Add support for bundle entry states

This commit is contained in:
jamesagnew 2015-01-09 22:02:31 -05:00
parent 1fd3bd93b1
commit fb5a775fbd
10 changed files with 689 additions and 728 deletions

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@ -40,6 +40,7 @@ import ca.uhn.fhir.model.primitive.IdDt;
import ca.uhn.fhir.model.primitive.InstantDt;
import ca.uhn.fhir.model.primitive.IntegerDt;
import ca.uhn.fhir.model.primitive.StringDt;
import ca.uhn.fhir.model.valueset.BundleEntryStatusEnum;
import ca.uhn.fhir.model.valueset.BundleTypeEnum;
import ca.uhn.fhir.rest.server.Constants;
import ca.uhn.fhir.util.UrlUtil;
@ -174,6 +175,12 @@ public class Bundle extends BaseBundle /* implements IElement */{
}
entry.getLinkAlternate().setValue(linkSearch);
}
BundleEntryStatusEnum entryStatus = ResourceMetadataKeyEnum.ENTRY_STATUS.get(theResource);
if (entryStatus != null) {
entry.getStatus().setValueAsEnum(entryStatus);
}
}
}

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@ -29,6 +29,7 @@ import org.apache.commons.lang3.StringUtils;
import ca.uhn.fhir.model.primitive.IdDt;
import ca.uhn.fhir.model.primitive.InstantDt;
import ca.uhn.fhir.model.valueset.BundleEntryStatusEnum;
import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
/**
@ -264,6 +265,31 @@ public abstract class ResourceMetadataKeyEnum<T> {
}
};
/**
* If present and populated with a {@link BundleEntryStatusEnum}, contains the "bundle entry status",
* which is the value of the status field in the Bundle.entry containing this resource. This value can be
* set to provide a status value of "include" for included resources being returned by a server, or to
* set the value on a transaction, etc.
* <p>
* Note that status is only used in FHIR DSTU2 and later.
* </p>
* <p>
* Values for this key are of type <b>{@link BundleEntryStatusEnum}</b>
* </p>
*/
public static final ResourceMetadataKeyEnum<BundleEntryStatusEnum> ENTRY_STATUS = new ResourceMetadataKeyEnum<BundleEntryStatusEnum>("ENTRY_STATUS") {
@Override
public BundleEntryStatusEnum get(IResource theResource) {
return getEnumFromMetadataOrNullIfNone(theResource.getResourceMetadata(), ENTRY_STATUS, BundleEntryStatusEnum.class, BundleEntryStatusEnum.VALUESET_BINDER);
}
@Override
public void put(IResource theResource, BundleEntryStatusEnum theObject) {
theResource.getResourceMetadata().put(ENTRY_STATUS, theObject);
}
};
private final String myValue;
public ResourceMetadataKeyEnum(String theValue) {
@ -348,6 +374,20 @@ public abstract class ResourceMetadataKeyEnum<T> {
+ InstantDt.class.getCanonicalName());
}
@SuppressWarnings("unchecked")
private static <T extends Enum<?>> T getEnumFromMetadataOrNullIfNone(Map<ResourceMetadataKeyEnum<?>, Object> theResourceMetadata, ResourceMetadataKeyEnum<T> theKey, Class<T> theEnumType, IValueSetEnumBinder<T> theBinder) {
Object retValObj = theResourceMetadata.get(theKey);
if (retValObj == null) {
return null;
} else if (theEnumType.equals(retValObj.getClass())) {
return (T) retValObj;
} else if (retValObj instanceof String) {
return theBinder.fromCodeString((String) retValObj);
}
throw new InternalErrorException("Found an object of type '" + retValObj.getClass().getCanonicalName() + "' in resource metadata for key " + theKey.name() + " - Expected "
+ InstantDt.class.getCanonicalName());
}
private static String getStringFromMetadataOrNullIfNone(Map<ResourceMetadataKeyEnum<?>, Object> theResourceMetadata, ResourceMetadataKeyEnum<String> theKey) {
Object retValObj = theResourceMetadata.get(theKey);
if (retValObj == null) {

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@ -1009,7 +1009,9 @@ class ParserState<T> {
if (!myEntry.getLinkSearch().isEmpty()) {
ResourceMetadataKeyEnum.LINK_SEARCH.put(myEntry.getResource(), myEntry.getLinkSearch().getValue());
}
if (!myEntry.getStatus().isEmpty()) {
ResourceMetadataKeyEnum.ENTRY_STATUS.put(myEntry.getResource(), myEntry.getStatus().getValueAsEnum());
}
}
}
@ -1115,13 +1117,18 @@ class ParserState<T> {
String baseUrl = myInstance.getLinkBase().getValue();
String version = ResourceMetadataKeyEnum.VERSION.get(nextResource);
String resourceName = myContext.getResourceDefinition(nextResource).getName();
nextResource.setId(new IdDt(baseUrl, resourceName, nextResource.getId().getIdPart(), version));
String idPart = nextResource.getId().getIdPart();
if (isNotBlank(idPart)) {
nextResource.setId(new IdDt(baseUrl, resourceName, idPart, version));
}
}
String bundleVersion = (String) myInstance.getResourceMetadata().get(ResourceMetadataKeyEnum.VERSION);
String baseUrl = myInstance.getLinkBase().getValue();
String id = myInstance.getId().getIdPart();
myInstance.setId(new IdDt(baseUrl, "Bundle", id, bundleVersion));
if (isNotBlank(id)) {
myInstance.setId(new IdDt(baseUrl, "Bundle", id, bundleVersion));
}
}

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@ -1179,7 +1179,7 @@ public class RestfulServer extends HttpServlet {
} while (references.isEmpty() == false);
bundle.addResource(next, theContext, theServerBase);
}
/*
@ -1188,7 +1188,9 @@ public class RestfulServer extends HttpServlet {
for (IResource next : includedResources) {
BundleEntry entry = bundle.addResource(next, theContext, theServerBase);
if (theContext.getVersion().getVersion().isNewerThan(FhirVersionEnum.DSTU1)) {
entry.getStatus().setValueAsEnum(BundleEntryStatusEnum.INCLUDE);
