
 import ca.uhn.fhir.util.UrlUtil;
 import org.apache.commons.io.IOUtils;
 import org.hibernate.search.jpa.FullTextEntityManager;

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3CodeSystemTest.java

@@ -1,7 +1,6 @@
 package ca.uhn.fhir.jpa.dao.dstu3;
 
 import ca.uhn.fhir.jpa.term.TermReindexingSvcImpl;
-import ca.uhn.fhir.util.TestUtil;
 import org.apache.commons.io.IOUtils;
 import org.hl7.fhir.dstu3.model.CodeSystem;
 import org.hl7.fhir.dstu3.model.Enumerations;
@@ -13,6 +12,8 @@ import java.nio.charset.StandardCharsets;
 
 import static org.junit.jupiter.api.Assertions.assertEquals;
 import static org.junit.jupiter.api.Assertions.assertNotEquals;
+import static org.junit.jupiter.api.Assertions.assertNotNull;
+import static org.junit.jupiter.api.Assertions.fail;
 
 public class FhirResourceDaoDstu3CodeSystemTest extends BaseJpaDstu3Test {
 	@AfterAll
@@ -77,5 +78,17 @@ public class FhirResourceDaoDstu3CodeSystemTest extends BaseJpaDstu3Test {
 
 	}
 
+	@Test
+	public void testValidateCodeForCodeSystemOperationNotSupported() {
+		try {
+			myCodeSystemDao.validateCode(null, null, null, null, null, null, null, null);
+			fail();
+		} catch (UnsupportedOperationException theE) {
+			assertNotNull(theE);
+		}
+
+	}
+
+
 
 }

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3ConceptMapTest.java

@@ -1,23 +1,32 @@
 package ca.uhn.fhir.jpa.dao.dstu3;
 
-import ca.uhn.fhir.jpa.api.model.TranslationMatch;
-import ca.uhn.fhir.jpa.api.model.TranslationRequest;
-import ca.uhn.fhir.jpa.api.model.TranslationResult;
-import ca.uhn.fhir.util.TestUtil;
+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 java.util.List;
+import java.util.Optional;
+
 import org.hl7.fhir.dstu3.model.ConceptMap;
+import org.hl7.fhir.dstu3.model.Enumerations.PublicationStatus;
 import org.hl7.fhir.instance.model.api.IIdType;
 import org.hl7.fhir.r4.model.Coding;
 import org.hl7.fhir.r4.model.Enumerations;
 import org.hl7.fhir.r4.model.UriType;
-import org.junit.jupiter.api.AfterAll;
 import org.junit.jupiter.api.BeforeEach;
 import org.junit.jupiter.api.Test;
+import org.springframework.data.domain.PageRequest;
+import org.springframework.data.domain.Pageable;
 import org.springframework.transaction.TransactionStatus;
 import org.springframework.transaction.annotation.Transactional;
 import org.springframework.transaction.support.TransactionCallbackWithoutResult;
 import org.springframework.transaction.support.TransactionTemplate;
 
-import static org.junit.jupiter.api.Assertions.*;
+import ca.uhn.fhir.jpa.api.model.TranslationMatch;
+import ca.uhn.fhir.jpa.api.model.TranslationRequest;
+import ca.uhn.fhir.jpa.api.model.TranslationResult;
+import ca.uhn.fhir.jpa.entity.TermConceptMap;
 
 public class FhirResourceDaoDstu3ConceptMapTest extends BaseJpaDstu3Test {
 	private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(FhirResourceDaoDstu3ConceptMapTest.class);
@@ -98,4 +107,74 @@ public class FhirResourceDaoDstu3ConceptMapTest extends BaseJpaDstu3Test {
 		});
 	}
 
+	@Test
+	public void testConceptMapFindTermConceptMapByUrl() {
+			
+		Pageable page = PageRequest.of(0, 1);
+		List<TermConceptMap> theExpConceptMapList = myTermConceptMapDao.getTermConceptMapEntitiesByUrlOrderByMostRecentUpdate(page, CM_URL);
+		assertEquals(1, theExpConceptMapList.size());
+		assertEquals(CM_URL, theExpConceptMapList.get(0).getUrl());
+		
+	}
+
+	@Test
+	public void testConceptMapTwoConceptMapWithSameUrlDifferentVersion() {
+				
+		String theUrl = "http://loinc.org/property/analyte-suffix";
+		ConceptMap theConceptMap1 = new ConceptMap();
+		ConceptMap theConceptMap2 = new ConceptMap();
+		
+		theConceptMap1.setUrl(theUrl).setStatus(PublicationStatus.ACTIVE).setName("name1").setVersion("v1");
+		theConceptMap2.setUrl(theUrl).setStatus(PublicationStatus.ACTIVE).setName("name2").setVersion("v2");
+		
+		myConceptMapDao.create(theConceptMap1);
+		myConceptMapDao.create(theConceptMap2);
+		
+		Optional<TermConceptMap> theExpConceptMapV1 = myTermConceptMapDao.findTermConceptMapByUrlAndVersion(theUrl, "v1");
+		Optional<TermConceptMap> theExpConceptMapV2 = myTermConceptMapDao.findTermConceptMapByUrlAndVersion(theUrl, "v2");
+		
+		assertTrue(theExpConceptMapV1.isPresent());
+		assertEquals(theUrl, theExpConceptMapV1.get().getUrl());
+		assertEquals("v1", theExpConceptMapV1.get().getVersion());
+		
+		assertTrue(theExpConceptMapV2.isPresent());
+		assertEquals(theUrl, theExpConceptMapV2.get().getUrl());
+		assertEquals("v2", theExpConceptMapV2.get().getVersion());
+
+		// should return the latest one which is v2
+		Pageable page = PageRequest.of(0, 1);
+		List<TermConceptMap> theExpSecondOne = myTermConceptMapDao.getTermConceptMapEntitiesByUrlOrderByMostRecentUpdate(page, theUrl);
+		
+		assertEquals(1, theExpSecondOne.size());
+		assertEquals(theUrl, theExpSecondOne.get(0).getUrl());
+		assertEquals("v2", theExpSecondOne.get(0).getVersion());
+	}
+
+	@Test
+	public void testConceptMapTwoConceptMapWithSameUrlOneWithoutVersion() {
+				
+		String theUrl = "http://loinc.org/property/analyte-suffix";
+		ConceptMap theConceptMap1 = new ConceptMap();
+		ConceptMap theConceptMap2 = new ConceptMap();
+		
+		theConceptMap1.setUrl(theUrl).setStatus(PublicationStatus.ACTIVE).setName("name1").setVersion("v1");
+		theConceptMap2.setUrl(theUrl).setStatus(PublicationStatus.ACTIVE).setName("name2");
+		
+		myConceptMapDao.create(theConceptMap1);
+		myConceptMapDao.create(theConceptMap2);
+		
+		Optional<TermConceptMap> theExpConceptMapV1 = myTermConceptMapDao.findTermConceptMapByUrlAndVersion(theUrl, "v1");
+		
+		assertTrue(theExpConceptMapV1.isPresent());
+		assertEquals(theUrl, theExpConceptMapV1.get().getUrl());
+		assertEquals("v1", theExpConceptMapV1.get().getVersion());
+		
+		// should return the latest one which in this case is not versioned
+		Pageable page = PageRequest.of(0, 1);
+		List<TermConceptMap> theExpSecondOne = myTermConceptMapDao.getTermConceptMapEntitiesByUrlOrderByMostRecentUpdate(page, theUrl);
+		
+		assertEquals(1, theExpSecondOne.size());
+		assertEquals(theUrl, theExpSecondOne.get(0).getUrl());
+		assertNull(theExpSecondOne.get(0).getVersion());
+	}	
 }

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3TerminologyTest.java

@@ -80,6 +80,7 @@ public class FhirResourceDaoDstu3TerminologyTest extends BaseJpaDstu3Test {
 	private CodeSystem createExternalCs() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		codeSystem.setName("ACME Codes");
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
@@ -124,6 +125,7 @@ public class FhirResourceDaoDstu3TerminologyTest extends BaseJpaDstu3Test {
 	private void createExternalCsLarge() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 
@@ -165,6 +167,7 @@ public class FhirResourceDaoDstu3TerminologyTest extends BaseJpaDstu3Test {
 	private CodeSystem createExternalCsDogs() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 
@@ -698,6 +701,7 @@ public class FhirResourceDaoDstu3TerminologyTest extends BaseJpaDstu3Test {
 	public void testLookupSnomed() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl("http://snomed.info/sct");
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3ValueSetMultiVersionTest.java

@@ -0,0 +1,222 @@
+package ca.uhn.fhir.jpa.dao.dstu3;
+
+import ca.uhn.fhir.jpa.api.model.DaoMethodOutcome;
+import ca.uhn.fhir.jpa.dao.data.ITermValueSetConceptDao;
+import ca.uhn.fhir.jpa.entity.TermValueSet;
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
+import org.hl7.fhir.dstu3.model.CodeSystem;
+import org.hl7.fhir.dstu3.model.ValueSet;
+import org.junit.jupiter.api.Test;
+import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.data.domain.PageRequest;
+
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.Map;
+import java.util.Optional;
+import java.util.Set;
+
+import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.assertNotNull;
+import static org.junit.jupiter.api.Assertions.assertTrue;
+import static org.junit.jupiter.api.Assertions.fail;
+
+public class FhirResourceDaoDstu3ValueSetMultiVersionTest extends BaseJpaDstu3Test {
+
+	public static final String URL_MY_VALUE_SET = "http://example.com/my_value_set";
+	public static final String URL_MY_CODE_SYSTEM = "http://example.com/my_code_system";
+
+	private enum ValueSetVersions { NULL, V1, V2 }
+
+	@Autowired
+	protected ITermValueSetConceptDao myTermValueSetConceptDao;
+
+	private DaoMethodOutcome createLocalCsAndVs(String theVersion, Set<String> theCodeSystemCodes) {
+		CodeSystem codeSystem = new CodeSystem();
+		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion(theVersion);
+		codeSystem.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		for (String codeSystemCode : theCodeSystemCodes) {
+			codeSystem.addConcept().setCode(codeSystemCode);
+		}
+		myCodeSystemDao.create(codeSystem, mySrd);
+
+		return createLocalVs(codeSystem, theVersion);
+
+	}
+
+	private DaoMethodOutcome createLocalVs(CodeSystem theCodeSystem, String theVersion) {
+		ValueSet valueSet = new ValueSet();
+		valueSet.setUrl(URL_MY_VALUE_SET);
+		valueSet.setVersion(theVersion);
+		if (theVersion == null) {
+			valueSet.setName("ValueSet_noVersion");
+		} else {
+			valueSet.setName("ValueSet_"+theVersion);
+		}
+		valueSet.getCompose().addInclude().setSystem(theCodeSystem.getUrl());
+		return myValueSetDao.create(valueSet, mySrd);
+	}
+
+	private Map<ValueSetVersions, DaoMethodOutcome> createVersionedValueSets() {
+
+		HashMap<ValueSetVersions, DaoMethodOutcome> valueSets = new HashMap<>();
+
+		Set<String> valueSetConcepts_noVersion = new HashSet<>();
+		valueSetConcepts_noVersion.add("hello");
+		valueSetConcepts_noVersion.add("goodbye");
+		valueSets.put(ValueSetVersions.NULL, createLocalCsAndVs(null, valueSetConcepts_noVersion));
+
+		Set<String> valueSetConcepts_v1 = new HashSet<>(valueSetConcepts_noVersion);
+		valueSetConcepts_v1.add("hi");
+		valueSets.put(ValueSetVersions.V1, createLocalCsAndVs("v1", valueSetConcepts_v1));
+
+		Set<String> valueSetConcepts_v2 = new HashSet<>(valueSetConcepts_v1);
+		valueSetConcepts_v2.add("so-long");
+		valueSets.put(ValueSetVersions.V2, createLocalCsAndVs("v2", valueSetConcepts_v2));
+
+		return valueSets;
+	}
+
+	@Test
+	public void testCreateVersionedValueSets() {
+		Map<ValueSetVersions, DaoMethodOutcome> myValueSets = createVersionedValueSets();
+
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		Optional<TermValueSet> optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		assertTrue(optionalTermValueSet.isPresent());
+		Long nullVersion_resid = ((ResourceTable)myValueSets.get(ValueSetVersions.NULL).getEntity()).getId();
+		assertNotNull(nullVersion_resid);
+		assertNotNull(optionalTermValueSet.get().getResource());
+		assertEquals(nullVersion_resid, optionalTermValueSet.get().getResource().getId());
+		assertEquals("ValueSet_noVersion", optionalTermValueSet.get().getName());
+
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1");
+		assertTrue(optionalTermValueSet.isPresent());
+		Long v1Version_resid = ((ResourceTable)myValueSets.get(ValueSetVersions.V1).getEntity()).getId();
+		assertNotNull(v1Version_resid);
+		assertNotNull(optionalTermValueSet.get().getResource());
+		assertEquals(v1Version_resid, optionalTermValueSet.get().getResource().getId());
+		assertEquals("ValueSet_v1", optionalTermValueSet.get().getName());
+
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2");
+		assertTrue(optionalTermValueSet.isPresent());
+		Long v2Version_resid = ((ResourceTable)myValueSets.get(ValueSetVersions.V2).getEntity()).getId();
+		assertNotNull(v2Version_resid);
+		assertNotNull(optionalTermValueSet.get().getResource());
+		assertEquals(v2Version_resid, optionalTermValueSet.get().getResource().getId());
+		assertEquals("ValueSet_v2", optionalTermValueSet.get().getName());
+
+	}
+
+	@Test
+	public void testUpdateVersionedValueSets() {
+		Map<ValueSetVersions, DaoMethodOutcome> myValueSets = createVersionedValueSets();
+
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		TermValueSet termValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET).orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " with null version"));
+		assertEquals("ValueSet_noVersion", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		assertEquals("ValueSet_v1", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+		assertEquals("ValueSet_v2", termValueSet.getName());
+
+		// Update ValueSets
+		ValueSet updated = (ValueSet)myValueSets.get(ValueSetVersions.NULL).getResource();
+		updated.setName("ValueSet_noVersion_updated");
+		DaoMethodOutcome nullVersion_update_outcome = myValueSetDao.update(updated);
+		Long nullVersion_resid = ((ResourceTable)nullVersion_update_outcome.getEntity()).getId();
+
+		updated = (ValueSet)myValueSets.get(ValueSetVersions.V1).getResource();
+		updated.setName("ValueSet_v1_updated");
+		DaoMethodOutcome v1Version_update_outcome = myValueSetDao.update(updated);
+		Long v1Version_resid = ((ResourceTable)v1Version_update_outcome.getEntity()).getId();
+
+		updated = (ValueSet)myValueSets.get(ValueSetVersions.V2).getResource();
+		updated.setName("ValueSet_v2_updated");
+		DaoMethodOutcome v2Version_update_outcome = myValueSetDao.update(updated);
+		Long v2Version_resid = ((ResourceTable)v2Version_update_outcome.getEntity()).getId();
+
+		// Verify that ValueSets were updated.
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET).orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " with null version"));
+		assertNotNull(nullVersion_resid);
+		assertNotNull(termValueSet.getResource());
+		assertEquals(nullVersion_resid, termValueSet.getResource().getId());
+		assertEquals("ValueSet_noVersion_updated", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		assertNotNull(v1Version_resid);
+		assertNotNull(termValueSet.getResource());
+		assertEquals(v1Version_resid, termValueSet.getResource().getId());
+		assertEquals("ValueSet_v1_updated", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+		assertNotNull(v2Version_resid);
+		assertNotNull(termValueSet.getResource());
+		assertEquals(v2Version_resid, termValueSet.getResource().getId());
+		assertEquals("ValueSet_v2_updated", termValueSet.getName());
+
+	}
+
+	@Test
+	public void testDeleteVersionedValueSets() {
+		Map<ValueSetVersions, DaoMethodOutcome> myValueSets = createVersionedValueSets();
+
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		TermValueSet termValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET).orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " with null version"));
+		assertEquals("ValueSet_noVersion", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		assertEquals("ValueSet_v1", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+		assertEquals("ValueSet_v2", termValueSet.getName());
+
+		// Delete ValueSets
+		myValueSetDao.delete(myValueSets.get(ValueSetVersions.NULL).getResource().getIdElement());
+		assertEquals(2, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+		Optional<TermValueSet> optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+
+		myValueSetDao.delete(myValueSets.get(ValueSetVersions.V1).getResource().getIdElement());
+		assertEquals(1, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1");
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+
+		myValueSetDao.delete(myValueSets.get(ValueSetVersions.V2).getResource().getIdElement());
+		assertEquals(0, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1");
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2");
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+
+	}
+
+
+}

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3ValueSetTest.java

@@ -22,6 +22,7 @@ import org.springframework.transaction.annotation.Transactional;
 
 import java.io.IOException;
 
+import static org.awaitility.Awaitility.await;
 import static org.hamcrest.MatcherAssert.assertThat;
 import static org.hamcrest.Matchers.containsString;
 import static org.hamcrest.Matchers.not;
@@ -76,6 +77,7 @@ public class FhirResourceDaoDstu3ValueSetTest extends BaseJpaDstu3Test {
 		validationOutcome = myValueSetDao.validateCode(vsIdentifier, null, code, system, null, null, null, mySrd);
 		assertEquals(false, validationOutcome.isOk());
 
+		await().until(() -> clearDeferredStorageQueue());
 		myTermSvc.preExpandDeferredValueSetsToTerminologyTables();
 
 		runInTransaction(() -> {
@@ -95,6 +97,16 @@ public class FhirResourceDaoDstu3ValueSetTest extends BaseJpaDstu3Test {
 
 	}
 
+	private boolean clearDeferredStorageQueue() {
+
+		if(!myTerminologyDeferredStorageSvc.isStorageQueueEmpty()) {
+			myTerminologyDeferredStorageSvc.saveAllDeferred();
+			return false;
+		} else {
+			return true;
+		}
+
+	}
 
 	@Test
 	@Disabled

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/BaseJpaR4Test.java

@@ -64,7 +64,6 @@ import ca.uhn.fhir.jpa.search.IStaleSearchDeletingSvc;
 import ca.uhn.fhir.jpa.search.reindex.IResourceReindexingSvc;
 import ca.uhn.fhir.jpa.search.warm.ICacheWarmingSvc;
 import ca.uhn.fhir.jpa.searchparam.registry.SearchParamRegistryImpl;
-import ca.uhn.fhir.jpa.subscription.match.registry.SubscriptionRegistry;
 import ca.uhn.fhir.jpa.term.BaseTermReadSvcImpl;
 import ca.uhn.fhir.jpa.term.TermDeferredStorageSvcImpl;
 import ca.uhn.fhir.jpa.term.api.ITermCodeSystemStorageSvc;
@@ -81,7 +80,6 @@ import ca.uhn.fhir.rest.server.BasePagingProvider;
 import ca.uhn.fhir.rest.server.interceptor.IServerInterceptor;
 import ca.uhn.fhir.rest.server.provider.ResourceProviderFactory;
 import ca.uhn.fhir.test.utilities.ITestDataBuilder;
-import ca.uhn.fhir.util.TestUtil;
 import ca.uhn.fhir.util.UrlUtil;
 import ca.uhn.fhir.validation.FhirValidator;
 import ca.uhn.fhir.validation.ValidationResult;

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4CodeSystemTest.java

@@ -1,5 +1,6 @@
 package ca.uhn.fhir.jpa.dao.r4;
 
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.jpa.term.TermReindexingSvcImpl;
 import org.apache.commons.io.IOUtils;
 import org.hl7.fhir.instance.model.api.IIdType;
@@ -8,6 +9,7 @@ import org.junit.jupiter.api.AfterAll;
 import org.junit.jupiter.api.Test;
 
 import java.nio.charset.StandardCharsets;
+import java.util.List;
 
 import static org.junit.jupiter.api.Assertions.assertEquals;
 import static org.junit.jupiter.api.Assertions.assertNotEquals;
@@ -35,15 +37,7 @@ public class FhirResourceDaoR4CodeSystemTest extends BaseJpaR4Test {
 	@Test
 	public void testDeleteLargeCompleteCodeSystem() {
 
-		CodeSystem cs = new CodeSystem();
-		cs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
-		cs.setUrl("http://foo");
-		for (int i = 0; i < 222; i++) {
-			cs.addConcept().setCode("CODE" + i);
-		}
-		IIdType id = myCodeSystemDao.create(cs).getId().toUnqualifiedVersionless();
-		myTerminologyDeferredStorageSvc.saveDeferred();
-		myTerminologyDeferredStorageSvc.saveDeferred();
+		IIdType id = createLargeCodeSystem(null);
 
 		runInTransaction(() -> {
 			assertEquals(1, myTermCodeSystemDao.count());
@@ -65,13 +59,129 @@ public class FhirResourceDaoR4CodeSystemTest extends BaseJpaR4Test {
 		// Now the background scheduler will do its thing
 		myTerminologyDeferredStorageSvc.saveDeferred();
 		runInTransaction(() -> {
-			assertEquals(0, myTermCodeSystemDao.count());
+			assertEquals(1, myTermCodeSystemDao.count());
 			assertEquals(0, myTermCodeSystemVersionDao.count());
 			assertEquals(0, myTermConceptDao.count());
 		});
 
