Merge branch 'master' of github.com:jamesagnew/hapi-fhir
This commit is contained in:
commit
1ef70a0fca
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@ -127,11 +127,5 @@ ca.uhn.fhir.jpa.term.BaseHapiTerminologySvcImpl.cannotCreateDuplicateCodeSystemU
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ca.uhn.fhir.jpa.term.BaseHapiTerminologySvcImpl.cannotCreateDuplicateConceptMapUrl=Can not create multiple ConceptMap resources with ConceptMap.url "{0}", already have one with resource ID: {1}
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ca.uhn.fhir.jpa.term.BaseHapiTerminologySvcImpl.cannotCreateDuplicateConceptMapUrl=Can not create multiple ConceptMap resources with ConceptMap.url "{0}", already have one with resource ID: {1}
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ca.uhn.fhir.jpa.term.BaseHapiTerminologySvcImpl.cannotCreateDuplicateValueSetUrl=Can not create multiple ValueSet resources with ValueSet.url "{0}", already have one with resource ID: {1}
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ca.uhn.fhir.jpa.term.BaseHapiTerminologySvcImpl.cannotCreateDuplicateValueSetUrl=Can not create multiple ValueSet resources with ValueSet.url "{0}", already have one with resource ID: {1}
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ca.uhn.fhir.jpa.term.BaseHapiTerminologySvcImpl.expansionTooLarge=Expansion of ValueSet produced too many codes (maximum {0}) - Operation aborted!
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ca.uhn.fhir.jpa.term.BaseHapiTerminologySvcImpl.expansionTooLarge=Expansion of ValueSet produced too many codes (maximum {0}) - Operation aborted!
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ca.uhn.fhir.jpa.term.BaseHapiTerminologySvcImpl.valueSetNotReadyForExpand=ValueSet is not ready for operation $expand; current status: {0} | {1}
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ca.uhn.fhir.jpa.util.jsonpatch.JsonPatchUtils.failedToApplyPatch=Failed to apply JSON patch to {0}: {1}
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ca.uhn.fhir.jpa.util.jsonpatch.JsonPatchUtils.failedToApplyPatch=Failed to apply JSON patch to {0}: {1}
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ca.uhn.fhir.jpa.entity.TermValueSetPreExpansionStatusEnum.notExpanded=The ValueSet is waiting to be picked up and pre-expanded by a scheduled task.
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ca.uhn.fhir.jpa.entity.TermValueSetPreExpansionStatusEnum.expansionInProgress=The ValueSet has been picked up by a scheduled task and pre-expansion is in progress.
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ca.uhn.fhir.jpa.entity.TermValueSetPreExpansionStatusEnum.expanded=The ValueSet has been picked up by a scheduled task and pre-expansion is complete.
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ca.uhn.fhir.jpa.entity.TermValueSetPreExpansionStatusEnum.failedToExpand=The ValueSet has been picked up by a scheduled task and pre-expansion has failed.
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@ -47,8 +47,8 @@ public interface ITermValueSetConceptDao extends JpaRepository<TermValueSetConce
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Optional<TermValueSetConcept> findByTermValueSetIdSystemAndCode(@Param("pid") Long theValueSetId, @Param("system_url") String theSystem, @Param("codeval") String theCode);
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Optional<TermValueSetConcept> findByTermValueSetIdSystemAndCode(@Param("pid") Long theValueSetId, @Param("system_url") String theSystem, @Param("codeval") String theCode);
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@Query("SELECT vsc FROM TermValueSetConcept vsc WHERE vsc.myValueSet.myResourcePid = :resource_pid AND vsc.myCode = :codeval")
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@Query("SELECT vsc FROM TermValueSetConcept vsc WHERE vsc.myValueSet.myResourcePid = :resource_pid AND vsc.myCode = :codeval")
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List<TermValueSetConcept> findOneByValueSetIdAndCode(@Param("resource_pid") Long theValueSetId, @Param("codeval") String theCode);
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List<TermValueSetConcept> findByValueSetResourcePidAndCode(@Param("resource_pid") Long theValueSetId, @Param("codeval") String theCode);
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@Query("SELECT vsc FROM TermValueSetConcept vsc WHERE vsc.myValueSet.myResourcePid = :resource_pid AND vsc.mySystem = :system_url AND vsc.myCode = :codeval")
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@Query("SELECT vsc FROM TermValueSetConcept vsc WHERE vsc.myValueSet.myResourcePid = :resource_pid AND vsc.mySystem = :system_url AND vsc.myCode = :codeval")
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List<TermValueSetConcept> findOneByValueSetIdSystemAndCode(@Param("resource_pid") Long theValueSetId, @Param("system_url") String theSystem, @Param("codeval") String theCode);
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Optional<TermValueSetConcept> findByValueSetResourcePidSystemAndCode(@Param("resource_pid") Long theValueSetId, @Param("system_url") String theSystem, @Param("codeval") String theCode);
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}
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}
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@ -331,7 +331,7 @@ public class FhirResourceDaoValueSetDstu3 extends FhirResourceDaoDstu3<ValueSet>
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if (vs != null) {
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if (vs != null) {
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ValidateCodeResult result;
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ValidateCodeResult result;
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if (myDaoConfig.isPreExpandValueSetsExperimental()) {
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if (myDaoConfig.isPreExpandValueSetsExperimental() && myTerminologySvc.isValueSetPreExpandedForCodeValidation(vs)) {
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result = myTerminologySvc.validateCodeIsInPreExpandedValueSet(vs, toStringOrNull(theSystem), toStringOrNull(theCode), toStringOrNull(theDisplay), theCoding, theCodeableConcept);
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result = myTerminologySvc.validateCodeIsInPreExpandedValueSet(vs, toStringOrNull(theSystem), toStringOrNull(theCode), toStringOrNull(theDisplay), theCoding, theCodeableConcept);
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} else {
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} else {
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ValueSet expansion = doExpand(vs);
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ValueSet expansion = doExpand(vs);
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@ -327,7 +327,7 @@ public class FhirResourceDaoValueSetR4 extends FhirResourceDaoR4<ValueSet> imple
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if (vs != null) {
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if (vs != null) {
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ValidateCodeResult result;
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ValidateCodeResult result;
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if (myDaoConfig.isPreExpandValueSetsExperimental()) {
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if (myDaoConfig.isPreExpandValueSetsExperimental() && myTerminologySvc.isValueSetPreExpandedForCodeValidation(vs)) {
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result = myTerminologySvc.validateCodeIsInPreExpandedValueSet(vs, toStringOrNull(theSystem), toStringOrNull(theCode), toStringOrNull(theDisplay), theCoding, theCodeableConcept);
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result = myTerminologySvc.validateCodeIsInPreExpandedValueSet(vs, toStringOrNull(theSystem), toStringOrNull(theCode), toStringOrNull(theDisplay), theCoding, theCodeableConcept);
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} else {
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} else {
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ValueSet expansion = doExpand(vs);
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ValueSet expansion = doExpand(vs);
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@ -333,7 +333,7 @@ public class FhirResourceDaoValueSetR5 extends FhirResourceDaoR5<ValueSet> imple
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if (vs != null) {
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if (vs != null) {
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ValidateCodeResult result;
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ValidateCodeResult result;
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if (myDaoConfig.isPreExpandValueSetsExperimental()) {
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if (myDaoConfig.isPreExpandValueSetsExperimental() && myTerminologySvc.isValueSetPreExpandedForCodeValidation(vs)) {
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result = myTerminologySvc.validateCodeIsInPreExpandedValueSet(vs, toStringOrNull(theSystem), toStringOrNull(theCode), toStringOrNull(theDisplay), theCoding, theCodeableConcept);
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result = myTerminologySvc.validateCodeIsInPreExpandedValueSet(vs, toStringOrNull(theSystem), toStringOrNull(theCode), toStringOrNull(theDisplay), theCoding, theCodeableConcept);
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} else {
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} else {
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ValueSet expansion = doExpand(vs);
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ValueSet expansion = doExpand(vs);
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@ -29,26 +29,32 @@ import java.util.Map;
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* an expanded ValueSet has its included concepts stored in the terminology tables as well.