if (entry.getStatus().isEmpty()) {
entry.getStatus().setValueAsEnum(BundleEntryStatusEnum.INCLUDE);
}
}
}

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@ -75,6 +75,7 @@ import ca.uhn.fhir.model.dstu.valueset.QuantityCompararatorEnum;
import ca.uhn.fhir.model.dstu.valueset.SearchParamTypeEnum;
import ca.uhn.fhir.model.primitive.IdDt;
import ca.uhn.fhir.model.primitive.InstantDt;
import ca.uhn.fhir.model.valueset.BundleEntryStatusEnum;
import ca.uhn.fhir.rest.api.MethodOutcome;
import ca.uhn.fhir.rest.api.SortSpec;
import ca.uhn.fhir.rest.param.CompositeParam;
@ -533,6 +534,9 @@ public class FhirResourceDao<T extends IResource> extends BaseFhirDao implements
if (!includePids.isEmpty()) {
ourLog.info("Loading {} included resources", includePids.size());
resources = loadResourcesById(includePids);
for (IResource next : resources) {
ResourceMetadataKeyEnum.ENTRY_STATUS.put(next, BundleEntryStatusEnum.INCLUDE);
}
retVal.addAll(resources);
}
} while (includePids.size() > 0 && previouslyLoadedPids.size() < getConfig().getIncludeLimit());

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@ -19,6 +19,11 @@
<artifactId>hapi-fhir-jpaserver-base</artifactId>
<version>0.9-SNAPSHOT</version>
</dependency>
<dependency>
<groupId>ca.uhn.hapi.fhir</groupId>
<artifactId>hapi-fhir-structures-dev</artifactId>
<version>0.9-SNAPSHOT</version>
</dependency>
<dependency>
<groupId>org.thymeleaf</groupId>
<artifactId>thymeleaf</artifactId>

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@ -24,20 +24,22 @@ import ca.uhn.fhir.jpa.provider.JpaSystemProvider;
import ca.uhn.fhir.jpa.testutil.RandomServerPortProvider;
import ca.uhn.fhir.model.api.Bundle;
import ca.uhn.fhir.model.api.IResource;
import ca.uhn.fhir.model.dstu.composite.PeriodDt;
import ca.uhn.fhir.model.api.ResourceMetadataKeyEnum;
import ca.uhn.fhir.model.dev.composite.PeriodDt;
import ca.uhn.fhir.model.dstu.composite.ResourceReferenceDt;
import ca.uhn.fhir.model.dstu.resource.DiagnosticOrder;
import ca.uhn.fhir.model.dstu.resource.DocumentManifest;
import ca.uhn.fhir.model.dstu.resource.DocumentReference;
import ca.uhn.fhir.model.dstu.resource.Encounter;
import ca.uhn.fhir.model.dstu.resource.ImagingStudy;
import ca.uhn.fhir.model.dstu.resource.Location;
import ca.uhn.fhir.model.dstu.resource.Organization;
import ca.uhn.fhir.model.dstu.resource.Patient;
import ca.uhn.fhir.model.dstu.valueset.EncounterClassEnum;
import ca.uhn.fhir.model.dstu.valueset.EncounterStateEnum;
import ca.uhn.fhir.model.dev.resource.DiagnosticOrder;
import ca.uhn.fhir.model.dev.resource.DocumentManifest;
import ca.uhn.fhir.model.dev.resource.DocumentReference;
import ca.uhn.fhir.model.dev.resource.Encounter;
import ca.uhn.fhir.model.dev.resource.ImagingStudy;
import ca.uhn.fhir.model.dev.resource.Location;
import ca.uhn.fhir.model.dev.resource.Organization;
import ca.uhn.fhir.model.dev.resource.Patient;
import ca.uhn.fhir.model.dev.valueset.EncounterClassEnum;
import ca.uhn.fhir.model.dev.valueset.EncounterStateEnum;
import ca.uhn.fhir.model.dstu.valueset.NarrativeStatusEnum;
import ca.uhn.fhir.model.primitive.IdDt;
import ca.uhn.fhir.model.valueset.BundleEntryStatusEnum;
import ca.uhn.fhir.narrative.DefaultThymeleafNarrativeGenerator;
import ca.uhn.fhir.rest.api.MethodOutcome;
import ca.uhn.fhir.rest.client.IGenericClient;
@ -72,7 +74,7 @@ public class CompleteResourceProviderTest {
public void testStoreUtf8Characters() throws Exception {
Organization org = new Organization();
org.setName("測試醫院");
org.addIdentifier("urn:system", "testStoreUtf8Characters_01");
org.addIdentifier().setSystem("urn:system").setValue("testStoreUtf8Characters_01");
IdDt orgId = ourClient.create().resource(org).prettyPrint().encodedXml().execute().getId();
// Read back directly from the DAO
@ -91,6 +93,36 @@ public class CompleteResourceProviderTest {
}
}
@Test
public void testSearchWithInclude() throws Exception {
Organization org = new Organization();
org.addIdentifier().setSystem("urn:system").setValue( "testSearchWithInclude01");
IdDt orgId = ourClient.create().resource(org).prettyPrint().encodedXml().execute().getId();
Patient pat = new Patient();
pat.addIdentifier().setSystem("urn:system").setValue("testSearchWithInclude02");
pat.getManagingOrganization().setReference(orgId);
ourClient.create().resource(pat).prettyPrint().encodedXml().execute().getId();
//@formatter:off
Bundle found = ourClient
.search()
.forResource(Patient.class)
.where(Patient.IDENTIFIER.exactly().systemAndIdentifier("urn:system","testSearchWithInclude02"))
.include(Patient.INCLUDE_MANAGINGORGANIZATION)
.execute();
//@formatter:on
assertEquals(2, found.size());
assertEquals(Patient.class, found.getEntries().get(0).getResource().getClass());
assertEquals(null, found.getEntries().get(0).getStatus().getValueAsEnum());
assertEquals(null, found.getEntries().get(0).getResource().getResourceMetadata().get(ResourceMetadataKeyEnum.ENTRY_STATUS));
assertEquals(Organization.class, found.getEntries().get(1).getResource().getClass());
assertEquals(BundleEntryStatusEnum.INCLUDE, found.getEntries().get(1).getStatus().getValueAsEnum());
assertEquals(BundleEntryStatusEnum.INCLUDE, found.getEntries().get(1).getResource().getResourceMetadata().get(ResourceMetadataKeyEnum.ENTRY_STATUS));
}
@Test
public void testCountParam() throws Exception {