 	}
 
+	@Test
+	public void testDeleteCodeSystemVersion() {
+
+		// Create code system with two versions.
+		IIdType id_first = createLargeCodeSystem("1");
+
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNotNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(1, myTermCodeSystemVersionDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(222, myTermConceptDao.count());
+			assertEquals(1, resourceList.size());
+			assertNull(resourceList.get(0).getDeleted());
+		});
+
+		IIdType id_second = createLargeCodeSystem("2");
+
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNotNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(2, myTermCodeSystemVersionDao.count());
+			assertEquals(444, myTermConceptDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(2, resourceList.size());
+			long active = resourceList
+				.stream()
+				.filter(t -> t.getDeleted() == null).count();
+			assertEquals(2, active);
+		});
+
+		// Attempt to delete first version
+		myCodeSystemDao.delete(id_first, mySrd);
+
+		// Only the resource will be deleted initially
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNotNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(2, myTermCodeSystemVersionDao.count());
+			assertEquals(444, myTermConceptDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(2, resourceList.size());
+			long active = resourceList
+				.stream()
+				.filter(t -> t.getDeleted() == null).count();
+			assertEquals(1, active);
+		});
+
+		// Now the background scheduler will do its thing
+		myTerminologyDeferredStorageSvc.saveDeferred();
+
+		// Entities for first resource should be gone now.
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNotNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(1, myTermCodeSystemVersionDao.count());
+			assertEquals(222, myTermConceptDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(2, resourceList.size());
+			long active = resourceList
+				.stream()
+				.filter(t -> t.getDeleted() == null).count();
+			assertEquals(1, active);
+		});
+
+		// Attempt to delete second version
+		myCodeSystemDao.delete(id_second, mySrd);
+
+		// Only the resource will be deleted initially, but the URL for the TermCodeSystem will be cleared and not searchable.
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(1, myTermCodeSystemVersionDao.count());
+			assertEquals(222,  myTermConceptDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(2, resourceList.size());
+			long active = resourceList
+				.stream()
+				.filter(t -> t.getDeleted() == null).count();
+			assertEquals(0, active);
+		});
+
+		// Now the background scheduler will do its thing
+		myTerminologyDeferredStorageSvc.saveDeferred();
+
+		// The remaining versions and Code System entities should be gone now.
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(0, myTermCodeSystemVersionDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(2, resourceList.size());
+			long active = resourceList
+				.stream()
+				.filter(t -> t.getDeleted() == null).count();
+			assertEquals(0, active);
+		});
+
+	}
+
+	private IIdType createLargeCodeSystem(String theVersion) {
+		CodeSystem cs = new CodeSystem();
+		cs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		cs.setUrl("http://foo");
+		if (theVersion != null) {
+			cs.setVersion(theVersion);
+		}
+		for (int i = 0; i < 222; i++) {
+			cs.addConcept().setCode("CODE" + i);
+		}
+		IIdType id = myCodeSystemDao.create(cs).getId().toUnqualifiedVersionless();
+		myTerminologyDeferredStorageSvc.saveDeferred();
+		myTerminologyDeferredStorageSvc.saveDeferred();
+		return id;
+	}
+
 	@AfterAll
 	public static void afterClassClearContext() {
 		TermReindexingSvcImpl.setForceSaveDeferredAlwaysForUnitTest(false);

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConceptMapTest.java

@@ -1,31 +1,37 @@
 package ca.uhn.fhir.jpa.dao.r4;
 
-import ca.uhn.fhir.jpa.api.model.TranslationMatch;
-import ca.uhn.fhir.jpa.api.model.TranslationRequest;
-import ca.uhn.fhir.jpa.api.model.TranslationResult;
-import ca.uhn.fhir.util.TestUtil;
+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 java.io.IOException;
+import java.util.List;
+import java.util.Optional;
+
 import org.hl7.fhir.instance.model.api.IIdType;
 import org.hl7.fhir.r4.model.CanonicalType;
 import org.hl7.fhir.r4.model.CodeableConcept;
 import org.hl7.fhir.r4.model.Coding;
 import org.hl7.fhir.r4.model.ConceptMap;
 import org.hl7.fhir.r4.model.Enumerations.ConceptMapEquivalence;
+import org.hl7.fhir.r4.model.Enumerations.PublicationStatus;
 import org.hl7.fhir.r4.model.UriType;
-import org.junit.jupiter.api.AfterAll;
 import org.junit.jupiter.api.BeforeEach;
 import org.junit.jupiter.api.Test;
 import org.slf4j.Logger;
 import org.slf4j.LoggerFactory;
+import org.springframework.data.domain.PageRequest;
+import org.springframework.data.domain.Pageable;
 import org.springframework.transaction.TransactionStatus;
 import org.springframework.transaction.annotation.Transactional;
 import org.springframework.transaction.support.TransactionCallbackWithoutResult;
 import org.springframework.transaction.support.TransactionTemplate;
 
-import java.io.IOException;
-
-import static org.junit.jupiter.api.Assertions.assertEquals;
-import static org.junit.jupiter.api.Assertions.assertFalse;
-import static org.junit.jupiter.api.Assertions.assertTrue;
+import ca.uhn.fhir.jpa.api.model.TranslationMatch;
+import ca.uhn.fhir.jpa.api.model.TranslationRequest;
+import ca.uhn.fhir.jpa.api.model.TranslationResult;
+import ca.uhn.fhir.jpa.entity.TermConceptMap;
 
 public class FhirResourceDaoR4ConceptMapTest extends BaseJpaR4Test {
 	private static final Logger ourLog = LoggerFactory.getLogger(FhirResourceDaoR4ConceptMapTest.class);
@@ -1148,5 +1154,74 @@ public class FhirResourceDaoR4ConceptMapTest extends BaseJpaR4Test {
 		assertEquals("S52.209A", outcome.getMatches().get(0).getConcept().getCode());
 	}
 
+	@Test
+	public void testConceptMapFindTermConceptMapByUrl() {
+			
+		Pageable page = PageRequest.of(0, 1);
+		List<TermConceptMap> theExpConceptMapList = myTermConceptMapDao.getTermConceptMapEntitiesByUrlOrderByMostRecentUpdate(page, CM_URL);
+		assertEquals(1, theExpConceptMapList.size());
+		assertEquals(CM_URL, theExpConceptMapList.get(0).getUrl());
+		
+	}
 
+	@Test
+	public void testConceptMapTwoConceptMapWithSameUrlDifferentVersion() {
+				
+		String theUrl = "http://loinc.org/property/analyte-suffix";
+		ConceptMap theConceptMap1 = new ConceptMap();
+		ConceptMap theConceptMap2 = new ConceptMap();
+		
+		theConceptMap1.setUrl(theUrl).setStatus(PublicationStatus.ACTIVE).setName("name1").setVersion("v1");
+		theConceptMap2.setUrl(theUrl).setStatus(PublicationStatus.ACTIVE).setName("name2").setVersion("v2");
+		
+		myConceptMapDao.create(theConceptMap1);
+		myConceptMapDao.create(theConceptMap2);
+		
+		Optional<TermConceptMap> theExpConceptMapV1 = myTermConceptMapDao.findTermConceptMapByUrlAndVersion(theUrl, "v1");
+		Optional<TermConceptMap> theExpConceptMapV2 = myTermConceptMapDao.findTermConceptMapByUrlAndVersion(theUrl, "v2");
+		
+		assertTrue(theExpConceptMapV1.isPresent());
+		assertEquals(theUrl, theExpConceptMapV1.get().getUrl());
+		assertEquals("v1", theExpConceptMapV1.get().getVersion());
+		
+		assertTrue(theExpConceptMapV2.isPresent());
+		assertEquals(theUrl, theExpConceptMapV2.get().getUrl());
+		assertEquals("v2", theExpConceptMapV2.get().getVersion());
+
+		// should return the latest one which is v2
+		Pageable page = PageRequest.of(0, 1);
+		List<TermConceptMap> theExpSecondOne = myTermConceptMapDao.getTermConceptMapEntitiesByUrlOrderByMostRecentUpdate(page, theUrl);
+		
+		assertEquals(1, theExpSecondOne.size());
+		assertEquals(theUrl, theExpSecondOne.get(0).getUrl());
+		assertEquals("v2", theExpSecondOne.get(0).getVersion());
+	}
+
+	@Test
+	public void testConceptMapTwoConceptMapWithSameUrlOneWithoutVersion() {
+				
+		String theUrl = "http://loinc.org/property/analyte-suffix";
+		ConceptMap theConceptMap1 = new ConceptMap();
+		ConceptMap theConceptMap2 = new ConceptMap();
+		
+		theConceptMap1.setUrl(theUrl).setStatus(PublicationStatus.ACTIVE).setName("name1").setVersion("v1");
+		theConceptMap2.setUrl(theUrl).setStatus(PublicationStatus.ACTIVE).setName("name2");
+		
+		myConceptMapDao.create(theConceptMap1);
+		myConceptMapDao.create(theConceptMap2);
+		
+		Optional<TermConceptMap> theExpConceptMapV1 = myTermConceptMapDao.findTermConceptMapByUrlAndVersion(theUrl, "v1");
+		
+		assertTrue(theExpConceptMapV1.isPresent());
+		assertEquals(theUrl, theExpConceptMapV1.get().getUrl());
+		assertEquals("v1", theExpConceptMapV1.get().getVersion());
+		
+		// should return the latest one which is v2
+		Pageable page = PageRequest.of(0, 1);
+		List<TermConceptMap> theExpSecondOne = myTermConceptMapDao.getTermConceptMapEntitiesByUrlOrderByMostRecentUpdate(page, theUrl);
+		
+		assertEquals(1, theExpSecondOne.size());
+		assertEquals(theUrl, theExpSecondOne.get(0).getUrl());
+		assertNull(theExpSecondOne.get(0).getVersion());
+	}
 }

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4SearchWithElasticSearchIT.java

@@ -209,6 +209,7 @@ public class FhirResourceDaoR4SearchWithElasticSearchIT extends BaseJpaTest {
 	private CodeSystem createExternalCs() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystem.CodeSystemContentMode.NOTPRESENT);
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4SearchWithLuceneDisabledTest.java

@@ -337,6 +337,34 @@ public class FhirResourceDaoR4SearchWithLuceneDisabledTest extends BaseJpaTest {
 
 	}
 
+	@Test
+	public void testExpandValueSetContainingSystemIncludeAndExcludeWithNoCodes() throws IOException {
+		CodeSystem cs = loadResourceFromClasspath(CodeSystem.class, "/r4/iar/CodeSystem-iar-citizenship-status.xml");
+		myCodeSystemDao.create(cs);
+
+		ValueSet vs = loadResourceFromClasspath(ValueSet.class, "/r4/iar/ValueSet-iar-citizenship-status.xml");
+		ValueSet.ConceptSetComponent excludeComponent = new ValueSet.ConceptSetComponent().setSystem("http://ccim.on.ca/fhir/iar/CodeSystem/iar-citizenship-status");
+		excludeComponent.addConcept().setCode("REF");
+		vs.getCompose().addExclude(excludeComponent);
+		myValueSetDao.create(vs);
+
+		CodeSystem cs2 = loadResourceFromClasspath(CodeSystem.class, "/extensional-case-3-cs.xml");
+		myCodeSystemDao.create(cs2);
+
+		ValueSet vs2 = loadResourceFromClasspath(ValueSet.class, "/extensional-case-3-vs-with-exclude.xml");
+		myValueSetDao.create(vs2);
+
+		ValueSet expansion = myValueSetDao.expandByIdentifier("http://ccim.on.ca/fhir/iar/ValueSet/iar-citizenship-status", null);
+		ourLog.info(myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(expansion));
+
+		assertEquals(5, expansion.getExpansion().getContains().size());
+
+		ValueSet expansion2 = myValueSetDao.expandByIdentifier("http://www.healthintersections.com.au/fhir/ValueSet/extensional-case-2", null);
+		ourLog.info(myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(expansion2));
+
+		assertEquals(22, expansion2.getExpansion().getContains().size());
+
+	}
 
 
 }

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4TerminologyElasticsearchIT.java

@@ -85,6 +85,7 @@ public class FhirResourceDaoR4TerminologyElasticsearchIT extends BaseJpaTest {
 	public void testExpandWithIncludeContainingDashesInInclude() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4TerminologyTest.java

@@ -80,6 +80,7 @@ public class FhirResourceDaoR4TerminologyTest extends BaseJpaR4Test {
 	private CodeSystem createExternalCs() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 
@@ -129,6 +130,7 @@ public class FhirResourceDaoR4TerminologyTest extends BaseJpaR4Test {
 	private CodeSystem createExternalCsDogs() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 
@@ -159,6 +161,7 @@ public class FhirResourceDaoR4TerminologyTest extends BaseJpaR4Test {
 	private void createExternalCsLarge() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 
@@ -232,6 +235,7 @@ public class FhirResourceDaoR4TerminologyTest extends BaseJpaR4Test {
 
 	@Test
 	public void testCodeSystemCreateDuplicateFails() {
+		// No version.
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
 		codeSystem.setContent(CodeSystemContentMode.COMPLETE);
@@ -246,6 +250,25 @@ public class FhirResourceDaoR4TerminologyTest extends BaseJpaR4Test {
 		} catch (UnprocessableEntityException e) {
 			assertEquals("Can not create multiple CodeSystem resources with CodeSystem.url \"http://example.com/my_code_system\", already have one with resource ID: CodeSystem/" + id.getIdPart(), e.getMessage());
 		}
+
+		// With version.
+		codeSystem = new CodeSystem();
+		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("1");
+		codeSystem.setContent(CodeSystemContentMode.COMPLETE);
+		id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
+
+		codeSystem = new CodeSystem();
+		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("1");
+		codeSystem.setContent(CodeSystemContentMode.COMPLETE);
+		try {
+			myCodeSystemDao.create(codeSystem, mySrd);
+			fail();
+		} catch (UnprocessableEntityException e) {
+			assertEquals("Can not create multiple CodeSystem resources with CodeSystem.url \"http://example.com/my_code_system\" and CodeSystem.version \"1\", already have one with resource ID: CodeSystem/" + id.getIdPart(), e.getMessage());
+		}
+
 	}
 
 	@Test
@@ -473,6 +496,7 @@ public class FhirResourceDaoR4TerminologyTest extends BaseJpaR4Test {
 	public void testExpandWithIncludeContainingDashesInInclude() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 
@@ -815,6 +839,7 @@ public class FhirResourceDaoR4TerminologyTest extends BaseJpaR4Test {
 	public void testLookupSnomed() {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl("http://snomed.info/sct");
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ValidateTest.java

@@ -9,8 +9,6 @@ import ca.uhn.fhir.jpa.entity.TermValueSet;
 import ca.uhn.fhir.jpa.entity.TermValueSetPreExpansionStatusEnum;
 import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.jpa.term.BaseTermReadSvcImpl;
-import ca.uhn.fhir.jpa.term.TerminologyLoaderSvcLoincTest;
-import ca.uhn.fhir.jpa.term.ZipCollectionBuilder;
 import ca.uhn.fhir.jpa.term.api.ITermCodeSystemStorageSvc;
 import ca.uhn.fhir.jpa.term.api.ITermLoaderSvc;
 import ca.uhn.fhir.jpa.term.api.ITermReadSvc;
@@ -80,7 +78,6 @@ import static org.hamcrest.Matchers.containsString;
 import static org.hamcrest.Matchers.not;
 import static org.junit.jupiter.api.Assertions.assertEquals;
 import static org.junit.jupiter.api.Assertions.assertFalse;
-import static org.junit.jupiter.api.Assertions.assertTrue;
 import static org.junit.jupiter.api.Assertions.fail;
 import static org.mockito.ArgumentMatchers.any;
 import static org.mockito.Mockito.mock;

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ValueSetMultiVersionTest.java

@@ -0,0 +1,246 @@
+package ca.uhn.fhir.jpa.dao.r4;
+
+import ca.uhn.fhir.jpa.api.model.DaoMethodOutcome;
+import ca.uhn.fhir.jpa.dao.data.ITermValueSetConceptDao;
+import ca.uhn.fhir.jpa.entity.TermValueSet;
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
+import ca.uhn.fhir.rest.server.exceptions.PreconditionFailedException;
+import org.hl7.fhir.r4.model.CodeSystem;
+import org.hl7.fhir.r4.model.ValueSet;
+import org.junit.jupiter.api.Test;
+import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.data.domain.PageRequest;
+
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.Map;
+import java.util.Optional;
+import java.util.Set;
+
+import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.assertNotNull;
+import static org.junit.jupiter.api.Assertions.assertTrue;
+import static org.junit.jupiter.api.Assertions.fail;
+
+public class FhirResourceDaoR4ValueSetMultiVersionTest extends BaseJpaR4Test {
+
+	public static final String URL_MY_VALUE_SET = "http://example.com/my_value_set";
+	public static final String URL_MY_CODE_SYSTEM = "http://example.com/my_code_system";
+
+	private enum ValueSetVersions { NULL, V1, V2 }
+
+	@Autowired
+	protected ITermValueSetConceptDao myTermValueSetConceptDao;
+
+	private DaoMethodOutcome createLocalCsAndVs(String theVersion, Set<String> theCodeSystemCodes) {
+		CodeSystem codeSystem = new CodeSystem();
+		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion(theVersion);
+		codeSystem.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		for (String codeSystemCode : theCodeSystemCodes) {
+			codeSystem.addConcept().setCode(codeSystemCode);
+		}
+		myCodeSystemDao.create(codeSystem, mySrd);
+
+		return createLocalVs(codeSystem, theVersion);
+
+	}
+
+	private DaoMethodOutcome createLocalVs(CodeSystem theCodeSystem, String theVersion) {
+		ValueSet valueSet = new ValueSet();
+		valueSet.setUrl(URL_MY_VALUE_SET);
+		valueSet.setVersion(theVersion);
+		if (theVersion == null) {
+			valueSet.setName("ValueSet_noVersion");
+		} else {
+			valueSet.setName("ValueSet_"+theVersion);
+		}
+		valueSet.getCompose().addInclude().setSystem(theCodeSystem.getUrl());
+		return myValueSetDao.create(valueSet, mySrd);
+	}
+
+	private Map<ValueSetVersions, DaoMethodOutcome> createVersionedValueSets() {
+
+		HashMap<ValueSetVersions, DaoMethodOutcome> valueSets = new HashMap<>();
+
+		Set<String> valueSetConcepts_noVersion = new HashSet<>();
+		valueSetConcepts_noVersion.add("hello");
+		valueSetConcepts_noVersion.add("goodbye");
+		valueSets.put(ValueSetVersions.NULL, createLocalCsAndVs(null, valueSetConcepts_noVersion));
+
+		Set<String> valueSetConcepts_v1 = new HashSet<>(valueSetConcepts_noVersion);
+		valueSetConcepts_v1.add("hi");
+		valueSets.put(ValueSetVersions.V1, createLocalCsAndVs("v1", valueSetConcepts_v1));
+
+		Set<String> valueSetConcepts_v2 = new HashSet<>(valueSetConcepts_v1);
+		valueSetConcepts_v2.add("so-long");
+		valueSets.put(ValueSetVersions.V2, createLocalCsAndVs("v2", valueSetConcepts_v2));
+
+		return valueSets;
+	}
+
+	@Test
+	public void testCreateVersionedValueSets() {
+		Map<ValueSetVersions, DaoMethodOutcome> myValueSets = createVersionedValueSets();
+
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		Optional<TermValueSet> optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		assertTrue(optionalTermValueSet.isPresent());
+		Long nullVersion_resid = ((ResourceTable)myValueSets.get(ValueSetVersions.NULL).getEntity()).getId();
+		assertNotNull(nullVersion_resid);
+		assertNotNull(optionalTermValueSet.get().getResource());
+		assertEquals(nullVersion_resid, optionalTermValueSet.get().getResource().getId());
+		assertEquals("ValueSet_noVersion", optionalTermValueSet.get().getName());
+
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1");
+		assertTrue(optionalTermValueSet.isPresent());
+		Long v1Version_resid = ((ResourceTable)myValueSets.get(ValueSetVersions.V1).getEntity()).getId();
+		assertNotNull(v1Version_resid);
+		assertNotNull(optionalTermValueSet.get().getResource());
+		assertEquals(v1Version_resid, optionalTermValueSet.get().getResource().getId());
+		assertEquals("ValueSet_v1", optionalTermValueSet.get().getName());
+
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2");
+		assertTrue(optionalTermValueSet.isPresent());
+		Long v2Version_resid = ((ResourceTable)myValueSets.get(ValueSetVersions.V2).getEntity()).getId();
+		assertNotNull(v2Version_resid);
+		assertNotNull(optionalTermValueSet.get().getResource());
+		assertEquals(v2Version_resid, optionalTermValueSet.get().getResource().getId());
+		assertEquals("ValueSet_v2", optionalTermValueSet.get().getName());
+
+	}
+
+	@Test
+	public void testUpdateVersionedValueSets() {
+		Map<ValueSetVersions, DaoMethodOutcome> myValueSets = createVersionedValueSets();
+
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		TermValueSet termValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET).orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " with null version"));
+		assertEquals("ValueSet_noVersion", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		assertEquals("ValueSet_v1", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+		assertEquals("ValueSet_v2", termValueSet.getName());
+
+		// Update ValueSets
+		ValueSet updated = (ValueSet)myValueSets.get(ValueSetVersions.NULL).getResource();
+		updated.setName("ValueSet_noVersion_updated");
+		DaoMethodOutcome nullVersion_update_outcome = myValueSetDao.update(updated);
+		Long nullVersion_resid = ((ResourceTable)nullVersion_update_outcome.getEntity()).getId();
+
+		updated = (ValueSet)myValueSets.get(ValueSetVersions.V1).getResource();
+		updated.setName("ValueSet_v1_updated");
+		DaoMethodOutcome v1Version_update_outcome = myValueSetDao.update(updated);
+		Long v1Version_resid = ((ResourceTable)v1Version_update_outcome.getEntity()).getId();
+
+		updated = (ValueSet)myValueSets.get(ValueSetVersions.V2).getResource();
+		updated.setName("ValueSet_v2_updated");
+		DaoMethodOutcome v2Version_update_outcome = myValueSetDao.update(updated);
+		Long v2Version_resid = ((ResourceTable)v2Version_update_outcome.getEntity()).getId();
+
+		// Verify that ValueSets were updated.
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET).orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " with null version"));
+		assertNotNull(nullVersion_resid);
+		assertNotNull(termValueSet.getResource());
+		assertEquals(nullVersion_resid, termValueSet.getResource().getId());
+		assertEquals("ValueSet_noVersion_updated", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		assertNotNull(v1Version_resid);
+		assertNotNull(termValueSet.getResource());
+		assertEquals(v1Version_resid, termValueSet.getResource().getId());
+		assertEquals("ValueSet_v1_updated", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+		assertNotNull(v2Version_resid);
+		assertNotNull(termValueSet.getResource());
+		assertEquals(v2Version_resid, termValueSet.getResource().getId());
+		assertEquals("ValueSet_v2_updated", termValueSet.getName());
+
+	}
+
+	@Test
+	public void testDeleteVersionedValueSets() {
+		Map<ValueSetVersions, DaoMethodOutcome> myValueSets = createVersionedValueSets();
+
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		TermValueSet termValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET).orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " with null version"));
+		assertEquals("ValueSet_noVersion", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		assertEquals("ValueSet_v1", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+		assertEquals("ValueSet_v2", termValueSet.getName());
+
+		// Delete ValueSets
+		myValueSetDao.delete(myValueSets.get(ValueSetVersions.NULL).getResource().getIdElement());
+		assertEquals(2, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+		Optional<TermValueSet> optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+
+		myValueSetDao.delete(myValueSets.get(ValueSetVersions.V1).getResource().getIdElement());
+		assertEquals(1, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1");
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+
+		myValueSetDao.delete(myValueSets.get(ValueSetVersions.V2).getResource().getIdElement());
+		assertEquals(0, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1");
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2");
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+
+	}
+
+	@Test
+	public void testExpandWithNoResultsInLocalValueSet() {
+		Set<String> valueSetConcepts = new HashSet<>();
+		valueSetConcepts.add("hello");
+		valueSetConcepts.add("goodbye");
+
+		createLocalCsAndVs("1", valueSetConcepts);
+
+		ValueSet vs = new ValueSet();
+		ValueSet.ConceptSetComponent include = vs.getCompose().addInclude();
+		include.setSystem(URL_MY_CODE_SYSTEM + "AA");
+		include.setVersion("1");
+		include.addConcept().setCode("A");
+
+		try {
+			myValueSetDao.expand(vs, null);
+			fail();
+		} catch (PreconditionFailedException e) {
+			assertEquals("Unknown CodeSystem URI \"http://example.com/my_code_systemAA\" referenced from ValueSet", e.getMessage());
+		}
+	}
+
+
+
+}