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* an expanded ValueSet has its included concepts stored in the terminology tables as well.
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*/
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*/
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public enum TermValueSetPreExpansionStatusEnum {
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public enum TermValueSetPreExpansionStatusEnum {
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/**
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/*
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* Sorting agnostic.
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* Sorting agnostic.
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*/
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*/
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NOT_EXPANDED("notExpanded"),
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NOT_EXPANDED("notExpanded", "The ValueSet is waiting to be picked up and pre-expanded by a scheduled task."),
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EXPANSION_IN_PROGRESS("expansionInProgress"),
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EXPANSION_IN_PROGRESS("expansionInProgress", "The ValueSet has been picked up by a scheduled task and pre-expansion is in progress."),
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EXPANDED("expanded"),
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EXPANDED("expanded", "The ValueSet has been picked up by a scheduled task and pre-expansion is complete."),
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FAILED_TO_EXPAND("failedToExpand");
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FAILED_TO_EXPAND("failedToExpand", "The ValueSet has been picked up by a scheduled task and pre-expansion has failed.");
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private static Map<String, TermValueSetPreExpansionStatusEnum> ourValues;
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private static Map<String, TermValueSetPreExpansionStatusEnum> ourValues;
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private String myCode;
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private String myCode;
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private String myDescription;
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TermValueSetPreExpansionStatusEnum(String theCode) {
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TermValueSetPreExpansionStatusEnum(String theCode, String theDescription) {
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myCode = theCode;
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myCode = theCode;
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myDescription = theDescription;
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}
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}
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public String getCode() {
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public String getCode() {
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return myCode;
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return myCode;
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}
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}
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public String getDescription() {
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return myDescription;
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}
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public static TermValueSetPreExpansionStatusEnum fromCode(String theCode) {
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public static TermValueSetPreExpansionStatusEnum fromCode(String theCode) {
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if (ourValues == null) {
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if (ourValues == null) {
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HashMap<String, TermValueSetPreExpansionStatusEnum> values = new HashMap<String, TermValueSetPreExpansionStatusEnum>();
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HashMap<String, TermValueSetPreExpansionStatusEnum> values = new HashMap<String, TermValueSetPreExpansionStatusEnum>();
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@ -55,6 +55,7 @@ import org.hibernate.search.query.dsl.BooleanJunction;
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import org.hibernate.search.query.dsl.QueryBuilder;
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import org.hibernate.search.query.dsl.QueryBuilder;
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import org.hl7.fhir.exceptions.FHIRException;
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import org.hl7.fhir.exceptions.FHIRException;
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import org.hl7.fhir.instance.model.api.IBaseCoding;
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import org.hl7.fhir.instance.model.api.IBaseCoding;
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import org.hl7.fhir.instance.model.api.IBaseResource;
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import org.hl7.fhir.instance.model.api.IIdType;
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import org.hl7.fhir.instance.model.api.IIdType;
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import org.hl7.fhir.instance.model.api.IPrimitiveType;
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import org.hl7.fhir.instance.model.api.IPrimitiveType;
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import org.hl7.fhir.r4.model.*;
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import org.hl7.fhir.r4.model.*;
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@ -145,6 +146,7 @@ public abstract class BaseHapiTerminologySvcImpl implements IHapiTerminologySvc,
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@Autowired
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@Autowired
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private PlatformTransactionManager myTransactionMgr;
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private PlatformTransactionManager myTransactionMgr;
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private IFhirResourceDaoCodeSystem<?, ?, ?> myCodeSystemResourceDao;
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private IFhirResourceDaoCodeSystem<?, ?, ?> myCodeSystemResourceDao;
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private IFhirResourceDaoValueSet<?, ?, ?> myValueSetResourceDao;
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private Cache<TranslationQuery, List<TermConceptMapGroupElementTarget>> myTranslationCache;
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private Cache<TranslationQuery, List<TermConceptMapGroupElementTarget>> myTranslationCache;
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private Cache<TranslationQuery, List<TermConceptMapGroupElement>> myTranslationWithReverseCache;
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private Cache<TranslationQuery, List<TermConceptMapGroupElement>> myTranslationWithReverseCache;
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private int myFetchSize = DEFAULT_FETCH_SIZE;
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private int myFetchSize = DEFAULT_FETCH_SIZE;
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@ -486,7 +488,8 @@ public abstract class BaseHapiTerminologySvcImpl implements IHapiTerminologySvc,
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Optional<TermValueSet> optionalTermValueSet;
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Optional<TermValueSet> optionalTermValueSet;
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if (theValueSetToExpand.hasId()) {
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if (theValueSetToExpand.hasId()) {
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optionalTermValueSet = myValueSetDao.findByResourcePid(theValueSetToExpand.getIdElement().getIdPartAsLong());
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Long valueSetResourcePid = getValueSetResourcePid(theValueSetToExpand.getIdElement());
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optionalTermValueSet = myValueSetDao.findByResourcePid(valueSetResourcePid);
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} else if (theValueSetToExpand.hasUrl()) {
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} else if (theValueSetToExpand.hasUrl()) {
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optionalTermValueSet = myValueSetDao.findByUrl(theValueSetToExpand.getUrl());
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optionalTermValueSet = myValueSetDao.findByUrl(theValueSetToExpand.getUrl());
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} else {
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} else {
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@ -494,12 +497,18 @@ public abstract class BaseHapiTerminologySvcImpl implements IHapiTerminologySvc,
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}
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}
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if (!optionalTermValueSet.isPresent()) {
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if (!optionalTermValueSet.isPresent()) {
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throw new InvalidRequestException("ValueSet is not present in terminology tables: " + theValueSetToExpand.getUrl());
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ourLog.warn("ValueSet is not present in terminology tables. Will perform in-memory expansion without parameters. Will schedule this ValueSet for pre-expansion. {}", getValueSetInfo(theValueSetToExpand));
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myDeferredValueSets.add(theValueSetToExpand);
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return expandValueSet(theValueSetToExpand); // In-memory expansion.