// NB this does not get used- The paging provider has its own limits built in
@ -178,7 +210,7 @@ public class CompleteResourceProviderTest {
int initialSize = client.search().forResource(DiagnosticOrder.class).execute().size();
DiagnosticOrder res = new DiagnosticOrder();
res.addIdentifier("urn:foo", "123");
res.addIdentifier().setSystem("urn:foo").setValue( "123");
client.create().resource(res).execute();
@ -241,19 +273,19 @@ public class CompleteResourceProviderTest {
deleteToken("Encounter", Encounter.SP_IDENTIFIER, "urn:foo", "testDeepChainingE1");
Location l1 = new Location();
l1.getName().setValue("testDeepChainingL1");
l1.getNameElement().setValue("testDeepChainingL1");
IdDt l1id = ourClient.create().resource(l1).execute().getId();
Location l2 = new Location();
l2.getName().setValue("testDeepChainingL2");
l2.getNameElement().setValue("testDeepChainingL2");
l2.getPartOf().setReference(l1id.toVersionless().toUnqualified());
IdDt l2id = ourClient.create().resource(l2).execute().getId();
Encounter e1 = new Encounter();
e1.addIdentifier().setSystem("urn:foo").setValue("testDeepChainingE1");
e1.getStatus().setValueAsEnum(EncounterStateEnum.IN_PROGRESS);
e1.getClassElement().setValueAsEnum(EncounterClassEnum.HOME);
ca.uhn.fhir.model.dstu.resource.Encounter.Location location = e1.addLocation();
e1.getStatusElement().setValueAsEnum(EncounterStateEnum.IN_PROGRESS);
e1.getClassElementElement().setValueAsEnum(EncounterClassEnum.HOME);
ca.uhn.fhir.model.dev.resource.Encounter.Location location = e1.addLocation();
location.getLocation().setReference(l2id.toUnqualifiedVersionless());
location.setPeriod(new PeriodDt().setStartWithSecondsPrecision(new Date()).setEndWithSecondsPrecision(new Date()));
IdDt e1id = ourClient.create().resource(e1).execute().getId();
@ -372,7 +404,7 @@ public class CompleteResourceProviderTest {
//@formatter:off
Bundle actual = ourClient.search()
.forResource(Patient.class)
.where(Patient.PROVIDER.hasId(o1id.getIdPart()))
.where(Patient.ORGANIZATION.hasId(o1id.getIdPart()))
.encodedJson().prettyPrint().execute();
//@formatter:on
assertEquals(1, actual.size());
@ -381,7 +413,7 @@ public class CompleteResourceProviderTest {
//@formatter:off
actual = ourClient.search()
.forResource(Patient.class)
.where(Patient.PROVIDER.hasId(o1id.getValue()))
.where(Patient.ORGANIZATION.hasId(o1id.getValue()))
.encodedJson().prettyPrint().execute();
//@formatter:on
assertEquals(1, actual.size());
@ -412,12 +444,12 @@ public class CompleteResourceProviderTest {
deleteToken("Patient", Patient.SP_IDENTIFIER, "urn:system", "testUpdateRejectsInvalidTypes");
Patient p1 = new Patient();
p1.addIdentifier("urn:system", "testUpdateRejectsInvalidTypes");
p1.addIdentifier().setSystem("urn:system").setValue("testUpdateRejectsInvalidTypes");
p1.addName().addFamily("Tester").addGiven("testUpdateRejectsInvalidTypes");
IdDt p1id = ourClient.create().resource(p1).execute().getId();
Organization p2 = new Organization();
p2.getName().setValue("testUpdateRejectsInvalidTypes");
p2.getNameElement().setValue("testUpdateRejectsInvalidTypes");
try {
ourClient.update().resource(p2).withId("Organization/" + p1id.getIdPart()).execute();
fail();
@ -462,21 +494,25 @@ public class CompleteResourceProviderTest {
@BeforeClass
public static void beforeClass() throws Exception {
int port = RandomServerPortProvider.findFreePort();
RestfulServer restServer = new RestfulServer();
ourFhirCtx = FhirContext.forDev();
restServer.setFhirContext(ourFhirCtx);
String serverBase = "http://localhost:" + port + "/fhir/context";
ourAppCtx = new ClassPathXmlApplicationContext("hapi-fhir-server-resourceproviders-dstu1.xml", "fhir-spring-test-config.xml");
ourAppCtx = new ClassPathXmlApplicationContext("hapi-fhir-server-resourceproviders-dev.xml", "fhir-spring-test-config.xml");
ourDaoConfig = (DaoConfig) ourAppCtx.getBean(DaoConfig.class);
ourOrganizationDao = (IFhirResourceDao<Organization>) ourAppCtx.getBean("myOrganizationDaoDstu1", IFhirResourceDao.class);
ourOrganizationDao = (IFhirResourceDao<Organization>) ourAppCtx.getBean("myOrganizationDaoDev", IFhirResourceDao.class);
List<IResourceProvider> rpsDstu1 = (List<IResourceProvider>) ourAppCtx.getBean("myResourceProvidersDstu1", List.class);
restServer.setResourceProviders(rpsDstu1);
List<IResourceProvider> rpsDev = (List<IResourceProvider>) ourAppCtx.getBean("myResourceProvidersDev", List.class);
restServer.setResourceProviders(rpsDev);
restServer.getFhirContext().setNarrativeGenerator(new DefaultThymeleafNarrativeGenerator());
IFhirSystemDao systemDao = (IFhirSystemDao) ourAppCtx.getBean("mySystemDaoDstu1", IFhirSystemDao.class);
IFhirSystemDao systemDao = (IFhirSystemDao) ourAppCtx.getBean("mySystemDaoDev", IFhirSystemDao.class);
JpaSystemProvider systemProv = new JpaSystemProvider(systemDao);
restServer.setPlainProviders(systemProv);
@ -494,8 +530,6 @@ public class CompleteResourceProviderTest {
ourServer.setHandler(proxyHandler);
ourServer.start();
ourFhirCtx = restServer.getFhirContext();
ourClient = ourFhirCtx.newRestfulGenericClient(serverBase);
ourClient.registerInterceptor(new LoggingInterceptor(true));

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@ -0,0 +1,538 @@
package ca.uhn.fhir.jpa.test;
import static org.hamcrest.Matchers.*;
import static org.junit.Assert.*;