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r5/BaseJpaR5Test.java

@@ -69,7 +69,6 @@ import ca.uhn.fhir.rest.api.EncodingEnum;
 import ca.uhn.fhir.rest.server.BasePagingProvider;
 import ca.uhn.fhir.rest.server.interceptor.IServerInterceptor;
 import ca.uhn.fhir.rest.server.provider.ResourceProviderFactory;
-import ca.uhn.fhir.util.TestUtil;
 import ca.uhn.fhir.util.UrlUtil;
 import ca.uhn.fhir.validation.FhirValidator;
 import ca.uhn.fhir.validation.ValidationResult;

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r5/FhirResourceDaoR5CodeSystemTest.java

@@ -0,0 +1,175 @@
+package ca.uhn.fhir.jpa.dao.r5;
+
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
+import ca.uhn.fhir.jpa.term.TermReindexingSvcImpl;
+import org.apache.commons.io.IOUtils;
+import org.hl7.fhir.instance.model.api.IIdType;
+import org.hl7.fhir.r5.model.CodeSystem;
+import org.junit.jupiter.api.AfterAll;
+import org.junit.jupiter.api.Test;
+
+import java.nio.charset.StandardCharsets;
+import java.util.List;
+
+import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.assertNotEquals;
+import static org.junit.jupiter.api.Assertions.assertNotNull;
+import static org.junit.jupiter.api.Assertions.assertNull;
+
+public class FhirResourceDaoR5CodeSystemTest extends BaseJpaR5Test {
+
+	@Test
+	public void testDeleteLargeCompleteCodeSystem() {
+
+		IIdType id = createLargeCodeSystem(null);
+
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNotNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(1, myTermCodeSystemVersionDao.count());
+			assertEquals(222, myTermConceptDao.count());
+		});
+
+		myCodeSystemDao.delete(id);
+
+		// Nothing is deleted initially but the URI is changed so it can't be found
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(1, myTermCodeSystemVersionDao.count());
+			assertEquals(222, myTermConceptDao.count());
+		});
+
+		// Now the background scheduler will do its thing
+		myTermDeferredStorageSvc.saveDeferred();
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertEquals(0, myTermCodeSystemVersionDao.count());
+			assertEquals(0, myTermConceptDao.count());
+		});
+
+	}
+
+	@Test
+	public void testDeleteCodeSystemVersion() {
+
+		// Create code system with two versions.
+		IIdType id_first = createLargeCodeSystem("1");
+
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNotNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(1, myTermCodeSystemVersionDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(222, myTermConceptDao.count());
+			assertEquals(1, resourceList.size());
+			assertNull(resourceList.get(0).getDeleted());
+		});
+
+		IIdType id_second = createLargeCodeSystem("2");
+
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNotNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(2, myTermCodeSystemVersionDao.count());
+			assertEquals(444, myTermConceptDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(2, resourceList.size());
+			long active = resourceList
+				.stream()
+				.filter(t -> t.getDeleted() == null).count();
+			assertEquals(2, active);
+		});
+
+		// Attempt to delete first version
+		myCodeSystemDao.delete(id_first, mySrd);
+
+		// Only the resource will be deleted initially
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNotNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(2, myTermCodeSystemVersionDao.count());
+			assertEquals(444, myTermConceptDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(2, resourceList.size());
+			long active = resourceList
+				.stream()
+				.filter(t -> t.getDeleted() == null).count();
+			assertEquals(1, active);
+		});
+
+		// Now the background scheduler will do its thing
+		myTermDeferredStorageSvc.saveDeferred();
+
+		// Entities for first resource should be gone now.
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNotNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(1, myTermCodeSystemVersionDao.count());
+			assertEquals(222, myTermConceptDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(2, resourceList.size());
+			long active = resourceList
+				.stream()
+				.filter(t -> t.getDeleted() == null).count();
+			assertEquals(1, active);
+		});
+
+		// Attempt to delete second version
+		myCodeSystemDao.delete(id_second, mySrd);
+
+		// Only the resource will be deleted initially, but the URL for the TermCodeSystem will be cleared and not searchable.
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(1, myTermCodeSystemVersionDao.count());
+			assertEquals(222,  myTermConceptDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(2, resourceList.size());
+			long active = resourceList
+				.stream()
+				.filter(t -> t.getDeleted() == null).count();
+			assertEquals(0, active);
+		});
+
+		// Now the background scheduler will do its thing
+		myTermDeferredStorageSvc.saveDeferred();
+
+		// The remaining versions and Code System entities should be gone now.
+		runInTransaction(() -> {
+			assertEquals(1, myTermCodeSystemDao.count());
+			assertNull(myTermCodeSystemDao.findByCodeSystemUri("http://foo"));
+			assertEquals(0, myTermCodeSystemVersionDao.count());
+			List<ResourceTable> resourceList = myResourceTableDao.findAll();
+			assertEquals(2, resourceList.size());
+			long active = resourceList
+				.stream()
+				.filter(t -> t.getDeleted() == null).count();
+			assertEquals(0, active);
+		});
+
+	}
+
+	private IIdType createLargeCodeSystem(String theVersion) {
+		CodeSystem cs = new CodeSystem();
+		cs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		cs.setUrl("http://foo");
+		if (theVersion != null) {
+			cs.setVersion(theVersion);
+		}
+		for (int i = 0; i < 222; i++) {
+			cs.addConcept().setCode("CODE" + i);
+		}
+		IIdType id = myCodeSystemDao.create(cs).getId().toUnqualifiedVersionless();
+		myTermDeferredStorageSvc.saveDeferred();
+		myTermDeferredStorageSvc.saveDeferred();
+		return id;
+	}
+
+	@AfterAll
+	public static void afterClassClearContext() {
+		TermReindexingSvcImpl.setForceSaveDeferredAlwaysForUnitTest(false);
+	}
+
+
+}

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r5/FhirResourceDaoR5ValueSetMultiVersionTest.java

@@ -0,0 +1,222 @@
+package ca.uhn.fhir.jpa.dao.r5;
+
+import ca.uhn.fhir.jpa.api.model.DaoMethodOutcome;
+import ca.uhn.fhir.jpa.dao.data.ITermValueSetConceptDao;
+import ca.uhn.fhir.jpa.entity.TermValueSet;
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
+import org.hl7.fhir.r5.model.CodeSystem;
+import org.hl7.fhir.r5.model.ValueSet;
+import org.junit.jupiter.api.Test;
+import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.data.domain.PageRequest;
+
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.Map;
+import java.util.Optional;
+import java.util.Set;
+
+import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.assertNotNull;
+import static org.junit.jupiter.api.Assertions.assertTrue;
+import static org.junit.jupiter.api.Assertions.fail;
+
+public class FhirResourceDaoR5ValueSetMultiVersionTest extends BaseJpaR5Test {
+
+	public static final String URL_MY_VALUE_SET = "http://example.com/my_value_set";
+	public static final String URL_MY_CODE_SYSTEM = "http://example.com/my_code_system";
+
+	private enum ValueSetVersions { NULL, V1, V2 }
+
+	@Autowired
+	protected ITermValueSetConceptDao myTermValueSetConceptDao;
+
+	private DaoMethodOutcome createLocalCsAndVs(String theVersion, Set<String> theCodeSystemCodes) {
+		CodeSystem codeSystem = new CodeSystem();
+		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion(theVersion);
+		codeSystem.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		for (String codeSystemCode : theCodeSystemCodes) {
+			codeSystem.addConcept().setCode(codeSystemCode);
+		}
+		myCodeSystemDao.create(codeSystem, mySrd);
+
+		return createLocalVs(codeSystem, theVersion);
+
+	}
+
+	private DaoMethodOutcome createLocalVs(CodeSystem theCodeSystem, String theVersion) {
+		ValueSet valueSet = new ValueSet();
+		valueSet.setUrl(URL_MY_VALUE_SET);
+		valueSet.setVersion(theVersion);
+		if (theVersion == null) {
+			valueSet.setName("ValueSet_noVersion");
+		} else {
+			valueSet.setName("ValueSet_"+theVersion);
+		}
+		valueSet.getCompose().addInclude().setSystem(theCodeSystem.getUrl());
+		return myValueSetDao.create(valueSet, mySrd);
+	}
+
+	private Map<ValueSetVersions, DaoMethodOutcome> createVersionedValueSets() {
+
+		HashMap<ValueSetVersions, DaoMethodOutcome> valueSets = new HashMap<>();
+
+		Set<String> valueSetConcepts_noVersion = new HashSet<>();
+		valueSetConcepts_noVersion.add("hello");
+		valueSetConcepts_noVersion.add("goodbye");
+		valueSets.put(ValueSetVersions.NULL, createLocalCsAndVs(null, valueSetConcepts_noVersion));
+
+		Set<String> valueSetConcepts_v1 = new HashSet<>(valueSetConcepts_noVersion);
+		valueSetConcepts_v1.add("hi");
+		valueSets.put(ValueSetVersions.V1, createLocalCsAndVs("v1", valueSetConcepts_v1));
+
+		Set<String> valueSetConcepts_v2 = new HashSet<>(valueSetConcepts_v1);
+		valueSetConcepts_v2.add("so-long");
+		valueSets.put(ValueSetVersions.V2, createLocalCsAndVs("v2", valueSetConcepts_v2));
+
+		return valueSets;
+	}
+
+	@Test
+	public void testCreateVersionedValueSets() {
+		Map<ValueSetVersions, DaoMethodOutcome> myValueSets = createVersionedValueSets();
+
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		Optional<TermValueSet> optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		assertTrue(optionalTermValueSet.isPresent());
+		Long nullVersion_resid = ((ResourceTable)myValueSets.get(ValueSetVersions.NULL).getEntity()).getId();
+		assertNotNull(nullVersion_resid);
+		assertNotNull(optionalTermValueSet.get().getResource());
+		assertEquals(nullVersion_resid, optionalTermValueSet.get().getResource().getId());
+		assertEquals("ValueSet_noVersion", optionalTermValueSet.get().getName());
+
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1");
+		assertTrue(optionalTermValueSet.isPresent());
+		Long v1Version_resid = ((ResourceTable)myValueSets.get(ValueSetVersions.V1).getEntity()).getId();
+		assertNotNull(v1Version_resid);
+		assertNotNull(optionalTermValueSet.get().getResource());
+		assertEquals(v1Version_resid, optionalTermValueSet.get().getResource().getId());
+		assertEquals("ValueSet_v1", optionalTermValueSet.get().getName());
+
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2");
+		assertTrue(optionalTermValueSet.isPresent());
+		Long v2Version_resid = ((ResourceTable)myValueSets.get(ValueSetVersions.V2).getEntity()).getId();
+		assertNotNull(v2Version_resid);
+		assertNotNull(optionalTermValueSet.get().getResource());
+		assertEquals(v2Version_resid, optionalTermValueSet.get().getResource().getId());
+		assertEquals("ValueSet_v2", optionalTermValueSet.get().getName());
+
+	}
+
+	@Test
+	public void testUpdateVersionedValueSets() {
+		Map<ValueSetVersions, DaoMethodOutcome> myValueSets = createVersionedValueSets();
+
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		TermValueSet termValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET).orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " with null version"));
+		assertEquals("ValueSet_noVersion", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		assertEquals("ValueSet_v1", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+		assertEquals("ValueSet_v2", termValueSet.getName());
+
+		// Update ValueSets
+		ValueSet updated = (ValueSet)myValueSets.get(ValueSetVersions.NULL).getResource();
+		updated.setName("ValueSet_noVersion_updated");
+		DaoMethodOutcome nullVersion_update_outcome = myValueSetDao.update(updated);
+		Long nullVersion_resid = ((ResourceTable)nullVersion_update_outcome.getEntity()).getId();
+
+		updated = (ValueSet)myValueSets.get(ValueSetVersions.V1).getResource();
+		updated.setName("ValueSet_v1_updated");
+		DaoMethodOutcome v1Version_update_outcome = myValueSetDao.update(updated);
+		Long v1Version_resid = ((ResourceTable)v1Version_update_outcome.getEntity()).getId();
+
+		updated = (ValueSet)myValueSets.get(ValueSetVersions.V2).getResource();
+		updated.setName("ValueSet_v2_updated");
+		DaoMethodOutcome v2Version_update_outcome = myValueSetDao.update(updated);
+		Long v2Version_resid = ((ResourceTable)v2Version_update_outcome.getEntity()).getId();
+
+		// Verify that ValueSets were updated.
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET).orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " with null version"));
+		assertNotNull(nullVersion_resid);
+		assertNotNull(termValueSet.getResource());
+		assertEquals(nullVersion_resid, termValueSet.getResource().getId());
+		assertEquals("ValueSet_noVersion_updated", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		assertNotNull(v1Version_resid);
+		assertNotNull(termValueSet.getResource());
+		assertEquals(v1Version_resid, termValueSet.getResource().getId());
+		assertEquals("ValueSet_v1_updated", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+		assertNotNull(v2Version_resid);
+		assertNotNull(termValueSet.getResource());
+		assertEquals(v2Version_resid, termValueSet.getResource().getId());
+		assertEquals("ValueSet_v2_updated", termValueSet.getName());
+
+	}
+
+	@Test
+	public void testDeleteVersionedValueSets() {
+		Map<ValueSetVersions, DaoMethodOutcome> myValueSets = createVersionedValueSets();
+
+		assertEquals(3, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+
+		TermValueSet termValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET).orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " with null version"));
+		assertEquals("ValueSet_noVersion", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		assertEquals("ValueSet_v1", termValueSet.getName());
+
+		termValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+		assertEquals("ValueSet_v2", termValueSet.getName());
+
+		// Delete ValueSets
+		myValueSetDao.delete(myValueSets.get(ValueSetVersions.NULL).getResource().getIdElement());
+		assertEquals(2, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+		Optional<TermValueSet> optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v1"));
+		myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+
+		myValueSetDao.delete(myValueSets.get(ValueSetVersions.V1).getResource().getIdElement());
+		assertEquals(1, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1");
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2").orElseThrow(() -> new IllegalArgumentException("No TerValueSet found for " + URL_MY_VALUE_SET + " version v2"));
+
+		myValueSetDao.delete(myValueSets.get(ValueSetVersions.V2).getResource().getIdElement());
+		assertEquals(0, myTermValueSetDao.findTermValueSetByUrl(PageRequest.of(0, 10), URL_MY_VALUE_SET).size());
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndNullVersion(URL_MY_VALUE_SET);
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v1");
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+		optionalTermValueSet = myTermValueSetDao.findTermValueSetByUrlAndVersion(URL_MY_VALUE_SET, "v2");
+		if (optionalTermValueSet.isPresent()) {
+			fail();
+		}
+
+	}
+
+
+}

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r5/FhirResourceDaoR5ValueSetTest.java

