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Work on custom params

This commit is contained in:
James 2017-02-02 20:37:58 -05:00
parent 3191c907a3
commit 97ff79d730
15 changed files with 236 additions and 110 deletions
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8
HELPWANTED.md Normal file
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@ -0,0 +1,8 @@
# Help Wanted
This page is a work in progress!
It serves as a place to list potential help a new volunteer could offer.
* Investigate adding support for FHIR's RDF (Turtle) encoding to HAPI

16
hapi-fhir-base/src/main/java/ca/uhn/fhir/rest/method/SearchMethodBinding.java
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@ -403,19 +403,26 @@ public class SearchMethodBinding extends BaseResourceReturningMethodBinding {
retVal.setDotQualifier(theParamName.substring(dotIdx, colonIdx));
retVal.setColonQualifier(theParamName.substring(colonIdx));
retVal.setParamName(theParamName.substring(0, dotIdx));
retVal.setWholeQualifier(theParamName.substring(dotIdx));
} else {
retVal.setColonQualifier(theParamName.substring(colonIdx, dotIdx));
retVal.setDotQualifier(theParamName.substring(dotIdx));
retVal.setParamName(theParamName.substring(0, colonIdx));
retVal.setWholeQualifier(theParamName.substring(colonIdx));
}
} else if (dotIdx != -1) {
retVal.setDotQualifier(theParamName.substring(dotIdx));
retVal.setParamName(theParamName.substring(0, dotIdx));
retVal.setWholeQualifier(theParamName.substring(dotIdx));
} else if (colonIdx != -1) {
retVal.setColonQualifier(theParamName.substring(colonIdx));
retVal.setParamName(theParamName.substring(0, colonIdx));
retVal.setWholeQualifier(theParamName.substring(colonIdx));
} else {
retVal.setParamName(theParamName);
retVal.setColonQualifier(null);
retVal.setDotQualifier(null);
retVal.setWholeQualifier(null);
}
return retVal;
@ -426,6 +433,7 @@ public class SearchMethodBinding extends BaseResourceReturningMethodBinding {
private String myColonQualifier;
private String myDotQualifier;
private String myParamName;
private String myWholeQualifier;
public boolean passes(Set<String> theQualifierWhitelist, Set<String> theQualifierBlacklist) {
if (theQualifierWhitelist != null) {
@ -487,6 +495,14 @@ public class SearchMethodBinding extends BaseResourceReturningMethodBinding {
myDotQualifier = theDotQualifier;
}
public String getWholeQualifier() {
return myWholeQualifier;
}
public void setWholeQualifier(String theWholeQualifier) {
myWholeQualifier = theWholeQualifier;
}
}
public static BaseHttpClientInvocation createSearchInvocation(FhirContext theContext, String theSearchUrl, Map<String, List<String>> theParams) {

33
hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/BaseHapiFhirDao.java
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@ -213,6 +213,9 @@ public abstract class BaseHapiFhirDao<T extends IBaseResource> implements IDao {
@Autowired
private ISearchParamExtractor mySearchParamExtractor;
@Autowired
private ISearchParamRegistry mySearchParamRegistry;
@Autowired
private ISearchResultDao mySearchResultDao;
@ -943,7 +946,7 @@ public abstract class BaseHapiFhirDao<T extends IBaseResource> implements IDao {
public <R extends IBaseResource> Set<Long> processMatchUrl(String theMatchUrl, Class<R> theResourceType) {
RuntimeResourceDefinition resourceDef = getContext().getResourceDefinition(theResourceType);
SearchParameterMap paramMap = translateMatchUrl(myContext, theMatchUrl, resourceDef);
SearchParameterMap paramMap = translateMatchUrl(this, myContext, theMatchUrl, resourceDef);
paramMap.setPersistResults(false);
if (paramMap.isEmpty() && paramMap.getLastUpdated() == null) {
@ -956,30 +959,18 @@ public abstract class BaseHapiFhirDao<T extends IBaseResource> implements IDao {
return ids;
}
@Override
public RuntimeSearchParam getSearchParamByName(RuntimeResourceDefinition theResourceDef, String theParamName) {
Map<String, RuntimeSearchParam> params = mySearchParamRegistry.getActiveSearchParams(theResourceDef.getName());
return params.get(theParamName);
}
@SuppressWarnings("unused")
@CoverageIgnore
public BaseHasResource readEntity(IIdType theValueId) {
throw new NotImplementedException("");
}
// protected MetaDt toMetaDt(Collection<TagDefinition> tagDefinitions) {
// MetaDt retVal = new MetaDt();
// for (TagDefinition next : tagDefinitions) {
// switch (next.getTagType()) {
// case PROFILE:
// retVal.addProfile(next.getCode());
// break;
// case SECURITY_LABEL:
// retVal.addSecurity().setSystem(next.getSystem()).setCode(next.getCode()).setDisplay(next.getDisplay());
// break;
// case TAG:
// retVal.addTag().setSystem(next.getSystem()).setCode(next.getCode()).setDisplay(next.getDisplay());
// break;
// }
// }
// return retVal;
// }
public void setConfig(DaoConfig theConfig) {
myConfig = theConfig;
}
@ -1718,7 +1709,7 @@ public abstract class BaseHapiFhirDao<T extends IBaseResource> implements IDao {
return parameters;
}
public static SearchParameterMap translateMatchUrl(FhirContext theContext, String theMatchUrl, RuntimeResourceDefinition resourceDef) {
public static SearchParameterMap translateMatchUrl(IDao theCallingDao, FhirContext theContext, String theMatchUrl, RuntimeResourceDefinition resourceDef) {
SearchParameterMap paramMap = new SearchParameterMap();
List<NameValuePair> parameters = translateMatchUrl(theMatchUrl);
@ -1788,7 +1779,7 @@ public abstract class BaseHapiFhirDao<T extends IBaseResource> implements IDao {
} else if (nextParamName.startsWith("_")) {
// ignore these since they aren't search params (e.g. _sort)
} else {
RuntimeSearchParam paramDef = resourceDef.getSearchParam(nextParamName);
RuntimeSearchParam paramDef = theCallingDao.getSearchParamByName(resourceDef, nextParamName);
if (paramDef == null) {
throw new InvalidRequestException("Failed to parse match URL[" + theMatchUrl + "] - Resource type " + resourceDef.getName() + " does not have a parameter with name: " + nextParamName);
}