import java.util.ArrayList;
import java.util.Date;
import java.util.List;
import org.apache.commons.io.IOUtils;
import org.eclipse.jetty.server.Server;
import org.eclipse.jetty.servlet.ServletContextHandler;
import org.eclipse.jetty.servlet.ServletHolder;
import org.junit.AfterClass;
import org.junit.BeforeClass;
import org.junit.Test;
import org.springframework.context.support.ClassPathXmlApplicationContext;
import ca.uhn.fhir.context.FhirContext;
import ca.uhn.fhir.jpa.dao.DaoConfig;
import ca.uhn.fhir.jpa.dao.IFhirResourceDao;
import ca.uhn.fhir.jpa.dao.IFhirSystemDao;
import ca.uhn.fhir.jpa.provider.JpaSystemProvider;
import ca.uhn.fhir.jpa.testutil.RandomServerPortProvider;
import ca.uhn.fhir.model.api.Bundle;
import ca.uhn.fhir.model.api.IResource;
import ca.uhn.fhir.model.api.ResourceMetadataKeyEnum;
import ca.uhn.fhir.model.dstu.composite.PeriodDt;
import ca.uhn.fhir.model.dstu.composite.ResourceReferenceDt;
import ca.uhn.fhir.model.dstu.resource.DiagnosticOrder;
import ca.uhn.fhir.model.dstu.resource.DocumentManifest;
import ca.uhn.fhir.model.dstu.resource.DocumentReference;
import ca.uhn.fhir.model.dstu.resource.Encounter;
import ca.uhn.fhir.model.dstu.resource.ImagingStudy;
import ca.uhn.fhir.model.dstu.resource.Location;
import ca.uhn.fhir.model.dstu.resource.Organization;
import ca.uhn.fhir.model.dstu.resource.Patient;
import ca.uhn.fhir.model.dstu.valueset.EncounterClassEnum;
import ca.uhn.fhir.model.dstu.valueset.EncounterStateEnum;
import ca.uhn.fhir.model.dstu.valueset.NarrativeStatusEnum;
import ca.uhn.fhir.model.primitive.IdDt;
import ca.uhn.fhir.model.valueset.BundleEntryStatusEnum;
import ca.uhn.fhir.narrative.DefaultThymeleafNarrativeGenerator;
import ca.uhn.fhir.rest.api.MethodOutcome;
import ca.uhn.fhir.rest.client.IGenericClient;
import ca.uhn.fhir.rest.client.interceptor.LoggingInterceptor;
import ca.uhn.fhir.rest.gclient.StringClientParam;
import ca.uhn.fhir.rest.gclient.TokenClientParam;
import ca.uhn.fhir.rest.server.FifoMemoryPagingProvider;
import ca.uhn.fhir.rest.server.IResourceProvider;
import ca.uhn.fhir.rest.server.RestfulServer;
import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
import ca.uhn.fhir.rest.server.exceptions.UnprocessableEntityException;
public class CompleteResourceProviderTestDstu1 {
private static ClassPathXmlApplicationContext ourAppCtx;
private static IGenericClient ourClient;
private static FhirContext ourFhirCtx;
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(CompleteResourceProviderTestDstu1.class);
// private static IFhirResourceDao<Observation> ourObservationDao;
// private static IFhirResourceDao<Patient> ourPatientDao;
// private static IFhirResourceDao<Questionnaire> ourQuestionnaireDao;
private static Server ourServer;
private static IFhirResourceDao<Organization> ourOrganizationDao;
private static DaoConfig ourDaoConfig;
// private static JpaConformanceProvider ourConfProvider;
/**
* Test for issue #60
*/
@Test
public void testStoreUtf8Characters() throws Exception {
Organization org = new Organization();
org.setName("測試醫院");
org.addIdentifier().setSystem("urn:system").setValue("testStoreUtf8Characters_01");
IdDt orgId = ourClient.create().resource(org).prettyPrint().encodedXml().execute().getId();
// Read back directly from the DAO
{
Organization returned = ourOrganizationDao.read(orgId);
String val = ourFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(returned);
ourLog.info(val);
assertThat(val, containsString("<name value=\"測試醫院\"/>"));
}
// Read back through the HTTP API
{
Organization returned = ourClient.read(Organization.class, orgId);
String val = ourFhirCtx.newXmlParser().setPrettyPrint(true).encodeResourceToString(returned);
ourLog.info(val);
assertThat(val, containsString("<name value=\"測試醫院\"/>"));
}
}
@Test
public void testSearchWithInclude() throws Exception {
Organization org = new Organization();
org.addIdentifier().setSystem("urn:system").setValue( "testSearchWithInclude01");
IdDt orgId = ourClient.create().resource(org).prettyPrint().encodedXml().execute().getId();
Patient pat = new Patient();
pat.addIdentifier().setSystem("urn:system").setValue("testSearchWithInclude02");
pat.getManagingOrganization().setReference(orgId);
ourClient.create().resource(pat).prettyPrint().encodedXml().execute().getId();
//@formatter:off
Bundle found = ourClient
.search()
.forResource(Patient.class)
.where(Patient.IDENTIFIER.exactly().systemAndIdentifier("urn:system","testSearchWithInclude02"))
.include(Patient.INCLUDE_MANAGINGORGANIZATION)
.execute();
//@formatter:on
assertEquals(2, found.size());
assertEquals(Patient.class, found.getEntries().get(0).getResource().getClass());
assertEquals(null, found.getEntries().get(0).getStatus().getValueAsEnum());
assertEquals(null, found.getEntries().get(0).getResource().getResourceMetadata().get(ResourceMetadataKeyEnum.ENTRY_STATUS));
assertEquals(Organization.class, found.getEntries().get(1).getResource().getClass());
assertEquals(BundleEntryStatusEnum.INCLUDE, found.getEntries().get(1).getStatus().getValueAsEnum());
assertEquals(BundleEntryStatusEnum.INCLUDE, found.getEntries().get(1).getResource().getResourceMetadata().get(ResourceMetadataKeyEnum.ENTRY_STATUS));
}
@Test
public void testCountParam() throws Exception {
// NB this does not get used- The paging provider has its own limits built in