@@ -0,0 +1,282 @@
+package ca.uhn.fhir.jpa.dao.r5;
+
+import ca.uhn.fhir.context.support.IValidationSupport;
+import ca.uhn.fhir.jpa.api.config.DaoConfig;
+import ca.uhn.fhir.jpa.term.api.ITermDeferredStorageSvc;
+import ca.uhn.fhir.jpa.term.custom.CustomTerminologySet;
+import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
+import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
+import org.hl7.fhir.instance.model.api.IIdType;
+import org.hl7.fhir.instance.model.api.IPrimitiveType;
+import org.hl7.fhir.r5.model.CodeSystem;
+import org.hl7.fhir.r5.model.CodeType;
+import org.hl7.fhir.r5.model.CodeableConcept;
+import org.hl7.fhir.r5.model.Coding;
+import org.hl7.fhir.r5.model.IdType;
+import org.hl7.fhir.r5.model.StringType;
+import org.hl7.fhir.r5.model.UriType;
+import org.hl7.fhir.r5.model.ValueSet;
+import org.junit.jupiter.api.AfterEach;
+import org.junit.jupiter.api.BeforeEach;
+import org.junit.jupiter.api.Test;
+import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.transaction.annotation.Transactional;
+
+import java.io.IOException;
+
+import static org.hamcrest.MatcherAssert.assertThat;
+import static org.hamcrest.Matchers.containsString;
+import static org.hamcrest.Matchers.stringContainsInOrder;
+import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.assertFalse;
+import static org.junit.jupiter.api.Assertions.assertTrue;
+import static org.junit.jupiter.api.Assertions.fail;
+
+public class FhirResourceDaoR5ValueSetTest extends BaseJpaR5Test {
+
+	private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(FhirResourceDaoR5ValueSetTest.class);
+
+	@Autowired
+	protected ITermDeferredStorageSvc myTerminologyDeferredStorageSvc;
+
+	private IIdType myExtensionalVsId;
+
+	@AfterEach
+	public void after() {
+		myDaoConfig.setPreExpandValueSets(new DaoConfig().isPreExpandValueSets());
+		myDaoConfig.setMaximumExpansionSize(new DaoConfig().getMaximumExpansionSize());
+	}
+
+
+	@BeforeEach
+	@Transactional
+	public void before02() throws IOException {
+		ValueSet upload = loadResourceFromClasspath(ValueSet.class, "/extensional-case-3-vs.xml");
+		myExtensionalVsId = myValueSetDao.create(upload, mySrd).getId().toUnqualifiedVersionless();
+
+		CodeSystem upload2 = loadResourceFromClasspath(CodeSystem.class, "/extensional-case-3-cs.xml");
+		myCodeSystemDao.create(upload2, mySrd).getId().toUnqualifiedVersionless();
+
+	}
+
+	@Test
+	public void testValidateCodeOperationNoValueSet() {
+		UriType valueSetIdentifier = null;
+		IdType id = null;
+		CodeType code = new CodeType("8450-9-XXX");
+		UriType system = new UriType("http://acme.org");
+		StringType display = null;
+		Coding coding = null;
+		CodeableConcept codeableConcept = null;
+		try {
+			myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("Either ValueSet ID or ValueSet identifier or system and code must be provided. Unable to validate.", e.getMessage());
+		}
+	}
+
+	@Test
+	public void testValidateCodeOperationByIdentifierAndCodeAndSystem() {
+		UriType valueSetIdentifier = new UriType("http://www.healthintersections.com.au/fhir/ValueSet/extensional-case-2");
+		IdType id = null;
+		CodeType code = new CodeType("11378-7");
+		UriType system = new UriType("http://acme.org");
+		StringType display = null;
+		Coding coding = null;
+		CodeableConcept codeableConcept = null;
+		IValidationSupport.CodeValidationResult result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertTrue(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+	}
+
+	@Test
+	public void testValidateCodeOperationByIdentifierAndCodeAndSystemAndBadDisplay() {
+		UriType valueSetIdentifier = new UriType("http://www.healthintersections.com.au/fhir/ValueSet/extensional-case-2");
+		IdType id = null;
+		CodeType code = new CodeType("11378-7");
+		UriType system = new UriType("http://acme.org");
+		StringType display = new StringType("Systolic blood pressure at First encounterXXXX");
+		Coding coding = null;
+		CodeableConcept codeableConcept = null;
+		IValidationSupport.CodeValidationResult result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertFalse(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+		assertEquals("Concept Display \"Systolic blood pressure at First encounterXXXX\" does not match expected \"Systolic blood pressure at First encounter\"", result.getMessage());
+	}
+
+	@Test
+	public void testValidateCodeOperationByIdentifierAndCodeAndSystemAndGoodDisplay() {
+		UriType valueSetIdentifier = new UriType("http://www.healthintersections.com.au/fhir/ValueSet/extensional-case-2");
+		IdType id = null;
+		CodeType code = new CodeType("11378-7");
+		UriType system = new UriType("http://acme.org");
+		StringType display = new StringType("Systolic blood pressure at First encounter");
+		Coding coding = null;
+		CodeableConcept codeableConcept = null;
+		IValidationSupport.CodeValidationResult result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertTrue(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+	}
+
+	@Test
+	public void testValidateCodeOperationByResourceIdAndCodeableConcept() {
+		UriType valueSetIdentifier = null;
+		IIdType id = myExtensionalVsId;
+		CodeType code = null;
+		UriType system = null;
+		StringType display = null;
+		Coding coding = null;
+		CodeableConcept codeableConcept = new CodeableConcept();
+		codeableConcept.addCoding().setSystem("http://acme.org").setCode("11378-7");
+		IValidationSupport.CodeValidationResult result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertTrue(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+	}
+
+	@Test
+	public void testValidateCodeOperationByResourceIdAndCodeableConceptWithExistingValueSetAndPreExpansionEnabled() {
+		myDaoConfig.setPreExpandValueSets(true);
+
+		UriType valueSetIdentifier = null;
+		IIdType id = myExtensionalVsId;
+		CodeType code = null;
+		UriType system = null;
+		StringType display = null;
+		Coding coding = null;
+		CodeableConcept codeableConcept = new CodeableConcept();
+		codeableConcept.addCoding().setSystem("http://acme.org").setCode("11378-7");
+		IValidationSupport.CodeValidationResult result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertTrue(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+
+		myTerminologyDeferredStorageSvc.saveDeferred();
+		result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertTrue(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+
+		myTermSvc.preExpandDeferredValueSetsToTerminologyTables();
+		result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertTrue(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+	}
+
+	@Test
+	public void testValidateCodeOperationByResourceIdAndCodeAndSystem() {
+		UriType valueSetIdentifier = null;
+		IIdType id = myExtensionalVsId;
+		CodeType code = new CodeType("11378-7");
+		UriType system = new UriType("http://acme.org");
+		StringType display = null;
+		Coding coding = null;
+		CodeableConcept codeableConcept = null;
+		IValidationSupport.CodeValidationResult result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertTrue(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+	}
+
+	@Test
+	public void testValidateCodeOperationByResourceIdAndCodeAndSystemWithExistingValueSetAndPreExpansionEnabled() {
+		myDaoConfig.setPreExpandValueSets(true);
+
+		UriType valueSetIdentifier = null;
+		IIdType id = myExtensionalVsId;
+		CodeType code = new CodeType("11378-7");
+		UriType system = new UriType("http://acme.org");
+		StringType display = null;
+		Coding coding = null;
+		CodeableConcept codeableConcept = null;
+		IValidationSupport.CodeValidationResult result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertTrue(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+
+		myTerminologyDeferredStorageSvc.saveDeferred();
+		result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertTrue(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+
+		myTermSvc.preExpandDeferredValueSetsToTerminologyTables();
+		result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
+		assertTrue(result.isOk());
+		assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
+	}
+
+	@Test
+	public void testExpandById() {
+		String resp;
+
+		ValueSet expanded = myValueSetDao.expand(myExtensionalVsId, null, mySrd);
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(expanded);
+		ourLog.info(resp);
+		assertThat(resp, containsString("<ValueSet xmlns=\"http://hl7.org/fhir\">"));
+		assertThat(resp, containsString("<expansion>"));
+		assertThat(resp, containsString("<contains>"));
+		assertThat(resp, containsString("<system value=\"http://acme.org\"/>"));
+		assertThat(resp, containsString("<code value=\"8450-9\"/>"));
+		assertThat(resp, containsString("<display value=\"Systolic blood pressure--expiration\"/>"));
+		assertThat(resp, containsString("</contains>"));
+		assertThat(resp, containsString("<contains>"));
+		assertThat(resp, containsString("<system value=\"http://acme.org\"/>"));
+		assertThat(resp, containsString("<code value=\"11378-7\"/>"));
+		assertThat(resp, containsString("<display value=\"Systolic blood pressure at First encounter\"/>"));
+		assertThat(resp, containsString("</contains>"));
+		assertThat(resp, containsString("</expansion>"));
+
+		/*
+		 * Filter with display name
+		 */
+
+		expanded = myValueSetDao.expand(myExtensionalVsId, ("systolic"), mySrd);
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(expanded);
+		ourLog.info(resp);
+		//@formatter:off
+		assertThat(resp, stringContainsInOrder(
+			"<code value=\"11378-7\"/>",
+			"<display value=\"Systolic blood pressure at First encounter\"/>"));
+		//@formatter:on
+
+	}
+
+	@Test
+	public void testExpandByValueSet_ExceedsMaxSize() {
+		// Add a bunch of codes
+		CustomTerminologySet codesToAdd = new CustomTerminologySet();
+		for (int i = 0; i < 100; i++) {
+			codesToAdd.addRootConcept("CODE" + i, "Display " + i);
+		}
+		myTermCodeSystemStorageSvc.applyDeltaCodeSystemsAdd("http://loinc.org", codesToAdd);
+		myDaoConfig.setMaximumExpansionSize(50);
+
+		ValueSet vs = new ValueSet();
+		vs.setUrl("http://example.com/fhir/ValueSet/observation-vitalsignresult");
+		vs.getCompose().addInclude().setSystem("http://loinc.org");
+		myValueSetDao.create(vs);
+
+		try {
+			myValueSetDao.expand(vs, null);
+			fail();
+		} catch (InternalErrorException e) {
+			assertEquals("Expansion of ValueSet produced too many codes (maximum 50) - Operation aborted!", e.getMessage());
+		}
+	}
+
+
+	@Test
+	public void testValidateCodeAgainstBuiltInValueSetAndCodeSystemWithValidCode() {
+		IPrimitiveType<String> display = null;
+		Coding coding = null;
+		CodeableConcept codeableConcept = null;
+		StringType vsIdentifier = new StringType("http://hl7.org/fhir/ValueSet/administrative-gender");
+		StringType code = new StringType("male");
+		StringType system = new StringType("http://hl7.org/fhir/administrative-gender");
+		IValidationSupport.CodeValidationResult result = myValueSetDao.validateCode(vsIdentifier, null, code, system, display, coding, codeableConcept, mySrd);
+
+		ourLog.info(result.getMessage());
+		assertTrue(result.isOk(), result.getMessage());
+		assertEquals("Male", result.getDisplay());
+	}
+
+
+}
+
+

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/dstu3/ResourceProviderDstu3CodeSystemTest.java

@@ -6,11 +6,9 @@ import ca.uhn.fhir.jpa.dao.dstu3.FhirResourceDaoDstu3TerminologyTest;
 import ca.uhn.fhir.jpa.term.TermReindexingSvcImpl;
 import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
 import ca.uhn.fhir.rest.server.exceptions.ResourceNotFoundException;
-import ca.uhn.fhir.util.TestUtil;
 import org.hl7.fhir.dstu3.model.*;
 import org.hl7.fhir.instance.model.api.IBaseOperationOutcome;
 import org.hl7.fhir.instance.model.api.IBaseResource;
-import org.junit.jupiter.api.AfterAll;
 import org.junit.jupiter.api.BeforeEach;
 import org.junit.jupiter.api.Test;
 import org.springframework.transaction.annotation.Transactional;
@@ -332,6 +330,19 @@ public class ResourceProviderDstu3CodeSystemTest extends BaseResourceProviderDst
 		return ourCtx.newJsonParser().parseResource(theType, loadResource(theFilename));
 	}
 
+	@Test
+	public void testValidateCodeOperation() {
+		
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType("https://url"));
+		inParams.addParameter().setName("code").setValue(new CodeType("1"));
 
+		try {
+			ourClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("HTTP 400 Bad Request: Invalid request: The FHIR endpoint on this server does not know how to handle POST operation[CodeSystem/$validate-code] with parameters [[]]", e.getMessage());
+		}
+	}
 
 }

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/dstu3/ResourceProviderDstu3CodeSystemVersionedTest.java

@@ -0,0 +1,800 @@
+package ca.uhn.fhir.jpa.provider.dstu3;
+
+import ca.uhn.fhir.jpa.api.model.DaoMethodOutcome;
+import ca.uhn.fhir.jpa.dao.dstu3.FhirResourceDaoDstu3TerminologyTest;
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
+import ca.uhn.fhir.jpa.model.util.JpaConstants;
+import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
+import ca.uhn.fhir.rest.server.exceptions.ResourceNotFoundException;
+import org.apache.commons.io.IOUtils;
+import org.apache.http.client.methods.CloseableHttpResponse;
+import org.apache.http.client.methods.HttpPut;
+import org.apache.http.entity.ContentType;
+import org.apache.http.entity.StringEntity;
+import org.hl7.fhir.dstu3.model.BooleanType;
+import org.hl7.fhir.dstu3.model.CodeSystem;
+import org.hl7.fhir.dstu3.model.CodeType;
+import org.hl7.fhir.dstu3.model.Coding;
+import org.hl7.fhir.dstu3.model.Enumerations;
+import org.hl7.fhir.dstu3.model.Parameters;
+import org.hl7.fhir.dstu3.model.StringType;
+import org.hl7.fhir.dstu3.model.UriType;
+import org.junit.jupiter.api.BeforeEach;
+import org.junit.jupiter.api.Test;
+import org.springframework.transaction.annotation.Transactional;
+
+import java.io.IOException;
+
+import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.fail;
+
+public class ResourceProviderDstu3CodeSystemVersionedTest extends BaseResourceProviderDstu3Test {
+
+	private static final String SYSTEM_PARENTCHILD = "http://parentchild";
+	private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(ResourceProviderDstu3CodeSystemVersionedTest.class);
+	private long parentChildCs1Id;
+	private long parentChildCs2Id;
+
+	@BeforeEach
+	@Transactional
+	public void before02() throws IOException {
+		CodeSystem cs = loadResourceFromClasspath(CodeSystem.class, "/extensional-case-3-cs.xml");
+		cs.setVersion("1");
+		for(CodeSystem.ConceptDefinitionComponent conceptDefinitionComponent : cs.getConcept()) {
+			conceptDefinitionComponent.setDisplay(conceptDefinitionComponent.getDisplay() + " v1");
+		}
+		myCodeSystemDao.create(cs, mySrd);
+
+		cs = loadResourceFromClasspath(CodeSystem.class, "/extensional-case-3-cs.xml");
+		cs.setVersion("2");
+		for(CodeSystem.ConceptDefinitionComponent conceptDefinitionComponent : cs.getConcept()) {
+			conceptDefinitionComponent.setDisplay(conceptDefinitionComponent.getDisplay() + " v2");
+		}
+		myCodeSystemDao.create(cs, mySrd);
+
+		CodeSystem parentChildCs = new CodeSystem();
+		parentChildCs.setUrl(SYSTEM_PARENTCHILD);
+		parentChildCs.setVersion("1");
+		parentChildCs.setName("Parent Child CodeSystem 1");
+		parentChildCs.setStatus(Enumerations.PublicationStatus.ACTIVE);
+		parentChildCs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		parentChildCs.setHierarchyMeaning(CodeSystem.CodeSystemHierarchyMeaning.ISA);
+
+		CodeSystem.ConceptDefinitionComponent parentA = parentChildCs.addConcept().setCode("ParentA").setDisplay("Parent A");
+		parentA.addConcept().setCode("ChildAA").setDisplay("Child AA");
+		parentA.addConcept().setCode("ParentC").setDisplay("Parent C");
+		parentChildCs.addConcept().setCode("ParentB").setDisplay("Parent B");
+
+		DaoMethodOutcome parentChildCsOutcome = myCodeSystemDao.create(parentChildCs);
+		parentChildCs1Id = ((ResourceTable)parentChildCsOutcome.getEntity()).getId();
+
+		parentChildCs = new CodeSystem();
+		parentChildCs.setVersion("2");
+		parentChildCs.setName("Parent Child CodeSystem 2");
+		parentChildCs.setUrl(SYSTEM_PARENTCHILD);
+		parentChildCs.setStatus(Enumerations.PublicationStatus.ACTIVE);
+		parentChildCs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		parentChildCs.setHierarchyMeaning(CodeSystem.CodeSystemHierarchyMeaning.ISA);
+
+		parentA = parentChildCs.addConcept().setCode("ParentA").setDisplay("Parent A v2");
+		parentA.addConcept().setCode("ChildAA").setDisplay("Child AA v2");
+		parentA.addConcept().setCode("ParentB").setDisplay("Parent B v2");
+		parentChildCs.addConcept().setCode("ParentC").setDisplay("Parent C v2");
+
+		parentChildCsOutcome = myCodeSystemDao.create(parentChildCs);
+		parentChildCs2Id = ((ResourceTable)parentChildCsOutcome.getEntity()).getId();
+
+	}
+
+	@Test
+	public void testLookupOnExternalCodeMultiVersion() {
+		ResourceProviderDstu3ValueSetVersionedTest.createExternalCs(myCodeSystemDao, myResourceTableDao, myTermCodeSystemStorageSvc, mySrd, "1");
+		ResourceProviderDstu3ValueSetVersionedTest.createExternalCs(myCodeSystemDao, myResourceTableDao, myTermCodeSystemStorageSvc, mySrd, "2");
+
+		// First test with no version specified (should return from last version created)
+		Parameters respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoDstu3TerminologyTest.URL_MY_CODE_SYSTEM))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("SYSTEM NAME", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A2", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// With HTTP GET
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoDstu3TerminologyTest.URL_MY_CODE_SYSTEM))
+			.useHttpGet()
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("SYSTEM NAME"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals(("2"), ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A2", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version 1 specified.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoDstu3TerminologyTest.URL_MY_CODE_SYSTEM))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("SYSTEM NAME", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("1", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A1", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// With HTTP GET
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoDstu3TerminologyTest.URL_MY_CODE_SYSTEM))
+			.andParameter("version", new StringType("1"))
+			.useHttpGet()
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("SYSTEM NAME"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals(("1"), ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A1", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version 2 specified.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoDstu3TerminologyTest.URL_MY_CODE_SYSTEM))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("SYSTEM NAME", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A2", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// With HTTP GET
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoDstu3TerminologyTest.URL_MY_CODE_SYSTEM))
+			.andParameter("version", new StringType("2"))
+			.useHttpGet()
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("SYSTEM NAME"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals(("2"), ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A2", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+	}
+
+	@Test
+	public void testLookupOperationByCodeAndSystemUserDefinedCode() {
+		// First test with no version specified (should return from last version created)
+		Parameters respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+			.andParameter("system", new UriType("http://acme.org"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version 1 specified.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+			.andParameter("system", new UriType("http://acme.org"))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("1", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v1"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version 2 specified
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+			.andParameter("system", new UriType("http://acme.org"))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+	}
+
+	@Test
+	public void testLookupOperationByCodeAndSystemUserDefinedNonExistentVersion() {
+		try {
+			ourClient
+				.operation()
+				.onType(CodeSystem.class)
+				.named("lookup")
+				.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+				.andParameter("system", new UriType("http://acme.org"))
+				.andParameter("version", new StringType("3"))
+				.execute();
+			fail();
+		} catch (ResourceNotFoundException e) {
+			ourLog.info("Lookup failed as expected");
+		}
+	}
+
+	@Test
+	public void testLookupOperationByCoding() {
+		// First test with no version specified (should return from last version created)
+		Parameters respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "coding", new Coding().setSystem("http://acme.org").setCode("8450-9"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2",  ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version set to 1
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "coding", new Coding().setSystem("http://acme.org").setCode("8450-9").setVersion("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("1",  ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v1"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version set to 2
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "coding", new Coding().setSystem("http://acme.org").setCode("8450-9").setVersion("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2",  ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testLookupOperationByCodeAndSystemBuiltInCode() {
+		// First test with no version specified (should return the one and only version defined).
+		Parameters respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("N"))
+			.andParameter("system", new UriType("http://hl7.org/fhir/v2/0243"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("v2 Identity May Be Divulged", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2.8.2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("No", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+
+		// Repeat with version specified.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("N"))
+			.andParameter("system", new UriType("http://hl7.org/fhir/v2/0243"))
+			.andParameter("version", new StringType("2.8.2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("v2 Identity May Be Divulged", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2.8.2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("No", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+	}
+
+	@Test
+	public void testSubsumesOnCodes_Subsumes() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentB"))
+			.andParameter("codeB", new CodeType("ParentA"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumes", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentC"))
+			.andParameter("codeB", new CodeType("ParentA"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumes", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentB"))
+			.andParameter("codeB", new CodeType("ParentA"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumes", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testSubsumesOnCodes_Subsumedby() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentB"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumed-by", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentC"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumed-by", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentB"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumed-by", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+	}
+
+	@Test
+	public void testSubsumesOnCodes_Disjoint() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentC"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("not-subsumed", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentB"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("not-subsumed", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentC"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("not-subsumed", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testSubsumesOnCodings_MismatchedCsVersions() {
+		try {
+			ourClient
+				.operation()
+				.onType(CodeSystem.class)
+				.named(JpaConstants.OPERATION_SUBSUMES)
+				.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ChildAA").setVersion("1"))
+				.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("2"))
+				.execute();
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("HTTP 400 Bad Request: Unable to test subsumption across different code system versions", e.getMessage());
+		}
+	}
+
+
+	@Test
+	public void testSubsumesOnCodings_Subsumes() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumes", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentC").setVersion("1"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumes", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB").setVersion("2"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumes", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+
+	@Test
+	public void testSubsumesOnCodings_Subsumedby() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumed-by", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("1"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentC").setVersion("1"))
+			.execute();
+
+		 resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumed-by", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2.
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("2"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB").setVersion("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("subsumed-by", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testSubsumesOnCodings_Disjoint() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentC"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("not-subsumed", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("1"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB").setVersion("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("not-subsumed", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2
+		respParam = ourClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("2"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentC").setVersion("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals("not-subsumed", ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testUpdateCodeSystemById() throws IOException {
+
+		CodeSystem initialCodeSystem = ourClient.read().resource(CodeSystem.class).withId(parentChildCs1Id).execute();
+		assertEquals("Parent Child CodeSystem 1", initialCodeSystem.getName());
+		initialCodeSystem.setName("Updated Parent Child CodeSystem 1");
+		String encoded = myFhirCtx.newJsonParser().encodeResourceToString(initialCodeSystem);
+		HttpPut putRequest = new HttpPut(ourServerBase + "/CodeSystem/" + parentChildCs1Id);
+		putRequest.setEntity(new StringEntity(encoded, ContentType.parse("application/json+fhir")));
+		CloseableHttpResponse resp = ourHttpClient.execute(putRequest);
+		try {
+			assertEquals(200, resp.getStatusLine().getStatusCode());
+		} finally {
+			IOUtils.closeQuietly(resp);
+		}
+
+		CodeSystem updatedCodeSystem = ourClient.read().resource(CodeSystem.class).withId(parentChildCs1Id).execute();
+		assertEquals("Updated Parent Child CodeSystem 1", updatedCodeSystem.getName());
+
+		initialCodeSystem = ourClient.read().resource(CodeSystem.class).withId(parentChildCs2Id).execute();
+		assertEquals("Parent Child CodeSystem 2", initialCodeSystem.getName());
+		initialCodeSystem.setName("Updated Parent Child CodeSystem 2");
+		encoded = myFhirCtx.newJsonParser().encodeResourceToString(initialCodeSystem);
+		putRequest = new HttpPut(ourServerBase + "/CodeSystem/" + parentChildCs2Id);
+		putRequest.setEntity(new StringEntity(encoded, ContentType.parse("application/json+fhir")));
+		resp = ourHttpClient.execute(putRequest);
+		try {
+			assertEquals(200, resp.getStatusLine().getStatusCode());
+		} finally {
+			IOUtils.closeQuietly(resp);
+		}
+
+		updatedCodeSystem = ourClient.read().resource(CodeSystem.class).withId(parentChildCs2Id).execute();
+		assertEquals("Updated Parent Child CodeSystem 2", updatedCodeSystem.getName());
+	}
+
+
+}