59
hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/BaseHapiFhirResourceDao.java
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@ -22,15 +22,29 @@ package ca.uhn.fhir.jpa.dao;
import static org.apache.commons.lang3.StringUtils.isNotBlank;
import java.util.*;
import java.util.ArrayList;
import java.util.Collection;
import java.util.Collections;
import java.util.Date;
import java.util.HashSet;
import java.util.List;
import java.util.Map;
import java.util.Map.Entry;
import java.util.Set;
import java.util.TreeSet;
import javax.annotation.PostConstruct;
import javax.persistence.NoResultException;
import javax.persistence.TypedQuery;
import org.hl7.fhir.dstu3.model.IdType;
import org.hl7.fhir.instance.model.api.*;
import org.hl7.fhir.instance.model.api.IAnyResource;
import org.hl7.fhir.instance.model.api.IBaseCoding;
import org.hl7.fhir.instance.model.api.IBaseMetaType;
import org.hl7.fhir.instance.model.api.IBaseOperationOutcome;
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.springframework.beans.factory.annotation.Autowired;
import org.springframework.beans.factory.annotation.Required;
import org.springframework.transaction.PlatformTransactionManager;
@ -44,23 +58,42 @@ import ca.uhn.fhir.context.RuntimeSearchParam;
import ca.uhn.fhir.jpa.dao.data.IResourceHistoryTableDao;
import ca.uhn.fhir.jpa.dao.data.IResourceIndexedSearchParamUriDao;
import ca.uhn.fhir.jpa.dao.data.ISearchResultDao;
import ca.uhn.fhir.jpa.entity.*;
import ca.uhn.fhir.jpa.entity.BaseHasResource;
import ca.uhn.fhir.jpa.entity.BaseTag;
import ca.uhn.fhir.jpa.entity.ResourceHistoryTable;
import ca.uhn.fhir.jpa.entity.ResourceLink;
import ca.uhn.fhir.jpa.entity.ResourceTable;
import ca.uhn.fhir.jpa.entity.TagDefinition;
import ca.uhn.fhir.jpa.entity.TagTypeEnum;
import ca.uhn.fhir.jpa.interceptor.IJpaServerInterceptor;
import ca.uhn.fhir.jpa.term.IHapiTerminologySvc;
import ca.uhn.fhir.jpa.util.DeleteConflict;
import ca.uhn.fhir.jpa.util.StopWatch;
import ca.uhn.fhir.jpa.util.jsonpatch.JsonPatchUtils;
import ca.uhn.fhir.jpa.util.xmlpatch.XmlPatchUtils;
import ca.uhn.fhir.model.api.*;
import ca.uhn.fhir.model.api.IQueryParameterAnd;
import ca.uhn.fhir.model.api.IQueryParameterType;
import ca.uhn.fhir.model.api.IResource;
import ca.uhn.fhir.model.api.Include;
import ca.uhn.fhir.model.api.ResourceMetadataKeyEnum;
import ca.uhn.fhir.model.api.TagList;
import ca.uhn.fhir.model.primitive.IdDt;
import ca.uhn.fhir.rest.api.PatchTypeEnum;
import ca.uhn.fhir.rest.api.RestOperationTypeEnum;
import ca.uhn.fhir.rest.method.MethodUtil;
import ca.uhn.fhir.rest.method.QualifiedParamList;
import ca.uhn.fhir.rest.method.RequestDetails;
import ca.uhn.fhir.rest.method.RestSearchParameterTypeEnum;
import ca.uhn.fhir.rest.method.SearchMethodBinding;
import ca.uhn.fhir.rest.method.SearchMethodBinding.QualifierDetails;
import ca.uhn.fhir.rest.server.IBundleProvider;
import ca.uhn.fhir.rest.server.exceptions.*;
import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
import ca.uhn.fhir.rest.server.exceptions.PreconditionFailedException;
import ca.uhn.fhir.rest.server.exceptions.ResourceGoneException;
import ca.uhn.fhir.rest.server.exceptions.ResourceNotFoundException;
import ca.uhn.fhir.rest.server.exceptions.ResourceVersionConflictException;
import ca.uhn.fhir.rest.server.exceptions.UnprocessableEntityException;
import ca.uhn.fhir.rest.server.interceptor.IServerInterceptor;
import ca.uhn.fhir.rest.server.interceptor.IServerInterceptor.ActionRequestDetails;
import ca.uhn.fhir.util.FhirTerser;
@ -697,7 +730,7 @@ public abstract class BaseHapiFhirResourceDao<T extends IBaseResource> extends B
myResourceName = def.getName();
if (mySecondaryPrimaryKeyParamName != null) {
RuntimeSearchParam sp = def.getSearchParam(mySecondaryPrimaryKeyParamName);
RuntimeSearchParam sp = getSearchParamByName(def, mySecondaryPrimaryKeyParamName);
if (sp == null) {
throw new ConfigurationException("Unknown search param on resource[" + myResourceName + "] for secondary key[" + mySecondaryPrimaryKeyParamName + "]");
}
@ -1027,7 +1060,19 @@ public abstract class BaseHapiFhirResourceDao<T extends IBaseResource> extends B
throw new InvalidRequestException(msg);
}
aaaa
// Should not be null since the check above would have caught it
RuntimeResourceDefinition resourceDef = getContext().getResourceDefinition(myResourceName);
RuntimeSearchParam paramDef = getSearchParamByName(resourceDef, qualifiedParamName.getParamName());
for (String nextValue : theSource.get(nextParamName)) {
if (isNotBlank(nextValue)) {
QualifiedParamList qualifiedParam = QualifiedParamList.splitQueryStringByCommasIgnoreEscape(qualifiedParamName.getWholeQualifier(), nextValue);
List<QualifiedParamList> paramList = Collections.singletonList(qualifiedParam);
IQueryParameterAnd<?> parsedParam = MethodUtil.parseQueryParams(getContext(), paramDef, nextParamName, paramList);
theTarget.add(qualifiedParamName.getParamName(), parsedParam);
}
}
}
}