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}
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}
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TermValueSet termValueSet = optionalTermValueSet.get();
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TermValueSet termValueSet = optionalTermValueSet.get();
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validatePreExpansionStatusOfValueSetOrThrowException(termValueSet.getExpansionStatus());
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if (termValueSet.getExpansionStatus() != TermValueSetPreExpansionStatusEnum.EXPANDED) {
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ourLog.warn("{} is present in terminology tables but not ready for persistence-backed invocation of operation $expand. Will perform in-memory expansion without parameters. Current status: {} | {}",
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getValueSetInfo(theValueSetToExpand), termValueSet.getExpansionStatus().name(), termValueSet.getExpansionStatus().getDescription());
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return expandValueSet(theValueSetToExpand); // In-memory expansion.
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}
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ValueSet.ValueSetExpansionComponent expansionComponent = new ValueSet.ValueSetExpansionComponent();
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ValueSet.ValueSetExpansionComponent expansionComponent = new ValueSet.ValueSetExpansionComponent();
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expansionComponent.setIdentifier(UUID.randomUUID().toString());
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expansionComponent.setIdentifier(UUID.randomUUID().toString());
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@ -514,20 +523,6 @@ public abstract class BaseHapiTerminologySvcImpl implements IHapiTerminologySvc,
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return valueSet;
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return valueSet;
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}
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}
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private void validatePreExpansionStatusOfValueSetOrThrowException(TermValueSetPreExpansionStatusEnum thePreExpansionStatus) {
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if (TermValueSetPreExpansionStatusEnum.EXPANDED != thePreExpansionStatus) {
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String statusMsg = myContext.getLocalizer().getMessage(
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TermValueSetPreExpansionStatusEnum.class,
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thePreExpansionStatus.getCode());
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String msg = myContext.getLocalizer().getMessage(
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BaseHapiTerminologySvcImpl.class,
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"valueSetNotReadyForExpand",
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thePreExpansionStatus.name(),
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statusMsg);
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throw new UnprocessableEntityException(msg);
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}
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}
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private void populateExpansionComponent(ValueSet.ValueSetExpansionComponent theExpansionComponent, TermValueSet theTermValueSet, int theOffset, int theCount) {
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private void populateExpansionComponent(ValueSet.ValueSetExpansionComponent theExpansionComponent, TermValueSet theTermValueSet, int theOffset, int theCount) {
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int total = myValueSetConceptDao.countByTermValueSetId(theTermValueSet.getId());
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int total = myValueSetConceptDao.countByTermValueSetId(theTermValueSet.getId());
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theExpansionComponent.setTotal(total);
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theExpansionComponent.setTotal(total);
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@ -960,28 +955,49 @@ public abstract class BaseHapiTerminologySvcImpl implements IHapiTerminologySvc,
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}
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}
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}
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}
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@Override
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public boolean isValueSetPreExpandedForCodeValidation(ValueSet theValueSet) {
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Long valueSetResourcePid = getValueSetResourcePid(theValueSet.getIdElement());
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Optional<TermValueSet> optionalTermValueSet = myValueSetDao.findByResourcePid(valueSetResourcePid);
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if (!optionalTermValueSet.isPresent()) {
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ourLog.warn("ValueSet is not present in terminology tables. Will perform in-memory code validation. Will schedule this ValueSet for pre-expansion. {}", getValueSetInfo(theValueSet));
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myDeferredValueSets.add(theValueSet);
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return false;
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}
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TermValueSet termValueSet = optionalTermValueSet.get();
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if (termValueSet.getExpansionStatus() != TermValueSetPreExpansionStatusEnum.EXPANDED) {
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ourLog.warn("{} is present in terminology tables but not ready for persistence-backed invocation of operation $validation-code. Will perform in-memory code validation. Current status: {} | {}",
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getValueSetInfo(theValueSet), termValueSet.getExpansionStatus().name(), termValueSet.getExpansionStatus().getDescription());
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return false;
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}
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return true;
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}
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protected ValidateCodeResult validateCodeIsInPreExpandedValueSet(
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protected ValidateCodeResult validateCodeIsInPreExpandedValueSet(
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ValueSet theValueSet, String theSystem, String theCode, String theDisplay, Coding theCoding, CodeableConcept theCodeableConcept) {
|
ValueSet theValueSet, String theSystem, String theCode, String theDisplay, Coding theCoding, CodeableConcept theCodeableConcept) {
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|
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ValidateUtil.isNotNullOrThrowUnprocessableEntity(theValueSet.hasId(), "ValueSet.id is required");
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ValidateUtil.isNotNullOrThrowUnprocessableEntity(theValueSet.hasId(), "ValueSet.id is required");
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Long valueSetResourcePid = getValueSetResourcePid(theValueSet.getIdElement());
|
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Long valueSetId = theValueSet.getIdElement().toUnqualifiedVersionless().getIdPartAsLong();
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|