ourDaoConfig.setHardSearchLimit(100);
List<IResource> resources = new ArrayList<>();
for (int i = 0; i < 100; i++) {
Organization org = new Organization();
org.setName("testCountParam_01");
resources.add(org);
}
ourClient.transaction().withResources(resources).prettyPrint().encodedXml().execute();
Bundle found = ourClient.search().forResource(Organization.class).where(Organization.NAME.matches().value("testCountParam_01")).limitTo(10).execute();
assertEquals(100, found.getTotalResults().getValue().intValue());
assertEquals(10, found.getEntries().size());
found = ourClient.search().forResource(Organization.class).where(Organization.NAME.matches().value("testCountParam_01")).limitTo(999).execute();
assertEquals(100, found.getTotalResults().getValue().intValue());
assertEquals(50, found.getEntries().size());
}
/**
* See issue #52
*/
@Test
public void testImagingStudyResources() throws Exception {
IGenericClient client = ourClient;
int initialSize = client.search().forResource(ImagingStudy.class).execute().size();
String resBody = IOUtils.toString(CompleteResourceProviderTestDstu1.class.getResource("/imagingstudy.json"));
client.create().resource(resBody).execute();
int newSize = client.search().forResource(ImagingStudy.class).execute().size();
assertEquals(1, newSize - initialSize);
}
/**
* See issue #52
*/
@Test
public void testDocumentManifestResources() throws Exception {
IGenericClient client = ourClient;
int initialSize = client.search().forResource(DocumentManifest.class).execute().size();
String resBody = IOUtils.toString(CompleteResourceProviderTestDstu1.class.getResource("/documentmanifest.json"));
client.create().resource(resBody).execute();
int newSize = client.search().forResource(DocumentManifest.class).execute().size();
assertEquals(1, newSize - initialSize);
}
/**
* See issue #52
*/
@Test
public void testDocumentReferenceResources() throws Exception {
IGenericClient client = ourClient;
int initialSize = client.search().forResource(DocumentReference.class).execute().size();
String resBody = IOUtils.toString(CompleteResourceProviderTestDstu1.class.getResource("/documentreference.json"));
client.create().resource(resBody).execute();
int newSize = client.search().forResource(DocumentReference.class).execute().size();
assertEquals(1, newSize - initialSize);
}
/**
* See issue #52
*/
@Test
public void testDiagnosticOrderResources() throws Exception {
IGenericClient client = ourClient;
int initialSize = client.search().forResource(DiagnosticOrder.class).execute().size();
DiagnosticOrder res = new DiagnosticOrder();
res.addIdentifier().setSystem("urn:foo").setValue( "123");
client.create().resource(res).execute();
int newSize = client.search().forResource(DiagnosticOrder.class).execute().size();
assertEquals(1, newSize - initialSize);
}
private void delete(String theResourceType, String theParamName, String theParamValue) {
Bundle resources = ourClient.search().forResource(theResourceType).where(new StringClientParam(theParamName).matches().value(theParamValue)).execute();
for (IResource next : resources.toListOfResources()) {
ourLog.info("Deleting resource: {}", next.getId());
ourClient.delete().resource(next).execute();
}
}
private void deleteToken(String theResourceType, String theParamName, String theParamSystem, String theParamValue) {
Bundle resources = ourClient.search().forResource(theResourceType).where(new TokenClientParam(theParamName).exactly().systemAndCode(theParamSystem, theParamValue)).execute();
for (IResource next : resources.toListOfResources()) {
ourLog.info("Deleting resource: {}", next.getId());
ourClient.delete().resource(next).execute();
}
}
@Test
public void testCreateWithClientSuppliedId() {
deleteToken("Patient", Patient.SP_IDENTIFIER, "urn:system", "testCreateWithId01");
Patient p1 = new Patient();
p1.addIdentifier().setSystem("urn:system").setValue("testCreateWithId01");
IdDt p1Id = ourClient.create().resource(p1).withId("testCreateWithId").execute().getId();
assertThat(p1Id.getValue(), containsString("Patient/testCreateWithId/_history"));
Bundle actual = ourClient.search().forResource(Patient.class).where(Patient.IDENTIFIER.exactly().systemAndCode("urn:system", "testCreateWithId01")).encodedJson().prettyPrint().execute();
assertEquals(1, actual.size());
assertEquals(p1Id.getIdPart(), actual.getEntries().get(0).getId().getIdPart());
/*
* ensure that trying to create the same ID again fails appropriately
*/
try {
ourClient.create().resource(p1).withId("testCreateWithId").execute().getId();
fail();
} catch (UnprocessableEntityException e) {
// good
}
Bundle history = ourClient.history(null, (String) null, null, null);
assertEquals("Expected[" + p1Id.getIdPart() + "] but was " + history.getEntries().get(0).getId(), p1Id.getIdPart(), history.getEntries().get(0).getId().getIdPart());
assertNotNull(history.getEntries().get(0).getResource());
}
@Test
public void testDeepChaining() {
delete("Location", Location.SP_NAME, "testDeepChainingL1");
delete("Location", Location.SP_NAME, "testDeepChainingL2");
deleteToken("Encounter", Encounter.SP_IDENTIFIER, "urn:foo", "testDeepChainingE1");
Location l1 = new Location();
l1.getNameElement().setValue("testDeepChainingL1");
IdDt l1id = ourClient.create().resource(l1).execute().getId();
Location l2 = new Location();