3
hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoDstu2.java
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@ -79,7 +79,8 @@ public class FhirResourceDaoDstu2<T extends IResource> extends BaseHapiFhirResou
values.addAll(theTerser.getAllPopulatedChildElementsOfType(theResource, BaseResourceReferenceDt.class));
} else if (theInclude.getValue().startsWith(theResourceDef.getName() + ":")) {
values = new ArrayList<Object>();
RuntimeSearchParam sp = theResourceDef.getSearchParam(theInclude.getValue().substring(theInclude.getValue().indexOf(':') + 1));
String paramName = theInclude.getValue().substring(theInclude.getValue().indexOf(':') + 1);
RuntimeSearchParam sp = getSearchParamByName(theResourceDef, paramName);
for (String nextPath : sp.getPathsSplit()) {
values.addAll(theTerser.getValues(theResource, nextPath));
}

2
hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/FhirResourceDaoSubscriptionDstu2.java
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@ -152,7 +152,7 @@ public class FhirResourceDaoSubscriptionDstu2 extends FhirResourceDaoDstu2<Subsc
private int pollForNewUndeliveredResources(SubscriptionTable theSubscriptionTable) {
Subscription subscription = toResource(Subscription.class, theSubscriptionTable.getSubscriptionResource(), false);
RuntimeResourceDefinition resourceDef = validateCriteriaAndReturnResourceDefinition(subscription);
SearchParameterMap criteriaUrl = translateMatchUrl(getContext(), subscription.getCriteria(), resourceDef);
SearchParameterMap criteriaUrl = translateMatchUrl(this, getContext(), subscription.getCriteria(), resourceDef);
criteriaUrl = new SearchParameterMap();
long start = theSubscriptionTable.getMostRecentMatch().getTime();