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List<TermValueSetConcept> concepts = new ArrayList<>();
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List<TermValueSetConcept> concepts = new ArrayList<>();
|
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if (isNotBlank(theCode)) {
|
if (isNotBlank(theCode)) {
|
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if (isNotBlank(theSystem)) {
|
if (isNotBlank(theSystem)) {
|
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concepts = myValueSetConceptDao.findOneByValueSetIdSystemAndCode(valueSetId, theSystem, theCode);
|
concepts.addAll(findByValueSetResourcePidSystemAndCode(valueSetResourcePid, theSystem, theCode));
|
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} else {
|
} else {
|
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concepts = myValueSetConceptDao.findOneByValueSetIdAndCode(valueSetId, theCode);
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concepts.addAll(myValueSetConceptDao.findByValueSetResourcePidAndCode(valueSetResourcePid, theCode));
|
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}
|
}
|
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} else if (theCoding != null) {
|
} else if (theCoding != null) {
|
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if (theCoding.hasSystem() && theCoding.hasCode()) {
|
if (theCoding.hasSystem() && theCoding.hasCode()) {
|
||||||
concepts = myValueSetConceptDao.findOneByValueSetIdSystemAndCode(valueSetId, theCoding.getSystem(), theCoding.getCode());
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concepts.addAll(findByValueSetResourcePidSystemAndCode(valueSetResourcePid, theCoding.getSystem(), theCoding.getCode()));
|
||||||
}
|
}
|
||||||
} else if (theCodeableConcept != null){
|
} else if (theCodeableConcept != null){
|
||||||
for (Coding coding : theCodeableConcept.getCoding()) {
|
for (Coding coding : theCodeableConcept.getCoding()) {
|
||||||
if (coding.hasSystem() && coding.hasCode()) {
|
if (coding.hasSystem() && coding.hasCode()) {
|
||||||
concepts = myValueSetConceptDao.findOneByValueSetIdSystemAndCode(valueSetId, coding.getSystem(), coding.getCode());
|
concepts.addAll(findByValueSetResourcePidSystemAndCode(valueSetResourcePid, coding.getSystem(), coding.getCode()));
|
||||||
if (!concepts.isEmpty()) {
|
if (!concepts.isEmpty()) {
|
||||||
break;
|
break;
|
||||||
}
|
}
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|
@ -1002,6 +1018,15 @@ public abstract class BaseHapiTerminologySvcImpl implements IHapiTerminologySvc,
|
||||||
return null;
|
return null;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
private List<TermValueSetConcept> findByValueSetResourcePidSystemAndCode(Long theResourcePid, String theSystem, String theCode) {
|
||||||
|
List<TermValueSetConcept> retVal = new ArrayList<>();
|
||||||
|
Optional<TermValueSetConcept> optionalTermValueSetConcept = myValueSetConceptDao.findByValueSetResourcePidSystemAndCode(theResourcePid, theSystem, theCode);
|
||||||
|
if (optionalTermValueSetConcept.isPresent()) {
|
||||||
|
retVal.add(optionalTermValueSetConcept.get());
|
||||||
|
}
|
||||||
|
return retVal;
|
||||||
|
}
|
||||||
|
|
||||||
private void fetchChildren(TermConcept theConcept, Set<TermConcept> theSetToPopulate) {
|
private void fetchChildren(TermConcept theConcept, Set<TermConcept> theSetToPopulate) {
|
||||||
for (TermConceptParentChildLink nextChildLink : theConcept.getChildren()) {
|
for (TermConceptParentChildLink nextChildLink : theConcept.getChildren()) {
|
||||||
TermConcept nextChild = nextChildLink.getChild();
|
TermConcept nextChild = nextChildLink.getChild();
|
||||||
|
@ -1134,6 +1159,27 @@ public abstract class BaseHapiTerminologySvcImpl implements IHapiTerminologySvc,
|
||||||
|
|
||||||
protected abstract CodeSystem getCodeSystemFromContext(String theSystem);
|
protected abstract CodeSystem getCodeSystemFromContext(String theSystem);
|
||||||
|
|
||||||
|
private Long getCodeSystemResourcePid(IIdType theIdType) {
|
||||||
|
return getCodeSystemResourcePid(theIdType, null);
|
||||||
|
}
|
||||||
|
|
||||||
|
private Long getCodeSystemResourcePid(IIdType theIdType, RequestDetails theRequestDetails) {
|
||||||
|
return getResourcePid(myCodeSystemResourceDao, theIdType, theRequestDetails);
|
||||||
|
}
|
||||||
|
|
||||||
|
private Long getValueSetResourcePid(IIdType theIdType) {
|
||||||
|
return getValueSetResourcePid(theIdType, null);
|
||||||
|
}
|
||||||
|
|
||||||
|
private Long getValueSetResourcePid(IIdType theIdType, RequestDetails theRequestDetails) {
|
||||||
|
return getResourcePid(myValueSetResourceDao, theIdType, theRequestDetails);
|
||||||
|
}
|
||||||
|
|
||||||
|
private Long getResourcePid(IFhirResourceDao<? extends IBaseResource> theResourceDao, IIdType theIdType, RequestDetails theRequestDetails) {
|
||||||
|
ResourceTable resourceTable = (ResourceTable) theResourceDao.readEntity(theIdType, theRequestDetails);
|
||||||
|
return resourceTable.getId();
|
||||||
|
}
|
||||||
|
|
||||||
private void persistChildren(TermConcept theConcept, TermCodeSystemVersion theCodeSystem, IdentityHashMap<TermConcept, Object> theConceptsStack, int theTotalConcepts) {
|
private void persistChildren(TermConcept theConcept, TermCodeSystemVersion theCodeSystem, IdentityHashMap<TermConcept, Object> theConceptsStack, int theTotalConcepts) {
|
||||||
if (theConceptsStack.put(theConcept, PLACEHOLDER_OBJECT) != null) {
|
if (theConceptsStack.put(theConcept, PLACEHOLDER_OBJECT) != null) {
|
||||||
return;
|
return;
|
||||||
|
@ -1467,6 +1513,7 @@ public abstract class BaseHapiTerminologySvcImpl implements IHapiTerminologySvc,
|
||||||
@PostConstruct
|
@PostConstruct
|
||||||
public void start() {
|
public void start() {
|
||||||
myCodeSystemResourceDao = myApplicationContext.getBean(IFhirResourceDaoCodeSystem.class);
|
myCodeSystemResourceDao = myApplicationContext.getBean(IFhirResourceDaoCodeSystem.class);
|
||||||
|
myValueSetResourceDao = myApplicationContext.getBean(IFhirResourceDaoValueSet.class);
|
||||||
myTxTemplate = new TransactionTemplate(myTransactionManager);
|
myTxTemplate = new TransactionTemplate(myTransactionManager);
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -1600,7 +1647,7 @@ public abstract class BaseHapiTerminologySvcImpl implements IHapiTerminologySvc,
|
||||||
if (theCodeSystem.getContent() == CodeSystem.CodeSystemContentMode.COMPLETE || theCodeSystem.getContent() == null || theCodeSystem.getContent() == CodeSystem.CodeSystemContentMode.NOTPRESENT) {
|
if (theCodeSystem.getContent() == CodeSystem.CodeSystemContentMode.COMPLETE || theCodeSystem.getContent() == null || theCodeSystem.getContent() == CodeSystem.CodeSystemContentMode.NOTPRESENT) {
|
||||||
ourLog.info("CodeSystem {} has a status of {}, going to store concepts in terminology tables", theResourceEntity.getIdDt().getValue(), theCodeSystem.getContentElement().getValueAsString());
|
ourLog.info("CodeSystem {} has a status of {}, going to store concepts in terminology tables", theResourceEntity.getIdDt().getValue(), theCodeSystem.getContentElement().getValueAsString());
|
||||||
|
|
||||||
Long codeSystemResourcePid = IDao.RESOURCE_PID.get(theCodeSystem);
|
Long codeSystemResourcePid = getCodeSystemResourcePid(theCodeSystem.getIdElement());
|
||||||
TermCodeSystemVersion persCs = myCodeSystemVersionDao.findCurrentVersionForCodeSystemResourcePid(codeSystemResourcePid);
|
TermCodeSystemVersion persCs = myCodeSystemVersionDao.findCurrentVersionForCodeSystemResourcePid(codeSystemResourcePid);
|
||||||
if (persCs != null) {
|
if (persCs != null) {
|
||||||
ourLog.info("Code system version already exists in database");
|
ourLog.info("Code system version already exists in database");
|
||||||
|
@ -1799,7 +1846,7 @@ public abstract class BaseHapiTerminologySvcImpl implements IHapiTerminologySvc,
|
||||||
|
|
||||||
@Scheduled(fixedDelay = 600000) // 10 minutes.