l2.getNameElement().setValue("testDeepChainingL2");
l2.getPartOf().setReference(l1id.toVersionless().toUnqualified());
IdDt l2id = ourClient.create().resource(l2).execute().getId();
Encounter e1 = new Encounter();
e1.addIdentifier().setSystem("urn:foo").setValue("testDeepChainingE1");
e1.getStatusElement().setValueAsEnum(EncounterStateEnum.IN_PROGRESS);
e1.getClassElementElement().setValueAsEnum(EncounterClassEnum.HOME);
ca.uhn.fhir.model.dstu.resource.Encounter.Location location = e1.addLocation();
location.getLocation().setReference(l2id.toUnqualifiedVersionless());
location.setPeriod(new PeriodDt().setStartWithSecondsPrecision(new Date()).setEndWithSecondsPrecision(new Date()));
IdDt e1id = ourClient.create().resource(e1).execute().getId();
//@formatter:off
Bundle res = ourClient.search()
.forResource(Encounter.class)
.where(Encounter.IDENTIFIER.exactly().systemAndCode("urn:foo", "testDeepChainingE1"))
.include(Encounter.INCLUDE_LOCATION_LOCATION)
.include(Location.INCLUDE_PARTOF)
.execute();
//@formatter:on
assertEquals(3, res.size());
assertEquals(1, res.getResources(Encounter.class).size());
assertEquals(e1id.toUnqualifiedVersionless(), res.getResources(Encounter.class).get(0).getId().toUnqualifiedVersionless());
}
@Test
public void testSaveAndRetrieveExistingNarrative() {
deleteToken("Patient", Patient.SP_IDENTIFIER, "urn:system", "testSaveAndRetrieveExistingNarrative01");
Patient p1 = new Patient();
p1.getText().setStatus(NarrativeStatusEnum.GENERATED);
p1.getText().getDiv().setValueAsString("<div>HELLO WORLD</div>");
p1.addIdentifier().setSystem("urn:system").setValue("testSaveAndRetrieveExistingNarrative01");
IdDt newId = ourClient.create().resource(p1).execute().getId();
Patient actual = ourClient.read(Patient.class, newId);
assertEquals("<div xmlns=\"http://www.w3.org/1999/xhtml\">HELLO WORLD</div>", actual.getText().getDiv().getValueAsString());
}
@Test
public void testSaveAndRetrieveWithContained() {
Patient p1 = new Patient();
p1.addIdentifier().setSystem("urn:system").setValue("testSaveAndRetrieveWithContained01");
Organization o1 = new Organization();
o1.addIdentifier().setSystem("urn:system").setValue("testSaveAndRetrieveWithContained02");
p1.getManagingOrganization().setResource(o1);
IdDt newId = ourClient.create().resource(p1).execute().getId();
Patient actual = ourClient.read(Patient.class, newId);
assertEquals(1, actual.getContained().getContainedResources().size());
assertThat(actual.getText().getDiv().getValueAsString(), containsString("<td>Identifier</td><td>testSaveAndRetrieveWithContained01</td>"));
Bundle b = ourClient.search().forResource("Patient").where(Patient.IDENTIFIER.exactly().systemAndCode("urn:system", "testSaveAndRetrieveWithContained01")).execute();
assertEquals(1, b.size());
}
@Test
public void testSaveAndRetrieveWithoutNarrative() {
Patient p1 = new Patient();
p1.addIdentifier().setSystem("urn:system").setValue("testSearchByResourceChain01");
IdDt newId = ourClient.create().resource(p1).execute().getId();
Patient actual = ourClient.read(Patient.class, newId);
assertThat(actual.getText().getDiv().getValueAsString(), containsString("<td>Identifier</td><td>testSearchByResourceChain01</td>"));
}
@Test
public void testSearchByIdentifier() {
deleteToken("Patient", Patient.SP_IDENTIFIER, "urn:system", "testSearchByIdentifier01");
deleteToken("Patient", Patient.SP_IDENTIFIER, "urn:system", "testSearchByIdentifier02");
Patient p1 = new Patient();
p1.addIdentifier().setSystem("urn:system").setValue("testSearchByIdentifier01");
p1.addName().addFamily("testSearchByIdentifierFamily01").addGiven("testSearchByIdentifierGiven01");
IdDt p1Id = ourClient.create().resource(p1).execute().getId();
Patient p2 = new Patient();
p2.addIdentifier().setSystem("urn:system").setValue("testSearchByIdentifier02");
p2.addName().addFamily("testSearchByIdentifierFamily01").addGiven("testSearchByIdentifierGiven02");
ourClient.create().resource(p2).execute().getId();
Bundle actual = ourClient.search().forResource(Patient.class).where(Patient.IDENTIFIER.exactly().systemAndCode("urn:system", "testSearchByIdentifier01")).encodedJson().prettyPrint().execute();
assertEquals(1, actual.size());
assertEquals(p1Id.getIdPart(), actual.getEntries().get(0).getId().getIdPart());
}
@Test
public void testSearchByIdentifierWithoutSystem() {
deleteToken("Patient", Patient.SP_IDENTIFIER, "", "testSearchByIdentifierWithoutSystem01");
Patient p1 = new Patient();
p1.addIdentifier().setValue("testSearchByIdentifierWithoutSystem01");
IdDt p1Id = ourClient.create().resource(p1).execute().getId();
Bundle actual = ourClient.search().forResource(Patient.class).where(Patient.IDENTIFIER.exactly().systemAndCode(null, "testSearchByIdentifierWithoutSystem01")).encodedJson().prettyPrint().execute();
assertEquals(1, actual.size());
assertEquals(p1Id.getIdPart(), actual.getEntries().get(0).getId().getIdPart());
}
@Test
public void testSearchByResourceChain() {
delete("Organization", Organization.SP_NAME, "testSearchByResourceChainName01");
deleteToken("Patient", Patient.SP_IDENTIFIER, "urn:system", "testSearchByResourceChain01");
Organization o1 = new Organization();
o1.setName("testSearchByResourceChainName01");
IdDt o1id = ourClient.create().resource(o1).execute().getId();
Patient p1 = new Patient();
p1.addIdentifier().setSystem("urn:system").setValue("testSearchByResourceChain01");