4
hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/IDao.java
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@ -6,6 +6,8 @@ import org.hl7.fhir.instance.model.api.IAnyResource;
import org.hl7.fhir.instance.model.api.IBaseResource;
import ca.uhn.fhir.context.FhirContext;
import ca.uhn.fhir.context.RuntimeResourceDefinition;
import ca.uhn.fhir.context.RuntimeSearchParam;
import ca.uhn.fhir.jpa.entity.BaseHasResource;
import ca.uhn.fhir.jpa.entity.ResourceTable;
import ca.uhn.fhir.jpa.search.PersistedJpaBundleProvider;
@ -73,4 +75,6 @@ public interface IDao {
<R extends IBaseResource> R toResource(Class<R> theResourceType, BaseHasResource theEntity, boolean theForHistoryOperation);
void populateFullTextFields(IBaseResource theResource, ResourceTable theEntity);
RuntimeSearchParam getSearchParamByName(RuntimeResourceDefinition theResourceDef, String theParamName);
}

43
hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/SearchBuilder.java
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@ -216,12 +216,13 @@ public class SearchBuilder {
throw new InvalidRequestException("Invalid resource type: " + targetResourceType);
}
RuntimeSearchParam owningParameterDef = targetResourceDefinition.getSearchParam(parameterName.replaceAll("\\..*", ""));
String paramName = parameterName.replaceAll("\\..*", "");
RuntimeSearchParam owningParameterDef = myCallingDao.getSearchParamByName(targetResourceDefinition, paramName);
if (owningParameterDef == null) {
throw new InvalidRequestException("Unknown parameter name: " + targetResourceType + ':' + parameterName);
}
owningParameterDef = targetResourceDefinition.getSearchParam(owningParameter);
owningParameterDef = myCallingDao.getSearchParamByName(targetResourceDefinition, owningParameter);
if (owningParameterDef == null) {
throw new InvalidRequestException("Unknown parameter name: " + targetResourceType + ':' + owningParameter);
}
@ -241,7 +242,7 @@ public class SearchBuilder {
List<Predicate> predicates = new ArrayList<Predicate>();
predicates.add(builder.equal(from.get("mySourceResourceType"), targetResourceType));
predicates.add(from.get("mySourceResourcePid").in(match));
predicates.add(createResourceLinkPathPredicate(myContext, owningParameter, from, resourceType));
predicates.add(createResourceLinkPathPredicate(myCallingDao, myContext, owningParameter, from, resourceType));
predicates.add(builder.equal(from.get("myTargetResourceType"), myResourceName));
createPredicateResourceId(builder, cq, predicates, from.get("myId").as(Long.class));
createPredicateLastUpdatedForResourceLink(builder, from, predicates);
@ -552,7 +553,8 @@ public class SearchBuilder {
String resourceId;
if (!ref.getValue().matches("[a-zA-Z]+\\/.*")) {
String paramPath = myContext.getResourceDefinition(myResourceType).getSearchParam(theParamName).getPath();
RuntimeResourceDefinition resourceDef = myContext.getResourceDefinition(myResourceType);
String paramPath = myCallingDao.getSearchParamByName(resourceDef, theParamName).getPath();
if (paramPath.endsWith(".as(Reference)")) {
paramPath = paramPath.substring(0, paramPath.length() - ".as(Reference)".length()) + "Reference";
}
@ -606,7 +608,7 @@ public class SearchBuilder {
boolean isMeta = BaseHapiFhirDao.RESOURCE_META_PARAMS.containsKey(chain);
RuntimeSearchParam param = null;
if (!isMeta) {
param = typeDef.getSearchParam(chain);
param = myCallingDao.getSearchParamByName(typeDef, chain);
if (param == null) {
ourLog.debug("Type {} doesn't have search param {}", nextType.getSimpleName(), param);
continue;
@ -1385,7 +1387,7 @@ public class SearchBuilder {
}
private Predicate createResourceLinkPathPredicate(String theParamName, Root<? extends ResourceLink> from) {
return createResourceLinkPathPredicate(myContext, theParamName, from, myResourceType);
return createResourceLinkPathPredicate(myCallingDao, myContext, theParamName, from, myResourceType);
}
private TypedQuery<Long> createSearchAllByTypeQuery(DateRangeParam theLastUpdated) {
@ -1437,7 +1439,8 @@ public class SearchBuilder {
return;
}
RuntimeSearchParam param = getSearchParam(theSort.getParamName());
RuntimeResourceDefinition resourceDef = myContext.getResourceDefinition(myResourceName);
RuntimeSearchParam param = myCallingDao.getSearchParamByName(resourceDef, theSort.getParamName());
if (param == null) {
throw new InvalidRequestException("Unknown sort parameter '" + theSort.getParamName() + "'");
}
@ -1503,7 +1506,8 @@ public class SearchBuilder {
private String determineSystemIfMissing(String theParamName, String code, String system) {