|
@Scheduled(fixedDelay = 600000) // 10 minutes.
|
||||||
@Override
|
@Override
|
||||||
public synchronized void preExpandValueSetToTerminologyTables() {
|
public synchronized void preExpandDeferredValueSetsToTerminologyTables() {
|
||||||
if (isNotSafeToPreExpandValueSets()) {
|
if (isNotSafeToPreExpandValueSets()) {
|
||||||
ourLog.info("Skipping scheduled pre-expansion of ValueSets while deferred entities are being loaded.");
|
ourLog.info("Skipping scheduled pre-expansion of ValueSets while deferred entities are being loaded.");
|
||||||
return;
|
return;
|
||||||
|
|
|
@ -153,4 +153,9 @@ public class HapiTerminologySvcDstu2 extends BaseHapiTerminologySvcImpl {
|
||||||
public ValidateCodeResult validateCodeIsInPreExpandedValueSet(IBaseResource theValueSet, String theSystem, String theCode, String theDisplay, IBaseDatatype theCoding, IBaseDatatype theCodeableConcept) {
|
public ValidateCodeResult validateCodeIsInPreExpandedValueSet(IBaseResource theValueSet, String theSystem, String theCode, String theDisplay, IBaseDatatype theCoding, IBaseDatatype theCodeableConcept) {
|
||||||
throw new UnsupportedOperationException();
|
throw new UnsupportedOperationException();
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public boolean isValueSetPreExpandedForCodeValidation(IBaseResource theValueSet) {
|
||||||
|
throw new UnsupportedOperationException();
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
|
@ -9,6 +9,7 @@ import ca.uhn.fhir.jpa.model.entity.ResourceTable;
|
||||||
import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
|
import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
|
||||||
import ca.uhn.fhir.util.CoverageIgnore;
|
import ca.uhn.fhir.util.CoverageIgnore;
|
||||||
import ca.uhn.fhir.util.UrlUtil;
|
import ca.uhn.fhir.util.UrlUtil;
|
||||||
|
import ca.uhn.fhir.util.ValidateUtil;
|
||||||
import org.hl7.fhir.convertors.VersionConvertor_30_40;
|
import org.hl7.fhir.convertors.VersionConvertor_30_40;
|
||||||
import org.hl7.fhir.dstu3.hapi.ctx.IValidationSupport;
|
import org.hl7.fhir.dstu3.hapi.ctx.IValidationSupport;
|
||||||
import org.hl7.fhir.dstu3.model.*;
|
import org.hl7.fhir.dstu3.model.*;
|
||||||
|
@ -364,24 +365,33 @@ public class HapiTerminologySvcDstu3 extends BaseHapiTerminologySvcImpl implemen
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
public ValidateCodeResult validateCodeIsInPreExpandedValueSet(IBaseResource theValueSet, String theSystem, String theCode, String theDisplay, IBaseDatatype theCoding, IBaseDatatype theCodeableConcept) {
|
public ValidateCodeResult validateCodeIsInPreExpandedValueSet(IBaseResource theValueSet, String theSystem, String theCode, String theDisplay, IBaseDatatype theCoding, IBaseDatatype theCodeableConcept) {
|
||||||
|
ValidateUtil.isNotNullOrThrowUnprocessableEntity(theValueSet, "ValueSet must not be null");
|
||||||
ValueSet valueSet = (ValueSet) theValueSet;
|
ValueSet valueSet = (ValueSet) theValueSet;
|
||||||
|
org.hl7.fhir.r4.model.ValueSet valueSetR4 = VersionConvertor_30_40.convertValueSet(valueSet);
|
||||||
|
|
||||||
Coding coding = (Coding) theCoding;
|
Coding coding = (Coding) theCoding;
|
||||||
|
org.hl7.fhir.r4.model.Coding codingR4 = null;
|
||||||
|
if (coding != null) {
|
||||||
|
codingR4 = new org.hl7.fhir.r4.model.Coding(coding.getSystem(), coding.getCode(), coding.getDisplay());
|
||||||
|
}
|
||||||
|
|
||||||
CodeableConcept codeableConcept = (CodeableConcept) theCodeableConcept;
|
CodeableConcept codeableConcept = (CodeableConcept) theCodeableConcept;
|
||||||
|
org.hl7.fhir.r4.model.CodeableConcept codeableConceptR4 = null;
|
||||||
try {
|
if (codeableConcept != null) {
|
||||||
org.hl7.fhir.r4.model.ValueSet valueSetR4;
|
codeableConceptR4 = new org.hl7.fhir.r4.model.CodeableConcept();
|
||||||
valueSetR4 = VersionConvertor_30_40.convertValueSet(valueSet);
|
|
||||||
|
|
||||||
org.hl7.fhir.r4.model.Coding codingR4 = new org.hl7.fhir.r4.model.Coding(coding.getSystem(), coding.getCode(), coding.getDisplay());
|
|
||||||
|
|
||||||
org.hl7.fhir.r4.model.CodeableConcept codeableConceptR4 = new org.hl7.fhir.r4.model.CodeableConcept();
|
|
||||||
for (Coding nestedCoding : codeableConcept.getCoding()) {
|
for (Coding nestedCoding : codeableConcept.getCoding()) {
|
||||||
codeableConceptR4.addCoding(new org.hl7.fhir.r4.model.Coding(nestedCoding.getSystem(), nestedCoding.getCode(), nestedCoding.getDisplay()));
|
codeableConceptR4.addCoding(new org.hl7.fhir.r4.model.Coding(nestedCoding.getSystem(), nestedCoding.getCode(), nestedCoding.getDisplay()));
|
||||||
}
|
}
|
||||||
|
|
||||||
return super.validateCodeIsInPreExpandedValueSet(valueSetR4, theSystem, theCode, theDisplay, codingR4, codeableConceptR4);
|
|
||||||
} catch (FHIRException e) {
|
|
||||||
throw new InternalErrorException(e);
|
|
||||||
}
|
}
|
||||||
|
|
||||||
|
return super.validateCodeIsInPreExpandedValueSet(valueSetR4, theSystem, theCode, theDisplay, codingR4, codeableConceptR4);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public boolean isValueSetPreExpandedForCodeValidation(IBaseResource theValueSet) {
|
||||||
|
ValidateUtil.isNotNullOrThrowUnprocessableEntity(theValueSet, "ValueSet must not be null");
|
||||||
|
ValueSet valueSet = (ValueSet) theValueSet;
|
||||||
|
org.hl7.fhir.r4.model.ValueSet valueSetR4 = VersionConvertor_30_40.convertValueSet(valueSet);
|
||||||
|
return super.isValueSetPreExpandedForCodeValidation(valueSetR4);
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
|
@ -284,4 +284,10 @@ public class HapiTerminologySvcR4 extends BaseHapiTerminologySvcImpl implements
|
||||||
CodeableConcept codeableConcept = (CodeableConcept) theCodeableConcept;
|
CodeableConcept codeableConcept = (CodeableConcept) theCodeableConcept;
|
||||||