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/dstu3/ResourceProviderDstu3ConceptMapTest.java

@@ -1,18 +1,30 @@
 package ca.uhn.fhir.jpa.provider.dstu3;
 
-import ca.uhn.fhir.rest.api.MethodOutcome;
-import ca.uhn.fhir.util.TestUtil;
-import org.hl7.fhir.dstu3.model.*;
+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 org.hl7.fhir.dstu3.model.BooleanType;
+import org.hl7.fhir.dstu3.model.CodeType;
+import org.hl7.fhir.dstu3.model.Coding;
+import org.hl7.fhir.dstu3.model.ConceptMap;
+import org.hl7.fhir.dstu3.model.ConceptMap.ConceptMapGroupComponent;
+import org.hl7.fhir.dstu3.model.ConceptMap.SourceElementComponent;
+import org.hl7.fhir.dstu3.model.ConceptMap.TargetElementComponent;
+import org.hl7.fhir.dstu3.model.Enumerations.ConceptMapEquivalence;
+import org.hl7.fhir.dstu3.model.Parameters;
 import org.hl7.fhir.dstu3.model.Parameters.ParametersParameterComponent;
+import org.hl7.fhir.dstu3.model.StringType;
+import org.hl7.fhir.dstu3.model.UriType;
 import org.hl7.fhir.instance.model.api.IIdType;
-import org.junit.jupiter.api.AfterAll;
 import org.junit.jupiter.api.BeforeEach;
 import org.junit.jupiter.api.Test;
 import org.slf4j.Logger;
 import org.slf4j.LoggerFactory;
 import org.springframework.transaction.annotation.Transactional;
 
-import static org.junit.jupiter.api.Assertions.*;
+import ca.uhn.fhir.rest.api.MethodOutcome;
 
 public class ResourceProviderDstu3ConceptMapTest extends BaseResourceProviderDstu3Test {
 	private static final Logger ourLog = LoggerFactory.getLogger(ResourceProviderDstu3ConceptMapTest.class);
@@ -114,4 +126,550 @@ public class ResourceProviderDstu3ConceptMapTest extends BaseResourceProviderDst
 		part = getPartByName(param, "source");
 		assertEquals(CM_URL, ((UriType) part.getValue()).getValueAsString());
 	}
+	
+	@Test
+	public void testTranslateWithConceptMapUrlAndVersion() {
+		
+		String url = "http://url";
+		createConceptMap(url, "v1", "12222", "Target Code 12222");
+		createConceptMap(url, "v2", "13333", "Target Code 13333");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("conceptMapVersion").setValue(new StringType("v2"));
+		inParams.addParameter().setName("system").setValue(new UriType(CS_URL));
+		inParams.addParameter().setName("targetsystem").setValue(new UriType(CS_URL_2));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+		
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(3, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "equivalence");
+		assertEquals("equal", ((CodeType) part.getValue()).getValueAsString());
+		part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Target Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL_2, coding.getSystem());
+		assertEquals("Version 2", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(url, ((UriType) part.getValue()).getValueAsString());
+	}
+	
+	@Test
+	public void testTranslateWithVersionedConceptMapUrl_v2() {
+
+		String url = "http://url";
+		createConceptMap(url, "v1", "12222", "Target Code 12222");
+		createConceptMap(url, "v2", "13333", "Target Code 13333");
+		
+		// Call translate with ConceptMap v2.
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("conceptMapVersion").setValue(new StringType("v2"));
+		inParams.addParameter().setName("system").setValue(new UriType(CS_URL));
+		inParams.addParameter().setName("targetsystem").setValue(new UriType(CS_URL_2));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+
+		// Should return v2 since v2 specified.
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(3, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "equivalence");
+		assertEquals("equal", ((CodeType) part.getValue()).getValueAsString());
+		part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Target Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL_2, coding.getSystem());
+		assertEquals("Version 2", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(url, ((UriType) part.getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testTranslateWithVersionedConceptMapUrl_v1() {
+
+		String url = "http://url";
+		createConceptMap(url, "v1", "12222", "Target Code 12222");
+		createConceptMap(url, "v2", "13333", "Target Code 13333");
+		
+		// Call translate with ConceptMap v1.
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("conceptMapVersion").setValue(new StringType("v1"));
+		inParams.addParameter().setName("system").setValue(new UriType(CS_URL));
+		inParams.addParameter().setName("targetsystem").setValue(new UriType(CS_URL_2));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+
+		// Should return v1 since v1 specified.
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(3, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "equivalence");
+		assertEquals("equal", ((CodeType) part.getValue()).getValueAsString());
+		part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("12222", coding.getCode());
+		assertEquals("Target Code 12222", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL_2, coding.getSystem());
+		assertEquals("Version 2", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(url, ((UriType) part.getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testTranslateWithVersionedConceptMapUrl_NoVersion() {
+
+		String url = "http://url";
+		createConceptMap(url, "v1", "12222", "Target Code 12222");
+		createConceptMap(url, "v2", "13333", "Target Code 13333");
+		
+		// Call translate with no ConceptMap version.
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("system").setValue(new UriType(CS_URL));
+		inParams.addParameter().setName("targetsystem").setValue(new UriType(CS_URL_2));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+
+		// Should return v2 since v2 is the most recently updated version.
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(3, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "equivalence");
+		assertEquals("equal", ((CodeType) part.getValue()).getValueAsString());
+		part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Target Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL_2, coding.getSystem());
+		assertEquals("Version 2", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(url, ((UriType) part.getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testTranslateWithVersionedConceptMapUrl_NoVersion_null_v1() {
+
+		String url = "http://url";
+		createConceptMap(url, null, "12222", "Target Code 12222"); // first version is null
+		createConceptMap(url, "v2", "13333", "Target Code 13333");
+				 		
+		// Call translate with no ConceptMap version.
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("system").setValue(new UriType(CS_URL));
+		inParams.addParameter().setName("targetsystem").setValue(new UriType(CS_URL_2));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+
+		// Should return v2 since v2 is the most recently updated version.
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(3, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "equivalence");
+		assertEquals("equal", ((CodeType) part.getValue()).getValueAsString());
+		part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Target Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL_2, coding.getSystem());
+		assertEquals("Version 2", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(url, ((UriType) part.getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testTranslateWithVersionedConceptMapUrl_NoVersion_null_v2() {
+
+		String url = "http://url";
+		createConceptMap(url, "v1", "12222", "Target Code 12222"); 
+		createConceptMap(url, null, "13333", "Target Code 13333"); // second version is null
+		
+		// Call translate with no ConceptMap version.
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("system").setValue(new UriType(CS_URL));
+		inParams.addParameter().setName("targetsystem").setValue(new UriType(CS_URL_2));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+
+		// Should return v2 since v2 is the most recently updated version.
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(3, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "equivalence");
+		assertEquals("equal", ((CodeType) part.getValue()).getValueAsString());
+		part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Target Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL_2, coding.getSystem());
+		assertEquals("Version 2", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(url, ((UriType) part.getValue()).getValueAsString());
+	}
+	
+	@Test
+	public void testTranslateWithConceptMap_WrongUrl_NoVersion() {
+		
+		String url = "http://url";
+		createConceptMap(url, "v1", "12222", "Target Code 12222");
+		createConceptMap(url, "v2", "13333", "Target Code 13333");
+		
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType("http://invalid.url.com")); // no exsits url
+		inParams.addParameter().setName("system").setValue(new UriType(CS_URL));
+		inParams.addParameter().setName("targetsystem").setValue(new UriType(CS_URL_2));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+		
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertFalse(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("No matches found!", ((StringType) param.getValue()).getValueAsString());
+
+	}
+	
+	@Test
+	public void testTranslateWithReverseConceptMapUrlAndVersion() {
+		
+		String url = "http://url";
+		createReverseConceptMap(url, "v1", "12222", "Source Code 12222");
+		createReverseConceptMap(url, "v2", "13333", "Source Code 13333");
+				
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("conceptMapVersion").setValue(new StringType("v2"));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+		inParams.addParameter().setName("reverse").setValue(new BooleanType(true));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+		
+		
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(2, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Source Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL, coding.getSystem());
+		assertEquals("Version 1", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(url, ((UriType) part.getValue()).getValueAsString());	
+	}
+	
+	@Test
+	public void testTranslateWithReverseConceptMapUrl_NoVersion() {
+		
+		String url = "http://url";
+		createReverseConceptMap(url, "v1", "12222", "Source Code 12222");
+		createReverseConceptMap(url, "v2", "13333", "Source Code 13333");
+				
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+		inParams.addParameter().setName("reverse").setValue(new BooleanType(true));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+		
+		
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(2, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Source Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL, coding.getSystem());
+		assertEquals("Version 1", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(url, ((UriType) part.getValue()).getValueAsString());	
+	}
+	
+	@Test
+	public void testTranslateWithReverseConceptMapUrl_NoVersion_null_v1() {
+		
+		String url = "http://url";
+		createReverseConceptMap(url, null, "12222", "Source Code 12222");
+		createReverseConceptMap(url, "v2", "13333", "Source Code 13333");
+				
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+		inParams.addParameter().setName("reverse").setValue(new BooleanType(true));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+		
+		
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(2, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Source Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL, coding.getSystem());
+		assertEquals("Version 1", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(url, ((UriType) part.getValue()).getValueAsString());	
+	}
+	
+	@Test
+	public void testTranslateWithReverseConceptMapUrl_NoVersion_null_v2() {
+		
+		String url = "http://url";
+		createReverseConceptMap(url, "v1", "12222", "Source Code 12222");
+		createReverseConceptMap(url, null, "13333", "Source Code 13333");
+				
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+		inParams.addParameter().setName("reverse").setValue(new BooleanType(true));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		
+		Parameters respParams = ourClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+		
+		
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(2, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Source Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL, coding.getSystem());
+		assertEquals("Version 1", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(url, ((UriType) part.getValue()).getValueAsString());	
+	}
+	
+	private void createConceptMap(String url, String version, String targetCode, String targetDisplay) {
+		
+		ConceptMap conceptMap = new ConceptMap();
+		conceptMap.setUrl(url).setVersion(version).setSource(new UriType(VS_URL)).setTarget(new UriType(VS_URL_2));
+
+		ConceptMapGroupComponent group1 = conceptMap.addGroup();
+		group1.setSource(CS_URL).setSourceVersion("Version 1").setTarget(CS_URL_2).setTargetVersion("Version 2");
+
+		SourceElementComponent element1 = group1.addElement();
+		element1.setCode("11111").setDisplay("Source Code 11111");
+
+		TargetElementComponent target1 = element1.addTarget();
+		target1.setCode(targetCode).setDisplay(targetDisplay).setEquivalence(ConceptMapEquivalence.EQUAL);
+
+		IIdType conceptMapId = myConceptMapDao.create(conceptMap, mySrd).getId().toUnqualifiedVersionless();
+		conceptMap = myConceptMapDao.read(conceptMapId);
+		
+		ourLog.info("ConceptMap: \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(conceptMap));
+	}
+	
+	private void createReverseConceptMap(String url, String version, String sourceCode, String sourceDisplay) {
+		
+		//- conceptMap1 v1
+		ConceptMap conceptMap = new ConceptMap();
+		conceptMap.setUrl(url).setVersion(version).setSource(new UriType(VS_URL)).setTarget(new UriType(VS_URL_2));
+		
+		ConceptMapGroupComponent group1 = conceptMap.addGroup();
+		group1.setSource(CS_URL).setSourceVersion("Version 1").setTarget(CS_URL_2).setTargetVersion("Version 2");
+
+		SourceElementComponent element1 = group1.addElement();
+		element1.setCode(sourceCode).setDisplay(sourceDisplay);
+
+		TargetElementComponent target1 = element1.addTarget();
+		target1.setCode("11111").setDisplay("11111");
+		
+		IIdType conceptMapId = myConceptMapDao.create(conceptMap, mySrd).getId().toUnqualifiedVersionless();
+		ConceptMap conceptMap1 = myConceptMapDao.read(conceptMapId);
+		
+		ourLog.info("ConceptMap : \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(conceptMap1));
+	
+	}
 }

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/dstu3/ResourceProviderDstu3ValueSetTest.java

@@ -13,7 +13,6 @@ import ca.uhn.fhir.jpa.term.api.ITermCodeSystemStorageSvc;
 import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
 import ca.uhn.fhir.rest.server.exceptions.ResourceNotFoundException;
 import ca.uhn.fhir.rest.server.servlet.ServletRequestDetails;
-import ca.uhn.fhir.util.TestUtil;
 import ca.uhn.fhir.util.UrlUtil;
 import com.google.common.base.Charsets;
 import org.apache.commons.io.IOUtils;
@@ -37,7 +36,6 @@ import org.hl7.fhir.dstu3.model.ValueSet.ConceptSetComponent;
 import org.hl7.fhir.dstu3.model.ValueSet.FilterOperator;
 import org.hl7.fhir.instance.model.api.IIdType;
 import org.junit.jupiter.api.AfterEach;
-import org.junit.jupiter.api.AfterAll;
 import org.junit.jupiter.api.Test;
 import org.springframework.transaction.TransactionStatus;
 import org.springframework.transaction.support.TransactionCallbackWithoutResult;
@@ -137,6 +135,7 @@ public class ResourceProviderDstu3ValueSetTest extends BaseResourceProviderDstu3
 		runInTransaction(() -> {
 			CodeSystem codeSystem = new CodeSystem();
 			codeSystem.setUrl(CS_URL);
+			codeSystem.setVersion("SYSTEM VERSION");
 			codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 			IIdType id = myCodeSystemDao.create(codeSystem, mySrd).getId().toUnqualified();
 
@@ -401,6 +400,28 @@ public class ResourceProviderDstu3ValueSetTest extends BaseResourceProviderDstu3
 
 	}
 
+	@Test
+	public void testExpandByUrlNoPreExpansion() throws Exception {
+		myDaoConfig.setPreExpandValueSets(false);
+
+		loadAndPersistCodeSystemAndValueSet();
+
+		Parameters respParam = ourClient
+			.operation()
+			.onType(ValueSet.class)
+			.named("expand")
+			.withParameter(Parameters.class, "url", new UriType("http://www.healthintersections.com.au/fhir/ValueSet/extensional-case-2"))
+			.execute();
+		ValueSet expanded = (ValueSet) respParam.getParameter().get(0).getResource();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(expanded);
+		ourLog.info(resp);
+		assertThat(resp, Matchers.stringContainsInOrder(
+			"<code value=\"11378-7\"/>",
+			"<display value=\"Systolic blood pressure at First encounter\"/>"));
+
+	}
+
 	@Test
 	public void testExpandByUrlWithBogusUrl() throws Exception {
 		loadAndPersistCodeSystemAndValueSet();
@@ -823,7 +844,7 @@ public class ResourceProviderDstu3ValueSetTest extends BaseResourceProviderDstu3
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		codeSystem.setName("ACME Codes");
-		codeSystem.setVersion("1.2.3.4");
+		codeSystem.setVersion("SYSTEM VERSION");
 		IIdType id = theCodeSystemDao.create(codeSystem, theRequestDetails).getId().toUnqualified();
 
 		ResourceTable table = theResourceTableDao.findById(id.getIdPartAsLong()).orElseThrow(IllegalStateException::new);

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r4/ResourceProviderR4CodeSystemTest.java

@@ -1,9 +1,17 @@
 package ca.uhn.fhir.jpa.provider.r4;
 
+import ca.uhn.fhir.jpa.api.model.DaoMethodOutcome;
 import ca.uhn.fhir.jpa.dao.r4.FhirResourceDaoR4TerminologyTest;
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
 import ca.uhn.fhir.jpa.model.util.JpaConstants;
 import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
 import ca.uhn.fhir.rest.server.exceptions.ResourceNotFoundException;
+import org.apache.commons.io.IOUtils;
+import org.apache.http.client.methods.CloseableHttpResponse;
+import org.apache.http.client.methods.HttpPut;
+import org.apache.http.entity.ContentType;
+import org.apache.http.entity.StringEntity;
+import org.hl7.fhir.instance.model.api.IIdType;
 import org.hl7.fhir.r4.model.*;
 import org.hl7.fhir.r4.model.codesystems.ConceptSubsumptionOutcome;
 import org.junit.jupiter.api.BeforeEach;
@@ -18,18 +26,20 @@ public class ResourceProviderR4CodeSystemTest extends BaseResourceProviderR4Test
 
 	private static final String SYSTEM_PARENTCHILD = "http://parentchild";
 	private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(ResourceProviderR4CodeSystemTest.class);
+	private Long parentChildCsId;
+
+	private IIdType myCsId;
+	private static final String CS_ACME_URL = "http://acme.org";
 
 	@BeforeEach
 	@Transactional
 	public void before02() throws IOException {
 		CodeSystem cs = loadResourceFromClasspath(CodeSystem.class, "/extensional-case-3-cs.xml");
-		myCodeSystemDao.create(cs, mySrd);
-
-		ValueSet upload = loadResourceFromClasspath(ValueSet.class, "/extensional-case-3-vs.xml");
-		myValueSetDao.create(upload, mySrd).getId().toUnqualifiedVersionless();
+		myCsId = myCodeSystemDao.create(cs, mySrd).getId().toUnqualifiedVersionless();
 
 		CodeSystem parentChildCs = new CodeSystem();
 		parentChildCs.setUrl(SYSTEM_PARENTCHILD);
+		parentChildCs.setName("Parent Child CodeSystem");
 		parentChildCs.setStatus(Enumerations.PublicationStatus.ACTIVE);
 		parentChildCs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
 		parentChildCs.setHierarchyMeaning(CodeSystem.CodeSystemHierarchyMeaning.ISA);
@@ -38,7 +48,8 @@ public class ResourceProviderR4CodeSystemTest extends BaseResourceProviderR4Test
 		parentA.addConcept().setCode("ChildAA").setDisplay("Child AA");
 		parentChildCs.addConcept().setCode("ParentB").setDisplay("Parent B");
 
-		myCodeSystemDao.create(parentChildCs);
+		DaoMethodOutcome parentChildCsOutcome = myCodeSystemDao.create(parentChildCs);
+		parentChildCsId = ((ResourceTable)parentChildCsOutcome.getEntity()).getId();
 
 	}
 
@@ -254,7 +265,7 @@ public class ResourceProviderR4CodeSystemTest extends BaseResourceProviderR4Test
 		assertEquals("display", respParam.getParameter().get(2).getName());
 		assertEquals("Married", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
 		assertEquals("abstract", respParam.getParameter().get(3).getName());
-		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).booleanValue());
+		assertFalse(((BooleanType) respParam.getParameter().get(3).getValue()).booleanValue());
 	}
 
 	@Test
@@ -325,6 +336,7 @@ public class ResourceProviderR4CodeSystemTest extends BaseResourceProviderR4Test
 				.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("FOO"))
 				.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB"))
 				.execute();
+			fail();
 		} catch (InvalidRequestException e) {
 			assertEquals("HTTP 400 Bad Request: Unknown code: [http://parentchild|FOO]", e.getMessage());
 		}
@@ -340,6 +352,7 @@ public class ResourceProviderR4CodeSystemTest extends BaseResourceProviderR4Test
 				.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB"))
 				.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("FOO"))
 				.execute();
+			fail();
 		} catch (InvalidRequestException e) {
 			assertEquals("HTTP 400 Bad Request: Unknown code: [http://parentchild|FOO]", e.getMessage());
 		}
@@ -355,6 +368,7 @@ public class ResourceProviderR4CodeSystemTest extends BaseResourceProviderR4Test
 				.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD + "A").setCode("ChildAA"))
 				.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD + "B").setCode("ParentA"))
 				.execute();
+			fail();
 		} catch (InvalidRequestException e) {
 			assertEquals("HTTP 400 Bad Request: Unable to test subsumption across different code systems", e.getMessage());
 		}
@@ -416,5 +430,527 @@ public class ResourceProviderR4CodeSystemTest extends BaseResourceProviderR4Test
 		assertEquals(ConceptSubsumptionOutcome.NOTSUBSUMED.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
 	}
 