if (system == null) {
RuntimeSearchParam param = getSearchParam(theParamName);
RuntimeResourceDefinition resourceDef = myContext.getResourceDefinition(myResourceName);
RuntimeSearchParam param = myCallingDao.getSearchParamByName(resourceDef, theParamName);
if (param != null) {
Set<String> valueSetUris = Sets.newHashSet();
for (String nextPath : param.getPathsSplit()) {
@ -1612,12 +1616,6 @@ public class SearchBuilder {
doSetPids(resultList);
}
private RuntimeSearchParam getSearchParam(String theParamName) {
RuntimeResourceDefinition resourceDef = myContext.getResourceDefinition(myResourceType);
RuntimeSearchParam param = resourceDef.getSearchParam(theParamName);
return param;
}
private void loadResourcesByPid(Collection<Long> theIncludePids, List<IBaseResource> theResourceListToPopulate, Set<Long> theRevIncludedPids, boolean theForHistoryOperation) {
EntityManager entityManager = myEntityManager;
FhirContext context = myContext;
@ -2042,8 +2040,9 @@ public class SearchBuilder {
return likeExpression.replace("%", "[%]") + "%";
}
private static Predicate createResourceLinkPathPredicate(FhirContext theContext, String theParamName, Root<? extends ResourceLink> from, Class<? extends IBaseResource> resourceType) {
RuntimeSearchParam param = theContext.getResourceDefinition(resourceType).getSearchParam(theParamName);
private static Predicate createResourceLinkPathPredicate(IDao theCallingDao, FhirContext theContext, String theParamName, Root<? extends ResourceLink> from, Class<? extends IBaseResource> resourceType) {
RuntimeResourceDefinition resourceDef = theContext.getResourceDefinition(resourceType);
RuntimeSearchParam param = theCallingDao.getSearchParamByName(resourceDef, theParamName);
List<String> path = param.getPathsSplit();
Predicate type = from.get("mySourcePath").in(path);
return type;
@ -2114,7 +2113,7 @@ public class SearchBuilder {
*
* @param theLastUpdated
*/
public static HashSet<Long> loadReverseIncludes(FhirContext theContext, EntityManager theEntityManager, Collection<Long> theMatches, Set<Include> theRevIncludes, boolean theReverseMode, DateRangeParam theLastUpdated) {
public static HashSet<Long> loadReverseIncludes(IDao theCallingDao, FhirContext theContext, EntityManager theEntityManager, Collection<Long> theMatches, Set<Include> theRevIncludes, boolean theReverseMode, DateRangeParam theLastUpdated) {
if (theMatches.size() == 0) {
return new HashSet<Long>();
}
@ -2182,7 +2181,11 @@ public class SearchBuilder {
}
String paramName = nextInclude.getParamName();
param = isNotBlank(paramName) ? def.getSearchParam(paramName) : null;
if (isNotBlank(paramName)) {
param = theCallingDao.getSearchParamByName(def, paramName);
} else {
param = null;
}
if (param == null) {
ourLog.warn("Unknown param name in include/revinclude=" + nextInclude.getValue());
continue;
@ -2283,9 +2286,9 @@ public class SearchBuilder {
Set<Long> revIncludedPids = new HashSet<Long>();
if (myParams.getEverythingMode() == null) {
revIncludedPids.addAll(loadReverseIncludes(myContext, myEntityManager, pidsSubList, myParams.getRevIncludes(), true, myParams.getLastUpdated()));
revIncludedPids.addAll(loadReverseIncludes(myCallingDao, myContext, myEntityManager, pidsSubList, myParams.getRevIncludes(), true, myParams.getLastUpdated()));
}
revIncludedPids.addAll(loadReverseIncludes(myContext, myEntityManager, pidsSubList, myParams.getIncludes(), false, myParams.getLastUpdated()));
revIncludedPids.addAll(loadReverseIncludes(myCallingDao, myContext, myEntityManager, pidsSubList, myParams.getIncludes(), false, myParams.getLastUpdated()));
// Execute the query and make sure we return distinct results
List<IBaseResource> resources = new ArrayList<IBaseResource>();

3
hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3.java
View File

@ -92,7 +92,8 @@ public class FhirResourceDaoDstu3<T extends IAnyResource> extends BaseHapiFhirRe
values.addAll(theTerser.getAllPopulatedChildElementsOfType(theResource, BaseResourceReferenceDt.class));
} else if (theInclude.getValue().startsWith(theResourceDef.getName() + ":")) {
values = new ArrayList<Object>();
RuntimeSearchParam sp = theResourceDef.getSearchParam(theInclude.getValue().substring(theInclude.getValue().indexOf(':') + 1));
String paramName = theInclude.getValue().substring(theInclude.getValue().indexOf(':') + 1);
RuntimeSearchParam sp = getSearchParamByName(theResourceDef, paramName);
for (String nextPath : sp.getPathsSplit()) {
values.addAll(theTerser.getValues(theResource, nextPath));
}