return super.validateCodeIsInPreExpandedValueSet(valueSet, theSystem, theCode, theDisplay, coding, codeableConcept);
|
return super.validateCodeIsInPreExpandedValueSet(valueSet, theSystem, theCode, theDisplay, coding, codeableConcept);
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public boolean isValueSetPreExpandedForCodeValidation(IBaseResource theValueSet) {
|
||||||
|
ValueSet valueSet = (ValueSet) theValueSet;
|
||||||
|
return super.isValueSetPreExpandedForCodeValidation(valueSet);
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
|
@ -7,11 +7,12 @@ import ca.uhn.fhir.jpa.entity.TermConcept;
|
||||||
import ca.uhn.fhir.jpa.model.entity.ResourceTable;
|
import ca.uhn.fhir.jpa.model.entity.ResourceTable;
|
||||||
import ca.uhn.fhir.util.CoverageIgnore;
|
import ca.uhn.fhir.util.CoverageIgnore;
|
||||||
import ca.uhn.fhir.util.UrlUtil;
|
import ca.uhn.fhir.util.UrlUtil;
|
||||||
|
import ca.uhn.fhir.util.ValidateUtil;
|
||||||
import org.hl7.fhir.instance.model.api.IBaseDatatype;
|
import org.hl7.fhir.instance.model.api.IBaseDatatype;
|
||||||
import org.hl7.fhir.instance.model.api.IBaseResource;
|
import org.hl7.fhir.instance.model.api.IBaseResource;
|
||||||
import org.hl7.fhir.instance.model.api.IIdType;
|
import org.hl7.fhir.instance.model.api.IIdType;
|
||||||
import org.hl7.fhir.r5.model.*;
|
|
||||||
import org.hl7.fhir.r5.hapi.ctx.IValidationSupport;
|
import org.hl7.fhir.r5.hapi.ctx.IValidationSupport;
|
||||||
|
import org.hl7.fhir.r5.model.*;
|
||||||
import org.hl7.fhir.r5.model.CodeSystem.ConceptDefinitionComponent;
|
import org.hl7.fhir.r5.model.CodeSystem.ConceptDefinitionComponent;
|
||||||
import org.hl7.fhir.r5.model.ValueSet.ConceptSetComponent;
|
import org.hl7.fhir.r5.model.ValueSet.ConceptSetComponent;
|
||||||
import org.hl7.fhir.r5.terminologies.ValueSetExpander;
|
import org.hl7.fhir.r5.terminologies.ValueSetExpander;
|
||||||
|
@ -291,17 +292,33 @@ public class HapiTerminologySvcR5 extends BaseHapiTerminologySvcImpl implements
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
public ValidateCodeResult validateCodeIsInPreExpandedValueSet(IBaseResource theValueSet, String theSystem, String theCode, String theDisplay, IBaseDatatype theCoding, IBaseDatatype theCodeableConcept) {
|
public ValidateCodeResult validateCodeIsInPreExpandedValueSet(IBaseResource theValueSet, String theSystem, String theCode, String theDisplay, IBaseDatatype theCoding, IBaseDatatype theCodeableConcept) {
|
||||||
org.hl7.fhir.r4.model.ValueSet valueSetR4 = org.hl7.fhir.convertors.conv40_50.ValueSet.convertValueSet((ValueSet) theValueSet);
|
ValidateUtil.isNotNullOrThrowUnprocessableEntity(theValueSet, "ValueSet must not be null");
|
||||||
|
ValueSet valueSet = (ValueSet) theValueSet;
|
||||||
|
org.hl7.fhir.r4.model.ValueSet valueSetR4 = org.hl7.fhir.convertors.conv40_50.ValueSet.convertValueSet(valueSet);
|
||||||
|
|
||||||
Coding coding = (Coding) theCoding;
|
Coding coding = (Coding) theCoding;
|
||||||
org.hl7.fhir.r4.model.Coding codingR4 = new org.hl7.fhir.r4.model.Coding(coding.getSystem(), coding.getCode(), coding.getDisplay());
|
org.hl7.fhir.r4.model.Coding codingR4 = null;
|
||||||
|
if (coding != null) {
|
||||||
|
codingR4 = new org.hl7.fhir.r4.model.Coding(coding.getSystem(), coding.getCode(), coding.getDisplay());
|
||||||
|
}
|
||||||
|
|
||||||
CodeableConcept codeableConcept = (CodeableConcept) theCodeableConcept;
|
CodeableConcept codeableConcept = (CodeableConcept) theCodeableConcept;
|
||||||
org.hl7.fhir.r4.model.CodeableConcept codeableConceptR4 = new org.hl7.fhir.r4.model.CodeableConcept();
|
org.hl7.fhir.r4.model.CodeableConcept codeableConceptR4 = null;
|
||||||
for (Coding nestedCoding : codeableConcept.getCoding()) {
|
if (codeableConcept != null) {
|
||||||
codeableConceptR4.addCoding(new org.hl7.fhir.r4.model.Coding(nestedCoding.getSystem(), nestedCoding.getCode(), nestedCoding.getDisplay()));
|
codeableConceptR4 = new org.hl7.fhir.r4.model.CodeableConcept();
|
||||||
|
for (Coding nestedCoding : codeableConcept.getCoding()) {
|
||||||
|
codeableConceptR4.addCoding(new org.hl7.fhir.r4.model.Coding(nestedCoding.getSystem(), nestedCoding.getCode(), nestedCoding.getDisplay()));
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
return super.validateCodeIsInPreExpandedValueSet(valueSetR4, theSystem, theCode, theDisplay, codingR4, codeableConceptR4);
|
return super.validateCodeIsInPreExpandedValueSet(valueSetR4, theSystem, theCode, theDisplay, codingR4, codeableConceptR4);
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public boolean isValueSetPreExpandedForCodeValidation(IBaseResource theValueSet) {
|
||||||
|
ValidateUtil.isNotNullOrThrowUnprocessableEntity(theValueSet, "ValueSet must not be null");
|
||||||
|
ValueSet valueSet = (ValueSet) theValueSet;
|
||||||
|
org.hl7.fhir.r4.model.ValueSet valueSetR4 = org.hl7.fhir.convertors.conv40_50.ValueSet.convertValueSet(valueSet);
|
||||||
|
return super.isValueSetPreExpandedForCodeValidation(valueSetR4);
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
|
@ -111,10 +111,17 @@ public interface IHapiTerminologySvc {
|
||||||
|
|
||||||
AtomicInteger applyDeltaCodesystemsRemove(String theSystem, CodeSystem theDelta);
|
AtomicInteger applyDeltaCodesystemsRemove(String theSystem, CodeSystem theDelta);
|
||||||
|
|
||||||
void preExpandValueSetToTerminologyTables();
|
void preExpandDeferredValueSetsToTerminologyTables();
|
||||||
|
|
||||||
/**
|
/**
|
||||||
* Version independent
|
* Version independent
|
||||||
*/
|
*/
|
||||||
ValidateCodeResult validateCodeIsInPreExpandedValueSet(IBaseResource theValueSet, String theSystem, String theCode, String theDisplay, IBaseDatatype theCoding, IBaseDatatype theCodeableConcept);
|