+	@Test
+	public void testUpdateCodeSystemById() throws IOException {
+
+		CodeSystem initialCodeSystem = myClient.read().resource(CodeSystem.class).withId(parentChildCsId).execute();
+		assertEquals("Parent Child CodeSystem", initialCodeSystem.getName());
+		initialCodeSystem.setName("Updated Parent Child CodeSystem");
+		String encoded = myFhirCtx.newJsonParser().encodeResourceToString(initialCodeSystem);
+		HttpPut putRequest = new HttpPut(ourServerBase + "/CodeSystem/" + parentChildCsId);
+		putRequest.setEntity(new StringEntity(encoded, ContentType.parse("application/json+fhir")));
+		CloseableHttpResponse resp = ourHttpClient.execute(putRequest);
+		try {
+			assertEquals(200, resp.getStatusLine().getStatusCode());
+		} finally {
+			IOUtils.closeQuietly(resp);
+		}
+
+		CodeSystem updatedCodeSystem = myClient.read().resource(CodeSystem.class).withId(parentChildCsId).execute();
+		assertEquals("Updated Parent Child CodeSystem", updatedCodeSystem.getName());
+	}
+
+	@Test
+	public void testValidateCodeFoundByCode() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("code").setValue(new CodeType("8452-5"));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testValidateCodeNotFoundByCode() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("code").setValue(new CodeType("8452-5-a"));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertFalse(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Unknown code {http://acme.org}8452-5-a", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeMatchDisplay() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("code").setValue(new CodeType("8452-5"));
+		inParams.addParameter().setName("display").setValue(new StringType("Systolic blood pressure.inspiration - expiration"));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeNotMatchDisplay() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("code").setValue(new CodeType("8452-5"));
+		inParams.addParameter().setName("display").setValue(new StringType("Old Systolic blood pressure.inspiration - expiration"));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertFalse(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Unknown code {http://acme.org}8452-5 - Concept Display : Old Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeWithoutUrl() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("code").setValue(new CodeType("8452-5"));
+
+		try {
+			myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("HTTP 400 Bad Request: Either CodeSystem ID or CodeSystem identifier must be provided. Unable to validate.",e.getMessage());
+		}
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeWithId() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("code").setValue(new CodeType("8452-5"));
+
+		Parameters respParam = myClient.operation().onInstance(myCsId).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testValidateCodeWithoutCodeOrCodingOrCodeableConcept() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("display").setValue(new StringType("Systolic blood pressure.inspiration - expiration"));
+
+		try {
+			myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("HTTP 400 Bad Request: No code, coding, or codeableConcept provided to validate.",e.getMessage());
+		}
+	}
+
+	@Test
+	public void testValidateCodeWithCodeAndCoding() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("code").setValue(new CodeType("8452-5"));
+		inParams.addParameter().setName("coding").setValue((new Coding().setCode("8452-1")));
+
+		try {
+			myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("HTTP 400 Bad Request: $validate-code can only validate (code) OR (coding) OR (codeableConcept)",e.getMessage());
+		}
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodingWithUrlNotMatch() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("coding").setValue((new Coding().setCode("8452-5").setSystem("http://url2")));
+
+		try {
+			myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("HTTP 400 Bad Request: Coding.system 'http://url2' does not equal with CodeSystem.url 'http://acme.org'. Unable to validate.",e.getMessage());
+		}
+	}
+
+	@Test
+	public void testValidateCodeFoundByCoding() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("coding").setValue((new Coding().setCode("8452-5")));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodingWithSystem() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("coding").setValue((new Coding().setCode("8452-5").setSystem(CS_ACME_URL)));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodingUrlNotMatch() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("coding").setValue((new Coding().setCode("8452-5").setSystem("http://url2")));
+
+		try {
+			myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("HTTP 400 Bad Request: Coding.system 'http://url2' does not equal with CodeSystem.url 'http://acme.org'. Unable to validate.",e.getMessage());
+		}
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodingWithDisplay() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("coding").setValue((new Coding().setCode("8452-5").setDisplay("Systolic blood pressure.inspiration - expiration")));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testValidateCodeNotFoundByCoding() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("coding").setValue((new Coding().setCode("8452-5-a")));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertFalse(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Unknown code {http://acme.org}8452-5-a", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeableConcept() {
+
+		CodeableConcept cc = new CodeableConcept();
+		cc.addCoding().setCode("8452-5");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("codeableConcept").setValue(cc);
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeableConceptWithSystem() {
+
+		CodeableConcept cc = new CodeableConcept();
+		cc.addCoding().setCode("8452-5").setSystem(CS_ACME_URL);
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("codeableConcept").setValue(cc);
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeableConceptWithDisplay() {
+
+		CodeableConcept cc = new CodeableConcept();
+		cc.addCoding().setCode("8452-5").setSystem(CS_ACME_URL).setDisplay("Systolic blood pressure.inspiration - expiration");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("codeableConcept").setValue(cc);
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+
+	}
+
+	@Test
+	public void testValidateCodeNotFoundByCodeableConcept() {
+
+		CodeableConcept cc = new CodeableConcept();
+		cc.addCoding().setCode("8452-5-a");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("codeableConcept").setValue(cc);
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertFalse(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Unknown code {http://acme.org}8452-5-a", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeableConceptUrlNotMatch() throws Exception {
+
+		CodeableConcept cc = new CodeableConcept();
+		cc.addCoding().setCode("8452-5").setSystem("http://url2").setDisplay("Systolic blood pressure.inspiration - expiration");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("codeableConcept").setValue(cc);
+
+		try {
+			myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("HTTP 400 Bad Request: Coding.system 'http://url2' does not equal with CodeSystem.url 'http://acme.org'. Unable to validate.",e.getMessage());
+		}
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeableConceptWithMultipleMatchedEntries() throws Exception {
+
+		CodeableConcept cc = new CodeableConcept();
+		cc.addCoding().setCode("8452-5").setSystem(CS_ACME_URL).setDisplay("Systolic blood pressure.inspiration - expiration");
+		cc.addCoding().setCode("8451-7").setSystem(CS_ACME_URL).setDisplay("Systolic blood pressure--inspiration");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("codeableConcept").setValue(cc);
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(true, ((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeableConceptWithMultipleMatchedFirstEntry() throws Exception {
+
+		CodeableConcept cc = new CodeableConcept();
+		cc.addCoding().setCode("8452-5").setSystem(CS_ACME_URL).setDisplay("Systolic blood pressure.inspiration - expiration");
+		cc.addCoding().setCode("8451-7-a").setSystem(CS_ACME_URL).setDisplay("Systolic blood pressure--inspiration");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("codeableConcept").setValue(cc);
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(true, ((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeableConceptWithMultipleMatchedSecondEntry() throws Exception {
+
+		CodeableConcept cc = new CodeableConcept();
+		cc.addCoding().setCode("8452-5-a").setSystem(CS_ACME_URL).setDisplay("Systolic blood pressure.inspiration - expiration");
+		cc.addCoding().setCode("8451-7").setSystem(CS_ACME_URL).setDisplay("Systolic blood pressure--inspiration");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CS_ACME_URL));
+		inParams.addParameter().setName("codeableConcept").setValue(cc);
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(true, ((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure--inspiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testValidateCodeWithUrlAndVersion_v1() {
+
+		String url = "http://url";
+		createCodeSystem(url, "v1", "1", "Code v1 display");
+		createCodeSystem(url, "v2", "1", "Code v2 display");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("version").setValue(new StringType("v1"));
+		inParams.addParameter().setName("code").setValue(new CodeType("1"));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParam));
+
+		assertEquals(true, ((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Code v1 display", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+
+	@Test
+	public void testValidateCodeWithUrlAndVersion_v2() {
+
+		String url = "http://url";
+		createCodeSystem(url, "v1", "1", "Code v1 display");
+		createCodeSystem(url, "v2", "1", "Code v2 display");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("version").setValue(new StringType("v2"));
+		inParams.addParameter().setName("code").setValue(new CodeType("1"));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParam));
+
+		assertEquals(true, ((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Code v2 display", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+
+	@Test
+	public void testValidateCodeWithUrlAndVersion_noVersion() {
+
+		String url = "http://url";
+		createCodeSystem(url, "v1", "1", "Code v1 display");
+		createCodeSystem(url, "v2", "1", "Code v2 display");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("code").setValue(new CodeType("1"));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParam));
+
+		assertEquals(true, ((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Code v2 display", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testValidateCodeWithUrlAndVersion_noVersion_null_v1() {
+
+		String url = "http://url";
+		createCodeSystem(url, null, "1", "Code v1 display");
+		createCodeSystem(url, "v2", "1", "Code v2 display");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("code").setValue(new CodeType("1"));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParam));
+
+		assertEquals(true, ((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Code v2 display", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+
+	@Test
+	public void testValidateCodeWithUrlAndVersion_noVersion_null_v2() {
+
+		String url = "http://url";
+		createCodeSystem(url, "v1", "1", "Code v1 display");
+		createCodeSystem(url, null, "1", "Code v2 display");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("code").setValue(new CodeType("1"));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParam));
+
+		assertEquals(true, ((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Code v2 display", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+	private void createCodeSystem(String url, String version, String code, String display) {
+
+		CodeSystem codeSystem = new CodeSystem();
+		codeSystem.setUrl(url).setVersion(version);
+
+		CodeSystem.ConceptDefinitionComponent concept1 = codeSystem.addConcept();
+		concept1.setCode("1000").setDisplay("Code Dispaly 1000");
+
+		CodeSystem.ConceptDefinitionComponent concept = codeSystem.addConcept();
+		concept.setCode(code).setDisplay(display);
+
+		CodeSystem.ConceptDefinitionComponent concept2 = codeSystem.addConcept();
+		concept2.setCode("2000").setDisplay("Code Dispaly 2000");
+
+		ourLog.info("CodeSystem: \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(codeSystem));
+
+		myCodeSystemDao.create(codeSystem, mySrd);
+	}
 
 }

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r4/ResourceProviderR4CodeSystemVersionedTest.java

@@ -0,0 +1,822 @@
+package ca.uhn.fhir.jpa.provider.r4;
+
+import ca.uhn.fhir.jpa.api.model.DaoMethodOutcome;
+import ca.uhn.fhir.jpa.dao.r4.FhirResourceDaoR4TerminologyTest;
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
+import ca.uhn.fhir.jpa.model.util.JpaConstants;
+import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
+import ca.uhn.fhir.rest.server.exceptions.ResourceNotFoundException;
+import org.apache.commons.io.IOUtils;
+import org.apache.http.client.methods.CloseableHttpResponse;
+import org.apache.http.client.methods.HttpPut;
+import org.apache.http.entity.ContentType;
+import org.apache.http.entity.StringEntity;
+import org.hl7.fhir.r4.model.BooleanType;
+import org.hl7.fhir.r4.model.CodeSystem;
+import org.hl7.fhir.r4.model.CodeType;
+import org.hl7.fhir.r4.model.Coding;
+import org.hl7.fhir.r4.model.Enumerations;
+import org.hl7.fhir.r4.model.Parameters;
+import org.hl7.fhir.r4.model.StringType;
+import org.hl7.fhir.r4.model.UriType;
+import org.hl7.fhir.r4.model.codesystems.ConceptSubsumptionOutcome;
+import org.junit.jupiter.api.BeforeEach;
+import org.junit.jupiter.api.Test;
+import org.springframework.transaction.annotation.Transactional;
+
+import java.io.IOException;
+
+import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.fail;
+
+public class ResourceProviderR4CodeSystemVersionedTest extends BaseResourceProviderR4Test {
+
+	private static final String SYSTEM_PARENTCHILD = "http://parentchild";
+	private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(ResourceProviderR4CodeSystemVersionedTest.class);
+	private long parentChildCs1Id;
+	private long parentChildCs2Id;
+
+	@BeforeEach
+	@Transactional
+	public void before02() throws IOException {
+		CodeSystem cs = loadResourceFromClasspath(CodeSystem.class, "/extensional-case-3-cs.xml");
+		cs.setVersion("1");
+		for(CodeSystem.ConceptDefinitionComponent conceptDefinitionComponent : cs.getConcept()) {
+			conceptDefinitionComponent.setDisplay(conceptDefinitionComponent.getDisplay() + " v1");
+		}
+		myCodeSystemDao.create(cs, mySrd);
+
+		cs = loadResourceFromClasspath(CodeSystem.class, "/extensional-case-3-cs.xml");
+		cs.setVersion("2");
+		for(CodeSystem.ConceptDefinitionComponent conceptDefinitionComponent : cs.getConcept()) {
+			conceptDefinitionComponent.setDisplay(conceptDefinitionComponent.getDisplay() + " v2");
+		}
+		myCodeSystemDao.create(cs, mySrd);
+
+		CodeSystem parentChildCs = new CodeSystem();
+		parentChildCs.setUrl(SYSTEM_PARENTCHILD);
+		parentChildCs.setVersion("1");
+		parentChildCs.setName("Parent Child CodeSystem 1");
+		parentChildCs.setStatus(Enumerations.PublicationStatus.ACTIVE);
+		parentChildCs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		parentChildCs.setHierarchyMeaning(CodeSystem.CodeSystemHierarchyMeaning.ISA);
+
+		CodeSystem.ConceptDefinitionComponent parentA = parentChildCs.addConcept().setCode("ParentA").setDisplay("Parent A");
+		parentA.addConcept().setCode("ChildAA").setDisplay("Child AA");
+		parentA.addConcept().setCode("ParentC").setDisplay("Parent C");
+		parentChildCs.addConcept().setCode("ParentB").setDisplay("Parent B");
+
+		DaoMethodOutcome parentChildCsOutcome = myCodeSystemDao.create(parentChildCs);
+		parentChildCs1Id = ((ResourceTable)parentChildCsOutcome.getEntity()).getId();
+
+		parentChildCs = new CodeSystem();
+		parentChildCs.setVersion("2");
+		parentChildCs.setName("Parent Child CodeSystem 2");
+		parentChildCs.setUrl(SYSTEM_PARENTCHILD);
+		parentChildCs.setStatus(Enumerations.PublicationStatus.ACTIVE);
+		parentChildCs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		parentChildCs.setHierarchyMeaning(CodeSystem.CodeSystemHierarchyMeaning.ISA);
+
+		parentA = parentChildCs.addConcept().setCode("ParentA").setDisplay("Parent A v2");
+		parentA.addConcept().setCode("ChildAA").setDisplay("Child AA v2");
+		parentA.addConcept().setCode("ParentB").setDisplay("Parent B v2");
+		parentChildCs.addConcept().setCode("ParentC").setDisplay("Parent C v2");
+
+		parentChildCsOutcome = myCodeSystemDao.create(parentChildCs);
+		parentChildCs2Id = ((ResourceTable)parentChildCsOutcome.getEntity()).getId();
+
+	}
+
+	@Test
+	public void testLookupOnExternalCodeMultiVersion() {
+		ResourceProviderR4ValueSetVersionedTest.createExternalCs(myCodeSystemDao, myResourceTableDao, myTermCodeSystemStorageSvc, mySrd, "1");
+		ResourceProviderR4ValueSetVersionedTest.createExternalCs(myCodeSystemDao, myResourceTableDao, myTermCodeSystemStorageSvc, mySrd, "2");
+
+		// First test with no version specified (should return from last version created)
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoR4TerminologyTest.URL_MY_CODE_SYSTEM))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("SYSTEM NAME", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A2", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// With HTTP GET
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoR4TerminologyTest.URL_MY_CODE_SYSTEM))
+			.useHttpGet()
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("SYSTEM NAME"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals(("2"), ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A2", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version 1 specified.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoR4TerminologyTest.URL_MY_CODE_SYSTEM))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("SYSTEM NAME", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("1", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A1", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// With HTTP GET
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoR4TerminologyTest.URL_MY_CODE_SYSTEM))
+			.andParameter("version", new StringType("1"))
+			.useHttpGet()
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("SYSTEM NAME"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals(("1"), ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A1", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version 2 specified.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoR4TerminologyTest.URL_MY_CODE_SYSTEM))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("SYSTEM NAME", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A2", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// With HTTP GET
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ParentA"))
+			.andParameter("system", new UriType(FhirResourceDaoR4TerminologyTest.URL_MY_CODE_SYSTEM))
+			.andParameter("version", new StringType("2"))
+			.useHttpGet()
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("SYSTEM NAME"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals(("2"), ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Parent A2", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+	}
+
+	@Test
+	public void testLookupOperationByCodeAndSystemBuiltInCode() {
+		// First test with no version specified (should return the one and only version defined).
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ACSN"))
+			.andParameter("system", new UriType("http://terminology.hl7.org/CodeSystem/v2-0203"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("v2.0203", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2.9", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Accession ID", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Repeat with version specified.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ACSN"))
+			.andParameter("system", new UriType("http://terminology.hl7.org/CodeSystem/v2-0203"))
+			.andParameter("version", new StringType("2.9"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("v2.0203", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2.9", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Accession ID", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+	}
+
+	@Test
+	public void testLookupOperationByCodeAndSystemBuiltInNonexistentVersion() {
+		try {
+			myClient
+				.operation()
+				.onType(CodeSystem.class)
+				.named("lookup")
+				.withParameter(Parameters.class, "code", new CodeType("ACSN"))
+				.andParameter("system", new UriType("http://hl7.org/fhir/v2/0203"))
+				.andParameter("version", new StringType("2.8"))
+				.execute();
+			fail();
+		} catch (ResourceNotFoundException e) {
+			ourLog.info("Lookup failed as expected");
+		}
+	}
+
+	@Test
+	public void testLookupOperationByCodeAndSystemUserDefinedCode() {
+		// First test with no version specified (should return from last version created)
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+			.andParameter("system", new UriType("http://acme.org"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version 1 specified.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+			.andParameter("system", new UriType("http://acme.org"))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("1", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v1"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version 2 specified
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+			.andParameter("system", new UriType("http://acme.org"))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+	}
+
+	@Test
+	public void testLookupOperationByCodeAndSystemUserDefinedNonExistentVersion() {
+		try {
+			myClient
+				.operation()
+				.onType(CodeSystem.class)
+				.named("lookup")
+				.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+				.andParameter("system", new UriType("http://acme.org"))
+				.andParameter("version", new StringType("3"))
+				.execute();
+			fail();
+		} catch (ResourceNotFoundException e) {
+			ourLog.info("Lookup failed as expected");
+		}
+	}
+
+	@Test
+	public void testLookupOperationByCoding() {
+		// First test with no version specified (should return from last version created)
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "coding", new Coding().setSystem("http://acme.org").setCode("8450-9"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2",  ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version set to 1
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "coding", new Coding().setSystem("http://acme.org").setCode("8450-9").setVersion("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("1",  ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v1"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version set to 2
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "coding", new Coding().setSystem("http://acme.org").setCode("8450-9").setVersion("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2",  ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testSubsumesOnCodes_Subsumes() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentB"))
+			.andParameter("codeB", new CodeType("ParentA"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentC"))
+			.andParameter("codeB", new CodeType("ParentA"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentB"))
+			.andParameter("codeB", new CodeType("ParentA"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testSubsumesOnCodes_Subsumedby() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentB"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMEDBY.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentC"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMEDBY.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentB"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMEDBY.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+	}
+
+	@Test
+	public void testSubsumesOnCodes_Disjoint() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentC"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.NOTSUBSUMED.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentB"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.NOTSUBSUMED.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentA"))
+			.andParameter("codeB", new CodeType("ParentC"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.NOTSUBSUMED.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testSubsumesOnCodings_MismatchedCsVersions() {
+		try {
+			myClient
+				.operation()
+				.onType(CodeSystem.class)
+				.named(JpaConstants.OPERATION_SUBSUMES)
+				.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ChildAA").setVersion("1"))
+				.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("2"))
+				.execute();
+			fail();
+		} catch (InvalidRequestException e) {
+			assertEquals("HTTP 400 Bad Request: Unable to test subsumption across different code system versions", e.getMessage());
+		}
+	}
+
+
+	@Test
+	public void testSubsumesOnCodings_Subsumes() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentC").setVersion("1"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB").setVersion("2"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+
+	@Test
+	public void testSubsumesOnCodings_Subsumedby() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMEDBY.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("1"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentC").setVersion("1"))
+			.execute();
+
+		 resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMEDBY.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("2"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB").setVersion("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMEDBY.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testSubsumesOnCodings_Disjoint() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentC"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.NOTSUBSUMED.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("1"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentB").setVersion("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.NOTSUBSUMED.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA").setVersion("2"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentC").setVersion("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.NOTSUBSUMED.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testUpdateCodeSystemById() throws IOException {
+
+		CodeSystem initialCodeSystem = myClient.read().resource(CodeSystem.class).withId(parentChildCs1Id).execute();
+		assertEquals("Parent Child CodeSystem 1", initialCodeSystem.getName());
+		initialCodeSystem.setName("Updated Parent Child CodeSystem 1");
+		String encoded = myFhirCtx.newJsonParser().encodeResourceToString(initialCodeSystem);
+		HttpPut putRequest = new HttpPut(ourServerBase + "/CodeSystem/" + parentChildCs1Id);
+		putRequest.setEntity(new StringEntity(encoded, ContentType.parse("application/json+fhir")));
+		CloseableHttpResponse resp = ourHttpClient.execute(putRequest);
+		try {
+			assertEquals(200, resp.getStatusLine().getStatusCode());
+		} finally {
+			IOUtils.closeQuietly(resp);
+		}
+
+		CodeSystem updatedCodeSystem = myClient.read().resource(CodeSystem.class).withId(parentChildCs1Id).execute();
+		assertEquals("Updated Parent Child CodeSystem 1", updatedCodeSystem.getName());
+
+		initialCodeSystem = myClient.read().resource(CodeSystem.class).withId(parentChildCs2Id).execute();
+		assertEquals("Parent Child CodeSystem 2", initialCodeSystem.getName());
+		initialCodeSystem.setName("Updated Parent Child CodeSystem 2");
+		encoded = myFhirCtx.newJsonParser().encodeResourceToString(initialCodeSystem);
+		putRequest = new HttpPut(ourServerBase + "/CodeSystem/" + parentChildCs2Id);
+		putRequest.setEntity(new StringEntity(encoded, ContentType.parse("application/json+fhir")));
+		resp = ourHttpClient.execute(putRequest);
+		try {
+			assertEquals(200, resp.getStatusLine().getStatusCode());
+		} finally {
+			IOUtils.closeQuietly(resp);
+		}
+
+		updatedCodeSystem = myClient.read().resource(CodeSystem.class).withId(parentChildCs2Id).execute();
+		assertEquals("Updated Parent Child CodeSystem 2", updatedCodeSystem.getName());
+	}
+
+
+}