2
hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoSubscriptionDstu3.java
View File

@ -157,7 +157,7 @@ public class FhirResourceDaoSubscriptionDstu3 extends FhirResourceDaoDstu3<Subsc
private int pollForNewUndeliveredResources(SubscriptionTable theSubscriptionTable) {
Subscription subscription = toResource(Subscription.class, theSubscriptionTable.getSubscriptionResource(), false);
RuntimeResourceDefinition resourceDef = validateCriteriaAndReturnResourceDefinition(subscription);
SearchParameterMap criteriaUrl = translateMatchUrl(getContext(), subscription.getCriteria(), resourceDef);
SearchParameterMap criteriaUrl = translateMatchUrl(this, getContext(), subscription.getCriteria(), resourceDef);
criteriaUrl = new SearchParameterMap();
long start = theSubscriptionTable.getMostRecentMatch().getTime();

4
hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/search/PersistedJpaBundleProvider.java
View File

@ -141,9 +141,9 @@ public final class PersistedJpaBundleProvider implements IBundleProvider {
Set<Long> revIncludedPids = new HashSet<Long>();
if (mySearchEntity.getSearchType() == SearchTypeEnum.SEARCH) {
revIncludedPids.addAll(SearchBuilder.loadReverseIncludes(myContext, myEntityManager, pidsSubList, mySearchEntity.toRevIncludesList(), true, mySearchEntity.getLastUpdated()));
revIncludedPids.addAll(SearchBuilder.loadReverseIncludes(myDao, myContext, myEntityManager, pidsSubList, mySearchEntity.toRevIncludesList(), true, mySearchEntity.getLastUpdated()));
}
revIncludedPids.addAll(SearchBuilder.loadReverseIncludes(myContext, myEntityManager, pidsSubList, mySearchEntity.toIncludesList(), false, mySearchEntity.getLastUpdated()));
revIncludedPids.addAll(SearchBuilder.loadReverseIncludes(myDao, myContext, myEntityManager, pidsSubList, mySearchEntity.toIncludesList(), false, mySearchEntity.getLastUpdated()));
// Execute the query and make sure we return distinct results
List<IBaseResource> resources = new ArrayList<IBaseResource>();

12
hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/BaseHapiFhirDaoTest.java
View File

@ -1,11 +1,16 @@
package ca.uhn.fhir.jpa.dao;
import static org.junit.Assert.assertEquals;
import static org.mockito.Matchers.any;
import static org.mockito.Matchers.eq;
import static org.mockito.Mockito.mock;
import static org.mockito.Mockito.when;
import org.junit.AfterClass;
import org.junit.Test;
import ca.uhn.fhir.context.FhirContext;
import ca.uhn.fhir.context.RuntimeResourceDefinition;
import ca.uhn.fhir.model.dstu2.composite.PeriodDt;
import ca.uhn.fhir.model.dstu2.resource.Condition;
import ca.uhn.fhir.model.dstu2.resource.Observation;
@ -25,7 +30,12 @@ public class BaseHapiFhirDaoTest extends BaseJpaTest {
@Test
public void testTranslateMatchUrl() {
SearchParameterMap match = BaseHapiFhirDao.translateMatchUrl(ourCtx, "Condition?patient=304&_lastUpdated=>2011-01-01T11:12:21.0000Z", ourCtx.getResourceDefinition(Condition.class));
RuntimeResourceDefinition resourceDef = ourCtx.getResourceDefinition(Condition.class);
IDao dao = mock(IDao.class);
when(dao.getSearchParamByName(any(RuntimeResourceDefinition.class), eq("patient"))).thenReturn(resourceDef.getSearchParam("patient"));
SearchParameterMap match = BaseHapiFhirDao.translateMatchUrl(dao, ourCtx, "Condition?patient=304&_lastUpdated=>2011-01-01T11:12:21.0000Z", resourceDef);
assertEquals("2011-01-01T11:12:21.0000Z", match.getLastUpdated().getLowerBound().getValueAsString());
assertEquals(ReferenceParam.class, match.get("patient").get(0).get(0).getClass());
assertEquals("304", ((ReferenceParam)match.get("patient").get(0).get(0)).getIdPart());

55
hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3SearchCustomParamTest.java
View File