ValidateCodeResult validateCodeIsInPreExpandedValueSet(IBaseResource theValueSet, String theSystem, String theCode, String theDisplay, IBaseDatatype theCoding, IBaseDatatype theCodeableConcept);
|
||||||
|
|
||||||
|
boolean isValueSetPreExpandedForCodeValidation(ValueSet theValueSet);
|
||||||
|
|
||||||
|
/**
|
||||||
|
* Version independent
|
||||||
|
*/
|
||||||
|
boolean isValueSetPreExpandedForCodeValidation(IBaseResource theValueSet);
|
||||||
}
|
}
|
||||||
|
|
|
@ -1,14 +1,12 @@
|
||||||
package ca.uhn.fhir.jpa.dao.r4;
|
package ca.uhn.fhir.jpa.dao.r4;
|
||||||
|
|
||||||
|
import ca.uhn.fhir.jpa.dao.DaoConfig;
|
||||||
import ca.uhn.fhir.jpa.dao.IFhirResourceDaoValueSet.ValidateCodeResult;
|
import ca.uhn.fhir.jpa.dao.IFhirResourceDaoValueSet.ValidateCodeResult;
|
||||||
import ca.uhn.fhir.util.TestUtil;
|
import ca.uhn.fhir.util.TestUtil;
|
||||||
import org.hl7.fhir.instance.model.api.IIdType;
|
import org.hl7.fhir.instance.model.api.IIdType;
|
||||||
import org.hl7.fhir.instance.model.api.IPrimitiveType;
|
import org.hl7.fhir.instance.model.api.IPrimitiveType;
|
||||||
import org.hl7.fhir.r4.model.*;
|
import org.hl7.fhir.r4.model.*;
|
||||||
import org.junit.AfterClass;
|
import org.junit.*;
|
||||||
import org.junit.Before;
|
|
||||||
import org.junit.Ignore;
|
|
||||||
import org.junit.Test;
|
|
||||||
import org.springframework.transaction.annotation.Transactional;
|
import org.springframework.transaction.annotation.Transactional;
|
||||||
|
|
||||||
import java.io.IOException;
|
import java.io.IOException;
|
||||||
|
@ -22,6 +20,10 @@ public class FhirResourceDaoR4ValueSetTest extends BaseJpaR4Test {
|
||||||
|
|
||||||
private IIdType myExtensionalVsId;
|
private IIdType myExtensionalVsId;
|
||||||
|
|
||||||
|
@After
|
||||||
|
public void after() {
|
||||||
|
myDaoConfig.setPreExpandValueSetsExperimental(new DaoConfig().isPreExpandValueSetsExperimental());
|
||||||
|
}
|
||||||
|
|
||||||
@AfterClass
|
@AfterClass
|
||||||
public static void afterClassClearContext() {
|
public static void afterClassClearContext() {
|
||||||
|
@ -124,6 +126,33 @@ public class FhirResourceDaoR4ValueSetTest extends BaseJpaR4Test {
|
||||||
assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
|
assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
public void testValidateCodeOperationByResourceIdAndCodeableConceptWithExistingValueSetAndPreExpansionEnabled() {
|
||||||
|
myDaoConfig.setPreExpandValueSetsExperimental(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");
|
||||||
|
ValidateCodeResult result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
|
||||||
|
assertTrue(result.isResult());
|
||||||
|
assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
|
||||||
|
|
||||||
|
myTermSvc.saveDeferred();
|
||||||
|
result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
|
||||||
|
assertTrue(result.isResult());
|
||||||
|
assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
|
||||||
|
|
||||||
|
myTermSvc.preExpandDeferredValueSetsToTerminologyTables();
|
||||||
|
result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
|
||||||
|
assertTrue(result.isResult());
|
||||||
|
assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
|
||||||
|
}
|
||||||
|
|
||||||
@Test
|
@Test
|
||||||
public void testValidateCodeOperationByResourceIdAndCodeAndSystem() {
|
public void testValidateCodeOperationByResourceIdAndCodeAndSystem() {
|
||||||
UriType valueSetIdentifier = null;
|
UriType valueSetIdentifier = null;
|
||||||
|
@ -138,6 +167,32 @@ public class FhirResourceDaoR4ValueSetTest extends BaseJpaR4Test {
|
||||||
assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
|
assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
public void testValidateCodeOperationByResourceIdAndCodeAndSystemWithExistingValueSetAndPreExpansionEnabled() {
|
||||||
|
myDaoConfig.setPreExpandValueSetsExperimental(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;
|
||||||
|
ValidateCodeResult result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
|
||||||
|
assertTrue(result.isResult());
|
||||||
|
assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
|
||||||
|
|
||||||
|
myTermSvc.saveDeferred();
|
||||||
|
result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
|
||||||
|
assertTrue(result.isResult());
|
||||||
|
assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
|
||||||
|
|
||||||
|
myTermSvc.preExpandDeferredValueSetsToTerminologyTables();
|
||||||
|
result = myValueSetDao.validateCode(valueSetIdentifier, id, code, system, display, coding, codeableConcept, mySrd);
|
||||||
|
assertTrue(result.isResult());
|
||||||
|
assertEquals("Systolic blood pressure at First encounter", result.getDisplay());
|
||||||
|
}
|
||||||
|
|
||||||
@Test
|
@Test
|
||||||
public void testExpandById() throws IOException {
|
public void testExpandById() throws IOException {
|
||||||
String resp;
|
String resp;
|
||||||
|
|
|
@ -1,21 +0,0 @@
|
||||||
package ca.uhn.fhir.jpa.entity;
|
|
||||||
|
|
||||||
import ca.uhn.fhir.i18n.HapiLocalizer;
|
|
||||||
import org.junit.Test;
|
|
||||||
|
|
||||||
import static org.junit.Assert.fail;
|
|
||||||
|
|
||||||
public class TermValueSetPreExpansionStatusEnumTest {
|
|
||||||
@Test
|
|
||||||
public void testHaveDescriptions() {
|
|
||||||
HapiLocalizer localizer = new HapiLocalizer();
|
|
||||||
|
|
||||||
for (TermValueSetPreExpansionStatusEnum next : TermValueSetPreExpansionStatusEnum.values()) {
|
|
||||||
String key = "ca.uhn.fhir.jpa.entity.TermValueSetPreExpansionStatusEnum." + next.getCode();
|
|
||||||
String msg = localizer.getMessage(key);
|
|
||||||
if (msg.equals(HapiLocalizer.UNKNOWN_I18N_KEY_MESSAGE)) {
|
|
||||||
fail("No value for key: " + key);
|
|
||||||
}
|
|
||||||
}
|
|
||||||
}
|
|
||||||
}
|
|
|