p1.addName().addFamily("testSearchByResourceChainFamily01").addGiven("testSearchByResourceChainGiven01");
p1.setManagingOrganization(new ResourceReferenceDt(o1id));
IdDt p1Id = ourClient.create().resource(p1).execute().getId();
//@formatter:off
Bundle actual = ourClient.search()
.forResource(Patient.class)
.where(Patient.PROVIDER.hasId(o1id.getIdPart()))
.encodedJson().prettyPrint().execute();
//@formatter:on
assertEquals(1, actual.size());
assertEquals(p1Id.getIdPart(), actual.getEntries().get(0).getId().getIdPart());
//@formatter:off
actual = ourClient.search()
.forResource(Patient.class)
.where(Patient.PROVIDER.hasId(o1id.getValue()))
.encodedJson().prettyPrint().execute();
//@formatter:on
assertEquals(1, actual.size());
assertEquals(p1Id.getIdPart(), actual.getEntries().get(0).getId().getIdPart());
}
@Test
public void testTryToCreateResourceWithReferenceThatDoesntExist() {
deleteToken("Patient", Patient.SP_IDENTIFIER, "urn:system", "testTryToCreateResourceWithReferenceThatDoesntExist01");
Patient p1 = new Patient();
p1.addIdentifier().setSystem("urn:system").setValue("testTryToCreateResourceWithReferenceThatDoesntExist01");
p1.addName().addFamily("testTryToCreateResourceWithReferenceThatDoesntExistFamily01").addGiven("testTryToCreateResourceWithReferenceThatDoesntExistGiven01");
p1.setManagingOrganization(new ResourceReferenceDt("Organization/1323123232349875324987529835"));
try {
ourClient.create().resource(p1).execute().getId();
fail();
} catch (InvalidRequestException e) {
assertThat(e.getMessage(), containsString("Organization/1323123232349875324987529835"));
}
}
@Test
public void testUpdateRejectsInvalidTypes() throws InterruptedException {
deleteToken("Patient", Patient.SP_IDENTIFIER, "urn:system", "testUpdateRejectsInvalidTypes");
Patient p1 = new Patient();
p1.addIdentifier().setSystem("urn:system").setValue("testUpdateRejectsInvalidTypes");
p1.addName().addFamily("Tester").addGiven("testUpdateRejectsInvalidTypes");
IdDt p1id = ourClient.create().resource(p1).execute().getId();
Organization p2 = new Organization();
p2.getNameElement().setValue("testUpdateRejectsInvalidTypes");
try {
ourClient.update().resource(p2).withId("Organization/" + p1id.getIdPart()).execute();
fail();
} catch (UnprocessableEntityException e) {
// good
}
try {
ourClient.update().resource(p2).withId("Patient/" + p1id.getIdPart()).execute();
fail();
} catch (UnprocessableEntityException e) {
// good
}
}
@Test
public void testUpdateWithClientSuppliedIdWhichDoesntExist() {
deleteToken("Patient", Patient.SP_IDENTIFIER, "urn:system", "testUpdateWithClientSuppliedIdWhichDoesntExist");
Patient p1 = new Patient();
p1.addIdentifier().setSystem("urn:system").setValue("testUpdateWithClientSuppliedIdWhichDoesntExist");
MethodOutcome outcome = ourClient.update().resource(p1).withId("testUpdateWithClientSuppliedIdWhichDoesntExist").execute();
assertEquals(true, outcome.getCreated().booleanValue());
IdDt p1Id = outcome.getId();
assertThat(p1Id.getValue(), containsString("Patient/testUpdateWithClientSuppliedIdWhichDoesntExist/_history"));
Bundle actual = ourClient.search().forResource(Patient.class).where(Patient.IDENTIFIER.exactly().systemAndCode("urn:system", "testUpdateWithClientSuppliedIdWhichDoesntExist")).encodedJson().prettyPrint().execute();
assertEquals(1, actual.size());
assertEquals(p1Id.getIdPart(), actual.getEntries().get(0).getId().getIdPart());
}
@AfterClass
public static void afterClass() throws Exception {
ourServer.stop();
ourAppCtx.stop();
}
@SuppressWarnings("unchecked")
@BeforeClass
public static void beforeClass() throws Exception {
int port = RandomServerPortProvider.findFreePort();
RestfulServer restServer = new RestfulServer();
ourFhirCtx = FhirContext.forDstu1();
restServer.setFhirContext(ourFhirCtx);
String serverBase = "http://localhost:" + port + "/fhir/context";
ourAppCtx = new ClassPathXmlApplicationContext("hapi-fhir-server-resourceproviders-dev.xml", "fhir-spring-test-config.xml");
ourDaoConfig = (DaoConfig) ourAppCtx.getBean(DaoConfig.class);
ourOrganizationDao = (IFhirResourceDao<Organization>) ourAppCtx.getBean("myOrganizationDaoDev", IFhirResourceDao.class);
List<IResourceProvider> rpsDev = (List<IResourceProvider>) ourAppCtx.getBean("myResourceProvidersDev", List.class);
restServer.setResourceProviders(rpsDev);
restServer.getFhirContext().setNarrativeGenerator(new DefaultThymeleafNarrativeGenerator());
IFhirSystemDao systemDao = (IFhirSystemDao) ourAppCtx.getBean("mySystemDaoDev", IFhirSystemDao.class);
JpaSystemProvider systemProv = new JpaSystemProvider(systemDao);
restServer.setPlainProviders(systemProv);
restServer.setPagingProvider(new FifoMemoryPagingProvider(10));
ourServer = new Server(port);
ServletContextHandler proxyHandler = new ServletContextHandler();
proxyHandler.setContextPath("/");
ServletHolder servletHolder = new ServletHolder();
servletHolder.setServlet(restServer);
proxyHandler.addServlet(servletHolder, "/fhir/context/*");
ourServer.setHandler(proxyHandler);
ourServer.start();
ourClient = ourFhirCtx.newRestfulGenericClient(serverBase);
ourClient.registerInterceptor(new LoggingInterceptor(true));
}
}

View File

@ -1,5 +1,6 @@
package ca.uhn.fhir.parser;
import static org.hamcrest.Matchers.*;
import static org.junit.Assert.*;
import java.io.StringReader;