@ -1,70 +1,23 @@
package ca.uhn.fhir.jpa.dao.dstu3;
import static org.hamcrest.Matchers.contains;
import static org.hamcrest.Matchers.containsInAnyOrder;
import static org.hamcrest.Matchers.containsInRelativeOrder;
import static org.hamcrest.Matchers.empty;
import static org.hamcrest.Matchers.endsWith;
import static org.hamcrest.Matchers.hasItem;
import static org.hamcrest.Matchers.hasItems;
import static org.hamcrest.Matchers.not;
import static org.junit.Assert.assertEquals;
import static org.junit.Assert.assertThat;
import static org.junit.Assert.assertTrue;
import static org.junit.Assert.fail;
import static org.mockito.Mockito.mock;
import java.io.IOException;
import java.math.BigDecimal;
import java.nio.charset.StandardCharsets;
import java.util.*;
import java.util.List;
import javax.servlet.http.HttpServletRequest;
import org.apache.commons.io.IOUtils;
import org.apache.commons.lang3.StringUtils;
import org.hl7.fhir.dstu3.model.*;
import org.hl7.fhir.dstu3.model.Bundle.BundleEntryComponent;
import org.hl7.fhir.dstu3.model.Bundle.BundleType;
import org.hl7.fhir.dstu3.model.Bundle.HTTPVerb;
import org.hl7.fhir.dstu3.model.ContactPoint.ContactPointSystem;
import org.hl7.fhir.dstu3.model.Enumerations.AdministrativeGender;
import org.hl7.fhir.dstu3.model.Subscription.SubscriptionChannelType;
import org.hl7.fhir.dstu3.model.Subscription.SubscriptionStatus;
import org.hl7.fhir.dstu3.model.codesystems.PublicationStatus;
import org.hl7.fhir.dstu3.model.codesystems.SearchParamType;
import org.hl7.fhir.instance.model.SearchParameter.XPathUsageType;
import org.hl7.fhir.instance.model.api.IAnyResource;
import org.hl7.fhir.instance.model.api.IBaseResource;
import org.hl7.fhir.dstu3.model.Patient;
import org.hl7.fhir.dstu3.model.SearchParameter;
import org.hl7.fhir.instance.model.api.IIdType;
import org.hl7.fhir.instance.model.api.IPrimitiveType;
import org.junit.After;
import org.junit.AfterClass;
import org.junit.Ignore;
import org.junit.Test;
import org.springframework.beans.factory.annotation.Autowired;
import org.springframework.transaction.TransactionStatus;
import org.springframework.transaction.support.TransactionCallback;
import org.springframework.transaction.support.TransactionTemplate;
import ca.uhn.fhir.jpa.dao.BaseHapiFhirDao;
import ca.uhn.fhir.jpa.dao.DaoConfig;
import ca.uhn.fhir.jpa.dao.SearchParameterMap;
import ca.uhn.fhir.jpa.dao.SearchParameterMap.EverythingModeEnum;
import ca.uhn.fhir.jpa.entity.*;
import ca.uhn.fhir.jpa.search.StaleSearchDeletingSvc;
import ca.uhn.fhir.model.api.IQueryParameterType;
import ca.uhn.fhir.model.api.Include;
import ca.uhn.fhir.model.dstu.valueset.QuantityCompararatorEnum;
import ca.uhn.fhir.rest.api.SortOrderEnum;
import ca.uhn.fhir.rest.api.SortSpec;
import ca.uhn.fhir.rest.param.*;
import ca.uhn.fhir.rest.server.Constants;
import ca.uhn.fhir.rest.param.TokenParam;
import ca.uhn.fhir.rest.server.IBundleProvider;
import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
import ca.uhn.fhir.util.TestUtil;
@SuppressWarnings("unchecked")
public class FhirResourceDaoDstu3SearchCustomParamTest extends BaseJpaDstu3Test {
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(FhirResourceDaoDstu3SearchCustomParamTest.class);

98
hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/dstu3/ResourceProviderCustomSearchParamDstu3Test.java
View File