@ -600,7 +600,9 @@ public class TerminologySvcImplDstu3Test extends BaseJpaDstu3Test {
|
||||||
new TransactionTemplate(myTxManager).execute(new TransactionCallbackWithoutResult() {
|
new TransactionTemplate(myTxManager).execute(new TransactionCallbackWithoutResult() {
|
||||||
@Override
|
@Override
|
||||||
protected void doInTransactionWithoutResult(TransactionStatus theStatus) {
|
protected void doInTransactionWithoutResult(TransactionStatus theStatus) {
|
||||||
TermCodeSystem codeSystem = myTermCodeSystemDao.findByResourcePid(codeSystemId.getIdPartAsLong());
|
ResourceTable resourceTable = (ResourceTable) myCodeSystemDao.readEntity(codeSystemResource.getIdElement(), null);
|
||||||
|
Long codeSystemResourcePid = resourceTable.getId();
|
||||||
|
TermCodeSystem codeSystem = myTermCodeSystemDao.findByResourcePid(codeSystemResourcePid);
|
||||||
assertEquals(CS_URL, codeSystem.getCodeSystemUri());
|
assertEquals(CS_URL, codeSystem.getCodeSystemUri());
|
||||||
assertEquals("SYSTEM NAME", codeSystem.getName());
|
assertEquals("SYSTEM NAME", codeSystem.getName());
|
||||||
|
|
||||||
|
|
File diff suppressed because it is too large
Load Diff
|
@ -18,10 +18,7 @@ import org.hl7.fhir.instance.model.api.IIdType;
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
import org.slf4j.LoggerFactory;
|
||||||
import org.springframework.beans.factory.annotation.Autowired;
|
import org.springframework.beans.factory.annotation.Autowired;
|
||||||
import org.springframework.messaging.Message;
|
import org.springframework.messaging.*;
|
||||||
import org.springframework.messaging.MessageChannel;
|
|
||||||
import org.springframework.messaging.MessageHandler;
|
|
||||||
import org.springframework.messaging.MessagingException;
|
|
||||||
import org.springframework.stereotype.Service;
|
import org.springframework.stereotype.Service;
|
||||||
|
|
||||||
import java.util.Collection;
|
import java.util.Collection;
|
||||||
|
@ -163,14 +160,7 @@ public class SubscriptionMatchingSubscriber implements MessageHandler {
|
||||||
return;
|
return;
|
||||||
}
|
}
|
||||||
|
|
||||||
ResourceDeliveryJsonMessage wrappedMsg = new ResourceDeliveryJsonMessage(deliveryMsg);
|
resourceMatched |= sendToDeliveryChannel(nextActiveSubscription, deliveryMsg);
|
||||||
MessageChannel deliveryChannel = nextActiveSubscription.getSubscribableChannel();
|
|
||||||
if (deliveryChannel != null) {
|
|
||||||
resourceMatched = true;
|
|
||||||
deliveryChannel.send(wrappedMsg);
|
|
||||||
} else {
|
|
||||||
ourLog.warn("Do not have delivery channel for subscription {}", nextActiveSubscription.getIdElement(myFhirContext));
|
|
||||||
}
|
|
||||||
}
|
}
|
||||||
|
|
||||||
if (!resourceMatched) {
|
if (!resourceMatched) {
|
||||||
|
@ -181,6 +171,31 @@ public class SubscriptionMatchingSubscriber implements MessageHandler {
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
|
private boolean sendToDeliveryChannel(ActiveSubscription nextActiveSubscription, ResourceDeliveryMessage theDeliveryMsg) {
|
||||||
|
boolean retval = false;
|
||||||
|
ResourceDeliveryJsonMessage wrappedMsg = new ResourceDeliveryJsonMessage(theDeliveryMsg);
|
||||||
|
MessageChannel deliveryChannel = nextActiveSubscription.getSubscribableChannel();
|
||||||
|
if (deliveryChannel != null) {
|
||||||
|
retval = true;
|
||||||
|
trySendToDeliveryChannel(wrappedMsg, deliveryChannel);
|
||||||
|
} else {
|
||||||
|
ourLog.warn("Do not have delivery channel for subscription {}", nextActiveSubscription.getIdElement(myFhirContext));
|
||||||
|
}
|
||||||
|
return retval;
|
||||||
|
}
|
||||||
|
|
||||||
|
private void trySendToDeliveryChannel(ResourceDeliveryJsonMessage theWrappedMsg, MessageChannel theDeliveryChannel) {
|
||||||
|
try {
|
||||||
|
boolean success = theDeliveryChannel.send(theWrappedMsg);
|
||||||
|
if (!success) {
|
||||||
|
ourLog.warn("Failed to send message to Delivery Channel.");
|
||||||
|
}
|
||||||
|
} catch (RuntimeException e) {
|
||||||
|
ourLog.error("Failed to send message to Delivery Channel", e);
|
||||||
|
throw new RuntimeException("Failed to send message to Delivery Channel", e);
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
private String getId(ActiveSubscription theActiveSubscription) {
|
private String getId(ActiveSubscription theActiveSubscription) {
|
||||||
return theActiveSubscription.getIdElement(myFhirContext).toUnqualifiedVersionless().getValue();
|
return theActiveSubscription.getIdElement(myFhirContext).toUnqualifiedVersionless().getValue();
|
||||||
}
|
}
|
||||||
|
|
4
pom.xml
4
pom.xml
|
@ -547,6 +547,10 @@
|
||||||
<id>nickrobison-usds</id>
|
<id>nickrobison-usds</id>
|
||||||
<name>Nick Robison</name>
|
<name>Nick Robison</name>
|
||||||
</developer>
|
</developer>
|
||||||
|
<developer>
|
||||||
|
<id>fitzoh</id>
|
||||||
|
<name>Andrew Fitzgerald</name>
|
||||||
|
</developer>
|
||||||
</developers>
|
</developers>
|
||||||
|
|
||||||
<licenses>
|
<licenses>
|
||||||
|
|
|
@ -102,6 +102,10 @@
|
||||||
identifies the LOINC CodeSystem in <![CDATA[<code>ValueSet.compose.include.system</code>]]>. This ValueSet
|
identifies the LOINC CodeSystem in <![CDATA[<code>ValueSet.compose.include.system</code>]]>. This ValueSet
|
||||||
includes all LOINC codes.
|
includes all LOINC codes.
|
||||||
</action>
|
</action>
|
||||||
|
<action type="add" issue="1461">
|
||||||
|
A note has been added to the downloads page explaning the removal of the hapi-fhir-utilities
|
||||||
|
module. Thanks to Andrew Fitzgerald for the PR!
|
||||||
|
</action>
|
||||||
</release>
|
</release>
|
||||||
<release version="4.0.0" date="2019-08-14" description="Igloo">
|
<release version="4.0.0" date="2019-08-14" description="Igloo">
|
||||||
<action type="add">
|
<action type="add">
|
||||||
|
|
Loading…
Reference in New Issue