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r4/ResourceProviderR4ConceptMapTest.java

@@ -1,16 +1,31 @@
 package ca.uhn.fhir.jpa.provider.r4;
 
-import ca.uhn.fhir.rest.api.MethodOutcome;
+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 org.hl7.fhir.instance.model.api.IIdType;
-import org.hl7.fhir.r4.model.*;
+import org.hl7.fhir.r4.model.BooleanType;
+import org.hl7.fhir.r4.model.CodeType;
+import org.hl7.fhir.r4.model.CodeableConcept;
+import org.hl7.fhir.r4.model.Coding;
+import org.hl7.fhir.r4.model.ConceptMap;
+import org.hl7.fhir.r4.model.ConceptMap.ConceptMapGroupComponent;
+import org.hl7.fhir.r4.model.ConceptMap.SourceElementComponent;
+import org.hl7.fhir.r4.model.ConceptMap.TargetElementComponent;
+import org.hl7.fhir.r4.model.Enumerations.ConceptMapEquivalence;
+import org.hl7.fhir.r4.model.Parameters;
 import org.hl7.fhir.r4.model.Parameters.ParametersParameterComponent;
+import org.hl7.fhir.r4.model.StringType;
+import org.hl7.fhir.r4.model.UriType;
 import org.junit.jupiter.api.BeforeEach;
 import org.junit.jupiter.api.Test;
 import org.slf4j.Logger;
 import org.slf4j.LoggerFactory;
 import org.springframework.transaction.annotation.Transactional;
 
-import static org.junit.jupiter.api.Assertions.*;
+import ca.uhn.fhir.rest.api.MethodOutcome;
 
 public class ResourceProviderR4ConceptMapTest extends BaseResourceProviderR4Test {
 	private static final Logger ourLog = LoggerFactory.getLogger(ResourceProviderR4ConceptMapTest.class);
@@ -870,6 +885,90 @@ public class ResourceProviderR4ConceptMapTest extends BaseResourceProviderR4Test
 		assertEquals(CM_URL, ((UriType) part.getValue()).getValueAsString());
 	}
 
+	@Test
+	public void testTranslateWithConceptMapUrlAndVersion() {
+		
+		//- conceptMap1 v1
+		ConceptMap conceptMap1 = new ConceptMap();
+		conceptMap1.setUrl(CM_URL).setVersion("v1").setSource(new UriType(VS_URL)).setTarget(new UriType(VS_URL_2));
+		
+		ConceptMapGroupComponent group1 = conceptMap1.addGroup();
+		group1.setSource(CS_URL).setSourceVersion("Version 1").setTarget(CS_URL_2).setTargetVersion("Version 2");
+
+		SourceElementComponent element1 = group1.addElement();
+		element1.setCode("11111").setDisplay("Source Code 11111");
+
+		TargetElementComponent target1 = element1.addTarget();
+		target1.setCode("12222").setDisplay("Target Code 12222").setEquivalence(ConceptMapEquivalence.EQUAL);
+		
+		IIdType conceptMapId1 = myConceptMapDao.create(conceptMap1, mySrd).getId().toUnqualifiedVersionless();
+		conceptMap1 = myConceptMapDao.read(conceptMapId1);
+		
+		ourLog.info("ConceptMap: 2 \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(conceptMap1));
+	
+		//- conceptMap1 v2
+		ConceptMap conceptMap2 = new ConceptMap();
+		conceptMap2.setUrl(CM_URL).setVersion("v2").setSource(new UriType(VS_URL)).setTarget(new UriType(VS_URL_2));
+		
+		ConceptMapGroupComponent group2 = conceptMap2.addGroup();
+		group2.setSource(CS_URL).setSourceVersion("Version 1").setTarget(CS_URL_2).setTargetVersion("Version 2");
+
+		SourceElementComponent element2 = group2.addElement();
+		element2.setCode("11111").setDisplay("Source Code 11111");
+
+		TargetElementComponent target2 = element2.addTarget();
+		target2.setCode("13333").setDisplay("Target Code 13333").setEquivalence(ConceptMapEquivalence.EQUAL);
+		
+		IIdType conceptMapId2 = myConceptMapDao.create(conceptMap2, mySrd).getId().toUnqualifiedVersionless();
+		conceptMap2 = myConceptMapDao.read(conceptMapId2);
+		
+		ourLog.info("ConceptMap: 2 \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(conceptMap2));
+
+		
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CM_URL));
+		inParams.addParameter().setName("conceptMapVersion").setValue(new StringType("v2"));
+		inParams.addParameter().setName("system").setValue(new UriType(CS_URL));
+		inParams.addParameter().setName("targetsystem").setValue(new UriType(CS_URL_2));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		
+		Parameters respParams = myClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+		
+		
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(3, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "equivalence");
+		assertEquals("equal", ((CodeType) part.getValue()).getCode());
+		part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Target Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL_2, coding.getSystem());
+		assertEquals("Version 2", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(CM_URL, ((UriType) part.getValue()).getValueAsString());
+
+	}
+	
+	
 	@Test
 	public void testTranslateWithInstance() {
 		ConceptMap conceptMap = myConceptMapDao.read(myConceptMapId);
@@ -1621,6 +1720,89 @@ public class ResourceProviderR4ConceptMapTest extends BaseResourceProviderR4Test
 		assertEquals(CM_URL, ((UriType) part.getValue()).getValueAsString());
 	}
 
+	@Test
+	public void testTranslateWithReverseConceptMapUrlAndVersion() {
+		
+		//- conceptMap1 v1
+		ConceptMap conceptMap1 = new ConceptMap();
+		conceptMap1.setUrl(CM_URL).setVersion("v1").setSource(new UriType(VS_URL)).setTarget(new UriType(VS_URL_2));
+		
+		ConceptMapGroupComponent group1 = conceptMap1.addGroup();
+		group1.setSource(CS_URL).setSourceVersion("Version 1").setTarget(CS_URL_2).setTargetVersion("Version 2");
+
+		SourceElementComponent element1 = group1.addElement();
+		element1.setCode("12222").setDisplay("Source Code 12222");
+
+		TargetElementComponent target1 = element1.addTarget();
+		target1.setCode("11111").setDisplay("11111").setEquivalence(ConceptMapEquivalence.EQUAL);
+		
+		IIdType conceptMapId1 = myConceptMapDao.create(conceptMap1, mySrd).getId().toUnqualifiedVersionless();
+		conceptMap1 = myConceptMapDao.read(conceptMapId1);
+		
+		ourLog.info("ConceptMap: 2 \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(conceptMap1));
+	
+		//- conceptMap1 v2
+		ConceptMap conceptMap2 = new ConceptMap();
+		conceptMap2.setUrl(CM_URL).setVersion("v2").setSource(new UriType(VS_URL)).setTarget(new UriType(VS_URL_2));
+		
+		ConceptMapGroupComponent group2 = conceptMap2.addGroup();
+		group2.setSource(CS_URL).setSourceVersion("Version 1").setTarget(CS_URL_2).setTargetVersion("Version 2");
+
+		SourceElementComponent element2 = group2.addElement();
+		element2.setCode("13333").setDisplay("Source Code 13333");
+
+		TargetElementComponent target2 = element2.addTarget();
+		target2.setCode("11111").setDisplay("Target Code 11111").setEquivalence(ConceptMapEquivalence.EQUAL);
+		
+		IIdType conceptMapId2 = myConceptMapDao.create(conceptMap2, mySrd).getId().toUnqualifiedVersionless();
+		conceptMap2 = myConceptMapDao.read(conceptMapId2);
+		
+		ourLog.info("ConceptMap: 2 \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(conceptMap2));
+
+		
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CM_URL));
+		inParams.addParameter().setName("conceptMapVersion").setValue(new StringType("v2"));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+		inParams.addParameter().setName("reverse").setValue(new BooleanType(true));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		
+		Parameters respParams = myClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+		
+		
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(3, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "equivalence");
+		assertEquals("equal", ((CodeType) part.getValue()).getCode());
+		part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Source Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL, coding.getSystem());
+		assertEquals("Version 1", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(CM_URL, ((UriType) part.getValue()).getValueAsString());
+		
+
+	}
+
 	@Test
 	public void testTranslateWithReverseAndInstance() {
 		ConceptMap conceptMap = myConceptMapDao.read(myConceptMapId);

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r4/ResourceProviderR4ValueSetTest.java

@@ -31,6 +31,7 @@ import org.hl7.fhir.r4.model.CodeSystem;
 import org.hl7.fhir.r4.model.CodeSystem.CodeSystemContentMode;
 import org.hl7.fhir.r4.model.CodeSystem.ConceptDefinitionComponent;
 import org.hl7.fhir.r4.model.CodeType;
+import org.hl7.fhir.r4.model.Coding;
 import org.hl7.fhir.r4.model.Enumerations;
 import org.hl7.fhir.r4.model.IdType;
 import org.hl7.fhir.r4.model.IntegerType;
@@ -43,6 +44,8 @@ import org.hl7.fhir.r4.model.ValueSet.FilterOperator;
 import org.hl7.fhir.r4.model.codesystems.HttpVerb;
 import org.junit.jupiter.api.AfterEach;
 import org.junit.jupiter.api.Test;
+import org.springframework.data.domain.PageRequest;
+import org.springframework.data.domain.Slice;
 import org.springframework.transaction.TransactionStatus;
 import org.springframework.transaction.support.TransactionCallbackWithoutResult;
 import org.springframework.transaction.support.TransactionTemplate;
@@ -54,12 +57,14 @@ import java.util.Optional;
 
 import static ca.uhn.fhir.jpa.dao.r4.FhirResourceDaoR4TerminologyTest.URL_MY_CODE_SYSTEM;
 import static ca.uhn.fhir.jpa.dao.r4.FhirResourceDaoR4TerminologyTest.URL_MY_VALUE_SET;
+import static org.awaitility.Awaitility.await;
 import static org.hamcrest.MatcherAssert.assertThat;
 import static org.hamcrest.Matchers.containsString;
 import static org.hamcrest.Matchers.containsStringIgnoringCase;
 import static org.hamcrest.Matchers.not;
 import static org.hamcrest.Matchers.stringContainsInOrder;
 import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.assertFalse;
 import static org.junit.jupiter.api.Assertions.assertNotNull;
 import static org.junit.jupiter.api.Assertions.assertSame;
 import static org.junit.jupiter.api.Assertions.assertTrue;
@@ -244,7 +249,10 @@ public class ResourceProviderR4ValueSetTest extends BaseResourceProviderR4Test {
 		myDaoConfig.setPreExpandValueSets(true);
 
 		loadAndPersistCodeSystemAndValueSet();
+		await().until(() -> clearDeferredStorageQueue());
 		myTermSvc.preExpandDeferredValueSetsToTerminologyTables();
+		Slice<TermValueSet> page = myTermValueSetDao.findByExpansionStatus(PageRequest.of(0, 10), TermValueSetPreExpansionStatusEnum.EXPANDED);
+		assertEquals(1, page.getContent().size());
 
 		Parameters respParam = myClient
 			.operation()
@@ -296,7 +304,10 @@ public class ResourceProviderR4ValueSetTest extends BaseResourceProviderR4Test {
 		myDaoConfig.setPreExpandValueSets(true);
 
 		loadAndPersistCodeSystemAndValueSet();
+		await().until(() -> clearDeferredStorageQueue());
 		myTermSvc.preExpandDeferredValueSetsToTerminologyTables();
+		Slice<TermValueSet> page = myTermValueSetDao.findByExpansionStatus(PageRequest.of(0, 10), TermValueSetPreExpansionStatusEnum.EXPANDED);
+		assertEquals(1, page.getContent().size());
 
 		Parameters respParam = myClient
 			.operation()
@@ -333,6 +344,27 @@ public class ResourceProviderR4ValueSetTest extends BaseResourceProviderR4Test {
 
 	}
 
+	@Test
+	public void testExpandByUrlNoPreExpand() throws Exception {
+		myDaoConfig.setPreExpandValueSets(false);
+		loadAndPersistCodeSystemAndValueSet();
+
+		Parameters respParam = myClient
+			.operation()
+			.onType(ValueSet.class)
+			.named("expand")
+			.withParameter(Parameters.class, "url", new UriType("http://www.healthintersections.com.au/fhir/ValueSet/extensional-case-2"))
+			.execute();
+		ValueSet expanded = (ValueSet) respParam.getParameter().get(0).getResource();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(expanded);
+		ourLog.info(resp);
+		assertThat(resp, stringContainsInOrder(
+			"<code value=\"11378-7\"/>",
+			"<display value=\"Systolic blood pressure at First encounter\"/>"));
+
+	}
+
 	@Test
 	public void testExpandByUrlWithBogusUrl() throws Exception {
 		loadAndPersistCodeSystemAndValueSet();
@@ -355,7 +387,10 @@ public class ResourceProviderR4ValueSetTest extends BaseResourceProviderR4Test {
 		myDaoConfig.setPreExpandValueSets(true);
 
 		loadAndPersistCodeSystemAndValueSet();
+		await().until(() -> clearDeferredStorageQueue());
 		myTermSvc.preExpandDeferredValueSetsToTerminologyTables();
+		Slice<TermValueSet> page = myTermValueSetDao.findByExpansionStatus(PageRequest.of(0, 10), TermValueSetPreExpansionStatusEnum.EXPANDED);
+		assertEquals(1, page.getContent().size());
 
 		Parameters respParam = myClient
 			.operation()
@@ -737,6 +772,7 @@ public class ResourceProviderR4ValueSetTest extends BaseResourceProviderR4Test {
 
 		String initialValueSetName = valueSet.getName();
 		validateTermValueSetNotExpanded(initialValueSetName);
+		await().until(() -> clearDeferredStorageQueue());
 		myTermSvc.preExpandDeferredValueSetsToTerminologyTables();
 		validateTermValueSetExpandedAndChildren(initialValueSetName, codeSystem);
 
@@ -766,6 +802,7 @@ public class ResourceProviderR4ValueSetTest extends BaseResourceProviderR4Test {
 
 		String initialValueSetName = valueSet.getName();
 		validateTermValueSetNotExpanded(initialValueSetName);
+		await().until(() -> clearDeferredStorageQueue());
 		myTermSvc.preExpandDeferredValueSetsToTerminologyTables();
 		validateTermValueSetExpandedAndChildren(initialValueSetName, codeSystem);
 
@@ -1051,6 +1088,41 @@ public class ResourceProviderR4ValueSetTest extends BaseResourceProviderR4Test {
 
 	}
 
+	@Test
+	public void testValidateCodeOperationByCoding() throws Exception {
+		loadAndPersistCodeSystemAndValueSet();
+
+		Coding codingToValidate = new Coding("http://acme.org", "8495-4", "Systolic blood pressure 24 hour minimum");
+
+		// With correct system version specified. Should pass.
+		Parameters respParam = myClient
+			.operation()
+			.onType(ValueSet.class)
+			.named("validate-code")
+			.withParameter(Parameters.class, "coding", codingToValidate)
+			.andParameter("url", new UriType("http://www.healthintersections.com.au/fhir/ValueSet/extensional-case-2"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+
+	}
+
+
+
+	private boolean clearDeferredStorageQueue() {
+
+		if(!myTerminologyDeferredStorageSvc.isStorageQueueEmpty()) {
+			myTerminologyDeferredStorageSvc.saveAllDeferred();
+			return false;
+		} else {
+			return true;
+		}
+
+	}
+
 	@AfterEach
 	public void afterResetPreExpansionDefault() {
 		myDaoConfig.setPreExpandValueSets(new DaoConfig().isPreExpandValueSets());
@@ -1059,6 +1131,7 @@ public class ResourceProviderR4ValueSetTest extends BaseResourceProviderR4Test {
 	public static CodeSystem createExternalCs(IFhirResourceDao<CodeSystem> theCodeSystemDao, IResourceTableDao theResourceTableDao, ITermCodeSystemStorageSvc theTermCodeSystemStorageSvc, ServletRequestDetails theRequestDetails) {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = theCodeSystemDao.create(codeSystem, theRequestDetails).getId().toUnqualified();
 

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r4/TerminologyUploaderProviderR4Test.java

@@ -106,7 +106,7 @@ public class TerminologyUploaderProviderR4Test extends BaseResourceProviderR4Tes
 		ourLog.info(resp);
 
 		assertThat(((IntegerType) respParam.getParameter().get(1).getValue()).getValue(), greaterThan(1));
-		assertThat(((Reference) respParam.getParameter().get(2).getValue()).getReference(), matchesPattern("CodeSystem\\/[a-zA-Z0-9]+"));
+		assertThat(((Reference) respParam.getParameter().get(2).getValue()).getReference(), matchesPattern("CodeSystem\\/[a-zA-Z0-9\\.\\-]+"));
 
 		/*
 		 * Try uploading a second time

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r5/ResourceProviderR5CodeSystemTest.java