@ -1,24 +1,34 @@
package ca.uhn.fhir.jpa.provider.dstu3;
import static org.hamcrest.Matchers.contains;
import static org.junit.Assert.assertEquals;
import static org.junit.Assert.assertThat;
import static org.junit.Assert.fail;
import java.io.IOException;
import java.util.List;
import org.hl7.fhir.dstu3.model.Bundle;
import org.hl7.fhir.dstu3.model.Enumerations.AdministrativeGender;
import org.hl7.fhir.dstu3.model.Observation;
import org.hl7.fhir.dstu3.model.Patient;
import org.hl7.fhir.dstu3.model.SearchParameter;
import org.hl7.fhir.dstu3.model.SearchParameter.XPathUsageType;
import org.hl7.fhir.instance.model.api.IIdType;
import org.junit.After;
import org.junit.AfterClass;
import org.junit.Test;
import ca.uhn.fhir.jpa.dao.DaoConfig;
import ca.uhn.fhir.jpa.dao.SearchParameterMap;
import ca.uhn.fhir.rest.gclient.ReferenceClientParam;
import ca.uhn.fhir.rest.gclient.TokenClientParam;
import ca.uhn.fhir.rest.server.IBundleProvider;
import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
import ca.uhn.fhir.util.TestUtil;
public class ResourceProviderCustomSearchParamDstu3Test extends BaseResourceProviderDstu3Test {
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(ResourceProviderCustomSearchParamDstu3Test.class);
@Override
@After
public void after() throws Exception {
@ -44,10 +54,92 @@ public class ResourceProviderCustomSearchParamDstu3Test extends BaseResourceProv
ourClient.create().resource(sp).execute();
fail();
} catch (InvalidRequestException e) {
assertEquals("", e.getMessage());
assertEquals("HTTP 400 Bad Request: Resource.status is missing or invalid: null", e.getMessage());
}
}
@SuppressWarnings("unused")
@Test
public void testSearchWithCustomParam() {
SearchParameter fooSp = new SearchParameter();
fooSp.setCode("foo");
fooSp.setType(org.hl7.fhir.dstu3.model.Enumerations.SearchParamType.TOKEN);
fooSp.setTitle("FOO SP");
fooSp.setXpath("Patient.gender");
fooSp.setXpathUsage(org.hl7.fhir.dstu3.model.SearchParameter.XPathUsageType.NORMAL);
fooSp.setStatus(org.hl7.fhir.dstu3.model.Enumerations.PublicationStatus.ACTIVE);
mySearchParameterDao.create(fooSp, mySrd);
mySearchParamRegsitry.forceRefresh();
Patient pat = new Patient();
pat.setGender(AdministrativeGender.MALE);
IIdType patId = myPatientDao.create(pat, mySrd).getId().toUnqualifiedVersionless();
Patient pat2 = new Patient();
pat.setGender(AdministrativeGender.FEMALE);
IIdType patId2 = myPatientDao.create(pat2, mySrd).getId().toUnqualifiedVersionless();
SearchParameterMap map;
IBundleProvider results;
List<String> foundResources;
Bundle result;
result = ourClient
.search()
.forResource(Patient.class)
.where(new TokenClientParam("foo").exactly().code("male"))
.returnBundle(Bundle.class)
.execute();
foundResources = toUnqualifiedVersionlessIdValues(result);
assertThat(foundResources, contains(patId.getValue()));
}
@SuppressWarnings("unused")
@Test
public void testSearchQualifiedWithCustomReferenceParam() {
SearchParameter fooSp = new SearchParameter();
fooSp.setCode("foo");
fooSp.setType(org.hl7.fhir.dstu3.model.Enumerations.SearchParamType.REFERENCE);
fooSp.setTitle("FOO SP");
fooSp.setXpath("Observation.subject");
fooSp.setXpathUsage(org.hl7.fhir.dstu3.model.SearchParameter.XPathUsageType.NORMAL);
fooSp.setStatus(org.hl7.fhir.dstu3.model.Enumerations.PublicationStatus.ACTIVE);
mySearchParameterDao.create(fooSp, mySrd);
mySearchParamRegsitry.forceRefresh();
Patient pat = new Patient();
pat.setGender(AdministrativeGender.MALE);
IIdType patId = myPatientDao.create(pat, mySrd).getId().toUnqualifiedVersionless();
Observation obs1 = new Observation();
obs1.getSubject().setReferenceElement(patId);
IIdType obsId1 = myObservationDao.create(obs1, mySrd).getId().toUnqualifiedVersionless();
Observation obs2 = new Observation();
obs2.setStatus(org.hl7.fhir.dstu3.model.Observation.ObservationStatus.FINAL);
IIdType obsId2 = myObservationDao.create(obs2, mySrd).getId().toUnqualifiedVersionless();
SearchParameterMap map;
IBundleProvider results;
List<String> foundResources;
Bundle result;
result = ourClient
.search()
.forResource(Observation.class)
.where(new ReferenceClientParam("foo").hasChainedProperty(Patient.GENDER.exactly().code("male")))
.returnBundle(Bundle.class)
.execute();
foundResources = toUnqualifiedVersionlessIdValues(result);
assertThat(foundResources, contains(obsId1.getValue()));
}
@AfterClass
public static void afterClassClearContext() {
TestUtil.clearAllStaticFieldsForUnitTest();

4
hapi-tinder-plugin/src/main/resources/vm/jpa_resource_provider.vm
View File

@ -39,7 +39,7 @@ public class ${className}ResourceProvider extends
return ${className}.class;
}
@Search()
@Search(allowUnknownParams=true)
public ca.uhn.fhir.rest.server.IBundleProvider search(
javax.servlet.http.HttpServletRequest theServletRequest,
@ -154,6 +154,8 @@ public class ${className}ResourceProvider extends
paramMap.setCount(theCount);
paramMap.setRequestDetails(theRequestDetails);
getDao().translateRawParameters(theAdditionalRawParams, paramMap);
ca.uhn.fhir.rest.server.IBundleProvider retVal = getDao().search(paramMap);
return retVal;
} finally {