@@ -0,0 +1,241 @@
+package ca.uhn.fhir.jpa.provider.r5;
+
+import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.assertTrue;
+
+import ca.uhn.fhir.jpa.api.model.DaoMethodOutcome;
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
+import ca.uhn.fhir.jpa.model.util.JpaConstants;
+import org.hl7.fhir.instance.model.api.IIdType;
+import org.hl7.fhir.r4.model.codesystems.ConceptSubsumptionOutcome;
+import org.hl7.fhir.r5.model.Enumerations;
+import org.hl7.fhir.r5.model.Coding;
+import org.hl7.fhir.r5.model.BooleanType;
+import org.hl7.fhir.r5.model.CodeSystem;
+import org.hl7.fhir.r5.model.CodeSystem.ConceptDefinitionComponent;
+import org.hl7.fhir.r5.model.CodeType;
+import org.hl7.fhir.r5.model.Parameters;
+import org.hl7.fhir.r5.model.StringType;
+import org.hl7.fhir.r5.model.UriType;
+import org.junit.jupiter.api.BeforeEach;
+import org.junit.jupiter.api.Test;
+import org.slf4j.Logger;
+import org.slf4j.LoggerFactory;
+import org.springframework.transaction.annotation.Transactional;
+
+import java.io.IOException;
+
+public class ResourceProviderR5CodeSystemTest extends BaseResourceProviderR5Test {
+	private static final String SYSTEM_PARENTCHILD = "http://parentchild";
+	private static final Logger ourLog = LoggerFactory.getLogger(ResourceProviderR5CodeSystemTest.class);
+	private Long parentChildCsId;
+
+	private IIdType myCsId;
+
+	@BeforeEach
+	@Transactional
+	public void before02() throws IOException {
+		CodeSystem cs = loadResourceFromClasspath(CodeSystem.class, "/extensional-case-3-cs.xml");
+		myCsId = myCodeSystemDao.create(cs, mySrd).getId().toUnqualifiedVersionless();
+
+		CodeSystem parentChildCs = new CodeSystem();
+		parentChildCs.setUrl(SYSTEM_PARENTCHILD);
+		parentChildCs.setName("Parent Child CodeSystem");
+		parentChildCs.setStatus(Enumerations.PublicationStatus.ACTIVE);
+		parentChildCs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		parentChildCs.setHierarchyMeaning(CodeSystem.CodeSystemHierarchyMeaning.ISA);
+
+		CodeSystem.ConceptDefinitionComponent parentA = parentChildCs.addConcept().setCode("ParentA").setDisplay("Parent A");
+		parentA.addConcept().setCode("ChildAA").setDisplay("Child AA");
+		parentChildCs.addConcept().setCode("ParentB").setDisplay("Parent B");
+
+		DaoMethodOutcome parentChildCsOutcome = myCodeSystemDao.create(parentChildCs);
+		parentChildCsId = ((ResourceTable)parentChildCsOutcome.getEntity()).getId();
+
+	}
+
+	@Test
+	public void testValidateCodeWithUrlAndVersion_v1() {
+		
+		String url = "http://url";
+		createCodeSystem(url, "v1", "1", "Code v1 display");
+		createCodeSystem(url, "v2", "1", "Code v2 display");
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(url));
+		inParams.addParameter().setName("version").setValue(new StringType("v1"));
+		inParams.addParameter().setName("code").setValue(new CodeType("1"));
+		inParams.addParameter().setName("display").setValue(new StringType("Code v1 display"));
+
+		Parameters respParam = myClient.operation().onType(CodeSystem.class).named("validate-code").withParameters(inParams).execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParam));
+		
+		assertEquals(true, ((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Code v1 display", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testLookupOperationByCodeAndSystemUserDefinedCode() {
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+			.andParameter("system", new UriType("http://acme.org"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(1).getName());
+		assertEquals(("Systolic blood pressure--expiration"), ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(2).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(2).getValue()).getValue());
+	}
+
+	@Test
+	public void testSubsumesOnCodes_Subsumes() {
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ChildAA"))
+			.andParameter("codeB", new CodeType("ParentA"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+	}
+
+	@Test
+	public void testSubsumesOnCodings_Subsumes() {
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codingA", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ChildAA"))
+			.andParameter("codingB", new Coding().setSystem(SYSTEM_PARENTCHILD).setCode("ParentA"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+	}
+
+
+
+	private void createCodeSystem(String url, String version, String code, String display) {
+		
+		CodeSystem codeSystem = new CodeSystem();
+		codeSystem.setUrl(url).setVersion(version);
+
+		ConceptDefinitionComponent concept1 = codeSystem.addConcept();
+		concept1.setCode("1000").setDisplay("Code Dispaly 1000");
+
+		ConceptDefinitionComponent concept = codeSystem.addConcept();
+		concept.setCode(code).setDisplay(display);
+
+		ConceptDefinitionComponent concept2 = codeSystem.addConcept();
+		concept2.setCode("2000").setDisplay("Code Dispaly 2000");
+
+		ourLog.info("CodeSystem: \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(codeSystem));
+		
+		myCodeSystemDao.create(codeSystem, mySrd);
+	}
+
+	@Test
+	public void testLookupOperationByCoding() throws IOException {
+
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "coding", new Coding().setSystem("http://acme.org").setCode("8450-9"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(1).getName());
+		assertEquals(("Systolic blood pressure--expiration"), ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(2).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(2).getValue()).getValue());
+	}
+
+	@Test
+	public void testValidateCodeFoundByCodeWithId() {
+
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("code").setValue(new CodeType("8452-5"));
+
+		Parameters respParam = myClient.operation().onInstance(myCsId).named("validate-code").withParameters(inParams).execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertTrue(((BooleanType) respParam.getParameter().get(0).getValue()).booleanValue());
+		assertEquals("Systolic blood pressure.inspiration - expiration", ((StringType) respParam.getParameter().get(1).getValue()).getValueAsString());
+	}
+
+	@Test
+	public void testLookupOperationByCodeAndSystemBuiltInCode() {
+		// First test with no version specified (should return the one and only version defined).
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ACSN"))
+			.andParameter("system", new UriType("http://terminology.hl7.org/CodeSystem/v2-0203"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("v2.0203", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2.9", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Accession ID", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Repeat with version specified.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("ACSN"))
+			.andParameter("system", new UriType("http://terminology.hl7.org/CodeSystem/v2-0203"))
+			.andParameter("version", new StringType("2.9"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals("v2.0203", ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2.9", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals("Accession ID", ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+	}
+
+
+
+}

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r5/ResourceProviderR5CodeSystemVersionedTest.java

@@ -0,0 +1,273 @@
+package ca.uhn.fhir.jpa.provider.r5;
+
+import ca.uhn.fhir.jpa.api.model.DaoMethodOutcome;
+import ca.uhn.fhir.jpa.model.entity.ResourceTable;
+import ca.uhn.fhir.jpa.model.util.JpaConstants;
+import org.hl7.fhir.r4.model.codesystems.ConceptSubsumptionOutcome;
+import org.hl7.fhir.r5.model.CodeType;
+import org.hl7.fhir.r5.model.UriType;
+import org.hl7.fhir.r5.model.Enumerations;
+import org.hl7.fhir.r5.model.BooleanType;
+import org.hl7.fhir.r5.model.Coding;
+import org.hl7.fhir.r5.model.Parameters;
+import org.hl7.fhir.r5.model.StringType;
+import org.hl7.fhir.r5.model.CodeSystem;
+import org.junit.jupiter.api.BeforeEach;
+import org.junit.jupiter.api.Test;
+import org.slf4j.Logger;
+import org.slf4j.LoggerFactory;
+import org.springframework.transaction.annotation.Transactional;
+
+import java.io.IOException;
+
+import static org.junit.jupiter.api.Assertions.assertEquals;
+
+public class ResourceProviderR5CodeSystemVersionedTest extends BaseResourceProviderR5Test {
+
+	private static final String SYSTEM_PARENTCHILD = "http://parentchild";
+	private static final Logger ourLog = LoggerFactory.getLogger(ResourceProviderR5CodeSystemVersionedTest.class);
+
+	private long parentChildCs1Id;
+	private long parentChildCs2Id;
+
+	@BeforeEach
+	@Transactional
+	public void before02() throws IOException {
+		CodeSystem cs = loadResourceFromClasspath(CodeSystem.class, "/extensional-case-3-cs.xml");
+		cs.setVersion("1");
+		for(CodeSystem.ConceptDefinitionComponent conceptDefinitionComponent : cs.getConcept()) {
+			conceptDefinitionComponent.setDisplay(conceptDefinitionComponent.getDisplay() + " v1");
+		}
+		myCodeSystemDao.create(cs, mySrd);
+
+		cs = loadResourceFromClasspath(CodeSystem.class, "/extensional-case-3-cs.xml");
+		cs.setVersion("2");
+		for(CodeSystem.ConceptDefinitionComponent conceptDefinitionComponent : cs.getConcept()) {
+			conceptDefinitionComponent.setDisplay(conceptDefinitionComponent.getDisplay() + " v2");
+		}
+		myCodeSystemDao.create(cs, mySrd);
+
+		CodeSystem parentChildCs = new CodeSystem();
+		parentChildCs.setUrl(SYSTEM_PARENTCHILD);
+		parentChildCs.setVersion("1");
+		parentChildCs.setName("Parent Child CodeSystem 1");
+		parentChildCs.setStatus(Enumerations.PublicationStatus.ACTIVE);
+		parentChildCs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		parentChildCs.setHierarchyMeaning(CodeSystem.CodeSystemHierarchyMeaning.ISA);
+
+		CodeSystem.ConceptDefinitionComponent parentA = parentChildCs.addConcept().setCode("ParentA").setDisplay("Parent A");
+		parentA.addConcept().setCode("ChildAA").setDisplay("Child AA");
+		parentA.addConcept().setCode("ParentC").setDisplay("Parent C");
+		parentChildCs.addConcept().setCode("ParentB").setDisplay("Parent B");
+
+		DaoMethodOutcome parentChildCsOutcome = myCodeSystemDao.create(parentChildCs);
+		parentChildCs1Id = ((ResourceTable)parentChildCsOutcome.getEntity()).getId();
+
+		parentChildCs = new CodeSystem();
+		parentChildCs.setVersion("2");
+		parentChildCs.setName("Parent Child CodeSystem 2");
+		parentChildCs.setUrl(SYSTEM_PARENTCHILD);
+		parentChildCs.setStatus(Enumerations.PublicationStatus.ACTIVE);
+		parentChildCs.setContent(CodeSystem.CodeSystemContentMode.COMPLETE);
+		parentChildCs.setHierarchyMeaning(CodeSystem.CodeSystemHierarchyMeaning.ISA);
+
+		parentA = parentChildCs.addConcept().setCode("ParentA").setDisplay("Parent A v2");
+		parentA.addConcept().setCode("ChildAA").setDisplay("Child AA v2");
+		parentA.addConcept().setCode("ParentB").setDisplay("Parent B v2");
+		parentChildCs.addConcept().setCode("ParentC").setDisplay("Parent C v2");
+
+		parentChildCsOutcome = myCodeSystemDao.create(parentChildCs);
+		parentChildCs2Id = ((ResourceTable)parentChildCsOutcome.getEntity()).getId();
+
+	}
+
+	@Test
+	public void testLookupOperationByCoding() {
+		// First test with no version specified (should return from last version created)
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "coding", new Coding().setSystem("http://acme.org").setCode("8450-9"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2",  ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version set to 1
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "coding", new Coding().setSystem("http://acme.org").setCode("8450-9").setVersion("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("1",  ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v1"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version set to 2
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "coding", new Coding().setSystem("http://acme.org").setCode("8450-9").setVersion("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2",  ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+	}
+
+	@Test
+	public void testLookupOperationByCodeAndSystemUserDefinedCode() {
+		// First test with no version specified (should return from last version created)
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+			.andParameter("system", new UriType("http://acme.org"))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version 1 specified.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+			.andParameter("system", new UriType("http://acme.org"))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("1", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v1"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+
+		// Test with version 2 specified
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named("lookup")
+			.withParameter(Parameters.class, "code", new CodeType("8450-9"))
+			.andParameter("system", new UriType("http://acme.org"))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals("name", respParam.getParameter().get(0).getName());
+		assertEquals(("ACME Codes"), ((StringType) respParam.getParameter().get(0).getValue()).getValue());
+		assertEquals("version", respParam.getParameter().get(1).getName());
+		assertEquals("2", ((StringType) respParam.getParameter().get(1).getValue()).getValue());
+		assertEquals("display", respParam.getParameter().get(2).getName());
+		assertEquals(("Systolic blood pressure--expiration v2"), ((StringType) respParam.getParameter().get(2).getValue()).getValue());
+		assertEquals("abstract", respParam.getParameter().get(3).getName());
+		assertEquals(false, ((BooleanType) respParam.getParameter().get(3).getValue()).getValue());
+	}
+
+	@Test
+	public void testSubsumesOnCodes_Subsumes() {
+		// First test with no version specified (should return result for last version created).
+		Parameters respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentB"))
+			.andParameter("codeB", new CodeType("ParentA"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.execute();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 1.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentC"))
+			.andParameter("codeB", new CodeType("ParentA"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("1"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+		// Test with version set to 2.
+		respParam = myClient
+			.operation()
+			.onType(CodeSystem.class)
+			.named(JpaConstants.OPERATION_SUBSUMES)
+			.withParameter(Parameters.class, "codeA", new CodeType("ParentB"))
+			.andParameter("codeB", new CodeType("ParentA"))
+			.andParameter("system", new UriType(SYSTEM_PARENTCHILD))
+			.andParameter("version", new StringType("2"))
+			.execute();
+
+		resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(respParam);
+		ourLog.info(resp);
+
+		assertEquals(1, respParam.getParameter().size());
+		assertEquals("outcome", respParam.getParameter().get(0).getName());
+		assertEquals(ConceptSubsumptionOutcome.SUBSUMES.toCode(), ((CodeType) respParam.getParameter().get(0).getValue()).getValue());
+
+	}
+
+}

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r5/ResourceProviderR5ConceptMapTest.java

@@ -0,0 +1,190 @@
+package ca.uhn.fhir.jpa.provider.r5;
+
+import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.assertFalse;
+import static org.junit.jupiter.api.Assertions.assertTrue;
+
+import org.hl7.fhir.instance.model.api.IIdType;
+import org.hl7.fhir.r5.model.BooleanType;
+import org.hl7.fhir.r5.model.CodeType;
+import org.hl7.fhir.r5.model.Coding;
+import org.hl7.fhir.r5.model.ConceptMap;
+import org.hl7.fhir.r5.model.ConceptMap.ConceptMapGroupComponent;
+import org.hl7.fhir.r5.model.ConceptMap.SourceElementComponent;
+import org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent;
+import org.hl7.fhir.r5.model.Enumerations.ConceptMapRelationship;
+import org.hl7.fhir.r5.model.Parameters;
+import org.hl7.fhir.r5.model.Parameters.ParametersParameterComponent;
+import org.hl7.fhir.r5.model.StringType;
+import org.hl7.fhir.r5.model.UriType;
+import org.junit.jupiter.api.Test;
+import org.slf4j.Logger;
+import org.slf4j.LoggerFactory;
+
+public class ResourceProviderR5ConceptMapTest extends BaseResourceProviderR5Test {
+	private static final Logger ourLog = LoggerFactory.getLogger(ResourceProviderR5ConceptMapTest.class);
+
+	@Test
+	public void testTranslateWithConceptMapUrlAndVersion() {
+		
+		//- conceptMap1 v1
+		ConceptMap conceptMap1 = new ConceptMap();
+		conceptMap1.setUrl(CM_URL).setVersion("v1").setSource(new UriType(VS_URL)).setTarget(new UriType(VS_URL_2));
+		
+		ConceptMapGroupComponent group1 = conceptMap1.addGroup();
+		group1.setSource(CS_URL).setSourceVersion("Version 1").setTarget(CS_URL_2).setTargetVersion("Version 2");
+
+		SourceElementComponent element1 = group1.addElement();
+		element1.setCode("11111").setDisplay("Source Code 11111");
+
+		TargetElementComponent target1 = element1.addTarget();
+		target1.setCode("12222").setDisplay("Target Code 12222");
+		
+		IIdType conceptMapId1 = myConceptMapDao.create(conceptMap1, mySrd).getId().toUnqualifiedVersionless();
+		conceptMap1 = myConceptMapDao.read(conceptMapId1);
+		
+		ourLog.info("ConceptMap: 2 \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(conceptMap1));
+	
+		//- conceptMap1 v2
+		ConceptMap conceptMap2 = new ConceptMap();
+		conceptMap2.setUrl(CM_URL).setVersion("v2").setSource(new UriType(VS_URL)).setTarget(new UriType(VS_URL_2));
+		
+		ConceptMapGroupComponent group2 = conceptMap2.addGroup();
+		group2.setSource(CS_URL).setSourceVersion("Version 1").setTarget(CS_URL_2).setTargetVersion("Version 2");
+
+		SourceElementComponent element2 = group2.addElement();
+		element2.setCode("11111").setDisplay("Source Code 11111");
+
+		TargetElementComponent target2 = element2.addTarget();
+		target2.setCode("13333").setDisplay("Target Code 13333");
+		
+		IIdType conceptMapId2 = myConceptMapDao.create(conceptMap2, mySrd).getId().toUnqualifiedVersionless();
+		conceptMap2 = myConceptMapDao.read(conceptMapId2);
+		
+		ourLog.info("ConceptMap: 2 \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(conceptMap2));
+
+		
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CM_URL));
+		inParams.addParameter().setName("conceptMapVersion").setValue(new StringType("v2"));
+		inParams.addParameter().setName("system").setValue(new UriType(CS_URL));
+		inParams.addParameter().setName("targetsystem").setValue(new UriType(CS_URL_2));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		
+		Parameters respParams = myClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+		
+		
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(2, param.getPart().size());
+		
+		ParametersParameterComponent part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Target Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL_2, coding.getSystem());
+		assertEquals("Version 2", coding.getVersion());
+		
+		part = getPartByName(param, "source");
+		assertEquals(CM_URL, ((UriType) part.getValue()).getValueAsString());
+	
+	}
+	
+	@Test
+	public void testTranslateWithReverseConceptMapUrlAndVersion() {
+		
+		//- conceptMap1 v1
+		ConceptMap conceptMap1 = new ConceptMap();
+		conceptMap1.setUrl(CM_URL).setVersion("v1").setSource(new UriType(VS_URL)).setTarget(new UriType(VS_URL_2));
+		
+		ConceptMapGroupComponent group1 = conceptMap1.addGroup();
+		group1.setSource(CS_URL).setSourceVersion("Version 1").setTarget(CS_URL_2).setTargetVersion("Version 2");
+
+		SourceElementComponent element1 = group1.addElement();
+		element1.setCode("12222").setDisplay("Source Code 12222");
+
+		TargetElementComponent target1 = element1.addTarget();
+		target1.setCode("11111").setDisplay("11111").setRelationship(ConceptMapRelationship.EQUIVALENT);
+		
+		IIdType conceptMapId1 = myConceptMapDao.create(conceptMap1, mySrd).getId().toUnqualifiedVersionless();
+		conceptMap1 = myConceptMapDao.read(conceptMapId1);
+		
+		ourLog.info("ConceptMap: 2 \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(conceptMap1));
+	
+		//- conceptMap1 v2
+		ConceptMap conceptMap2 = new ConceptMap();
+		conceptMap2.setUrl(CM_URL).setVersion("v2").setSource(new UriType(VS_URL)).setTarget(new UriType(VS_URL_2));
+		
+		ConceptMapGroupComponent group2 = conceptMap2.addGroup();
+		group2.setSource(CS_URL).setSourceVersion("Version 1").setTarget(CS_URL_2).setTargetVersion("Version 2");
+
+		SourceElementComponent element2 = group2.addElement();
+		element2.setCode("13333").setDisplay("Source Code 13333");
+
+		TargetElementComponent target2 = element2.addTarget();
+		target2.setCode("11111").setDisplay("Target Code 11111").setRelationship(ConceptMapRelationship.EQUIVALENT);
+		
+		IIdType conceptMapId2 = myConceptMapDao.create(conceptMap2, mySrd).getId().toUnqualifiedVersionless();
+		conceptMap2 = myConceptMapDao.read(conceptMapId2);
+		
+		ourLog.info("ConceptMap: 2 \n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(conceptMap2));
+
+		
+		Parameters inParams = new Parameters();
+		inParams.addParameter().setName("url").setValue(new UriType(CM_URL));
+		inParams.addParameter().setName("conceptMapVersion").setValue(new StringType("v2"));
+		inParams.addParameter().setName("code").setValue(new CodeType("11111"));
+		inParams.addParameter().setName("reverse").setValue(new BooleanType(true));
+
+		ourLog.info("Request Parameters:\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(inParams));
+
+		
+		Parameters respParams = myClient
+			.operation()
+			.onType(ConceptMap.class)
+			.named("translate")
+			.withParameters(inParams)
+			.execute();
+
+		ourLog.info("Response Parameters\n" + myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(respParams));
+		
+		
+		ParametersParameterComponent param = getParameterByName(respParams, "result");
+		assertTrue(((BooleanType) param.getValue()).booleanValue());
+
+		param = getParameterByName(respParams, "message");
+		assertEquals("Matches found!", ((StringType) param.getValue()).getValueAsString());
+
+		assertEquals(1, getNumberOfParametersByName(respParams, "match"));
+		param = getParametersByName(respParams, "match").get(0);
+		assertEquals(3, param.getPart().size());
+		ParametersParameterComponent part = getPartByName(param, "equivalence");
+		assertEquals("equivalent", ((CodeType) part.getValue()).getCode());
+		part = getPartByName(param, "concept");
+		Coding coding = (Coding) part.getValue();
+		assertEquals("13333", coding.getCode());
+		assertEquals("Source Code 13333", coding.getDisplay());
+		assertFalse(coding.getUserSelected());
+		assertEquals(CS_URL, coding.getSystem());
+		assertEquals("Version 1", coding.getVersion());
+		part = getPartByName(param, "source");
+		assertEquals(CM_URL, ((UriType) part.getValue()).getValueAsString());	
+	}
+}

hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r5/ResourceProviderR5ValueSetTest.java

@@ -457,6 +457,27 @@ public class ResourceProviderR5ValueSetTest extends BaseResourceProviderR5Test {
 
 	}
 
+	@Test
+	public void testExpandByUrlNoPreExpand() throws Exception {
+		myDaoConfig.setPreExpandValueSets(false);
+		loadAndPersistCodeSystemAndValueSet(HTTPVerb.POST);
+
+		Parameters respParam = myClient
+			.operation()
+			.onType(ValueSet.class)
+			.named("expand")
+			.withParameter(Parameters.class, "url", new UriType("http://www.healthintersections.com.au/fhir/ValueSet/extensional-case-2"))
+			.execute();
+		ValueSet expanded = (ValueSet) respParam.getParameter().get(0).getResource();
+
+		String resp = myFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(expanded);
+		ourLog.info(resp);
+		assertThat(resp, stringContainsInOrder(
+			"<code value=\"11378-7\"/>",
+			"<display value=\"Systolic blood pressure at First encounter\"/>"));
+
+	}
+
 	@Test
 	public void testExpandByUrlWithBogusUrl() throws Exception {
 		loadAndPersistCodeSystemAndValueSet(HTTPVerb.POST);
@@ -1405,6 +1426,7 @@ public class ResourceProviderR5ValueSetTest extends BaseResourceProviderR5Test {
 	public static CodeSystem createExternalCs(IFhirResourceDao<CodeSystem> theCodeSystemDao, IResourceTableDao theResourceTableDao, ITermCodeSystemStorageSvc theTermCodeSystemStorageSvc, ServletRequestDetails theRequestDetails) {
 		CodeSystem codeSystem = new CodeSystem();
 		codeSystem.setUrl(URL_MY_CODE_SYSTEM);
+		codeSystem.setVersion("SYSTEM VERSION");
 		codeSystem.setContent(CodeSystemContentMode.NOTPRESENT);
 		IIdType id = theCodeSystemDao.create(codeSystem, theRequestDetails).getId().toUnqualified();