@ -14,8 +15,10 @@ import ca.uhn.fhir.context.FhirContext;
import ca.uhn.fhir.model.api.Bundle;
import ca.uhn.fhir.model.api.ResourceMetadataKeyEnum;
import ca.uhn.fhir.model.dev.resource.MedicationPrescription;
import ca.uhn.fhir.model.dev.resource.Organization;
import ca.uhn.fhir.model.dstu.resource.Binary;
import ca.uhn.fhir.model.primitive.InstantDt;
import ca.uhn.fhir.model.valueset.BundleEntryStatusEnum;
public class XmlParserTest {
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(XmlParserTest.class);
@ -50,6 +53,7 @@ public class XmlParserTest {
assertEquals(1, parsed.getEntries().size());
assertEquals("update", parsed.getEntries().get(0).getStatus().getValue());
assertEquals(BundleEntryStatusEnum.UPDATE, ResourceMetadataKeyEnum.ENTRY_STATUS.get(parsed.getEntries().get(0).getResource()));
assertEquals("http://foo?search", parsed.getEntries().get(0).getLinkSearch().getValue());
MedicationPrescription p = (MedicationPrescription) parsed.getEntries().get(0).getResource();
@ -65,6 +69,20 @@ public class XmlParserTest {
}
@Test
public void testEncodeAndParseBundleWithoutResourceIds() {
Organization org = new Organization();
org.addIdentifier().setSystem("urn:system").setValue("someval");
Bundle bundle = Bundle.withSingleResource(org);
String str = ourCtx.newXmlParser().encodeBundleToString(bundle);
ourLog.info(str);
Bundle parsed = ourCtx.newXmlParser().parseBundle(str);
assertThat(parsed.getEntries().get(0).getResource().getId().getValue(), isEmptyOrNullString());
assertTrue(parsed.getEntries().get(0).getResource().getId().isEmpty());
}
@Test
public void testBundleWithBinary() {
//@formatter:off

View File

@ -1,694 +0,0 @@
<?xml version="1.0" encoding="UTF-8"?>
<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd">
<parent>
<groupId>org.sonatype.oss</groupId>
<artifactId>oss-parent</artifactId>
<version>9</version>
</parent>
<modelVersion>4.0.0</modelVersion>
<groupId>ca.uhn.hapi.fhir</groupId>
<artifactId>hapi-fhir</artifactId>
<packaging>pom</packaging>
<version>0.9-SNAPSHOT</version>
<name>HAPI-FHIR</name>
<url>http://hl7api.sourceforge.net/hapi-fhir/</url>
<organization>
<name>University Health Network</name>
<url>http://www.uhn.ca</url>
</organization>
<inceptionYear>2014</inceptionYear>
<issueManagement>
<system>GitHub</system>
<url>https://github.com/jamesagnew/hapi-fhir/issues/</url>
</issueManagement>
<distributionManagement>
<site>
<id>git.server</id>
<url>scm:git:git@github.com:jamesagnew/hapi-fhir.git</url>
</site>
</distributionManagement>
<scm>
<connection>scm:git:git@github.com:jamesagnew/hapi-fhir.git</connection>
<url>scm:git:git@github.com:jamesagnew/hapi-fhir.git</url>
<developerConnection>scm:git:git@github.com:jamesagnew/hapi-fhir.git</developerConnection>
</scm>
<description>
</description>
<dependencies>
</dependencies>
<prerequisites>
<maven>3.0.1</maven>
</prerequisites>
<developers>
<developer>
<id>jamesagnew</id>
<name>James Agnew</name>
<organization>University Health Network</organization>
</developer>
<developer>
<name>Dmitri Sotnikov</name>
<organization>University Health Network</organization>
</developer>
<developer>
<name>Lisa Wong</name>
<organization>University Health Network</organization>
</developer>
<developer>
<name>Josh Mandel</name>
<organization>Boston Children's Hospital</organization>
</developer>
<developer>
<id>lmds</id>
<name>Laura MacDougall Sookraj</name>
<organization>University Health Network</organization>
</developer>
<developer>
<name>Neal Acharya</name>
<organization>University Health Network</organization>
</developer>
<developer>
<name>David Hay</name>
<organization>Orion Health</organization>
</developer>
<developer>
<id>suranga</id>
<name>Suranga Nath Kasthurirathne</name>
<organization>OpenMRS / Regenstrief Center for Biomedical Informatics</organization>
</developer>
<developer>
<id>dougmartin</id>
<name>Doug Martin</name>
<organization>Regenstrief Center for Biomedical Informatics</organization>
</developer>
<developer>
<id>akley</id>
<name>Alexander Kley</name>
</developer>
<developer>
<id>preston</id>
<name>Preston Lee</name>
<organization>Arizona State University</organization>
</developer>
<developer>
<id>jjathman</id>
<name>Joe Athman</name>
</developer>
<developer>
<id>petromykhailysyn</id>
<name>Petro Mykhailyshyn</name>
</developer>
<developer>
<id>tahurac</id>
<name>Tahura Chaudhry</name>
<organization>University Health Network</organization>
</developer>
<developer>
<id>b.debeaubien</id>
<name>Bill de Beaubien</name>
<organization>Systems Made Simple</organization>
</developer>
</developers>
<licenses>
<license>
<name>Apache Software License 2.0</name>
<url>https://www.apache.org/licenses/LICENSE-2.0.txt</url>
</license>
</licenses>
<properties>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
<!-- For site-deploy -->
<siteMainDirectory>${user.home}/sites/hapi-fhir</siteMainDirectory>
<scmPubCheckoutDirectory>${user.home}/sites/scm/hapi-fhir</scmPubCheckoutDirectory>
<!-- Plugin Versions -->
<apache_httpclient_version>4.3.6</apache_httpclient_version>
<apache_httpcore_version>4.4</apache_httpcore_version>
<commons_io_version>2.4</commons_io_version>
<commons_lang_version>3.3.2</commons_lang_version>
<commons_codec_version>1.10</commons_codec_version>
<derby_version>10.11.1.1</derby_version>
<guava_version>18.0</guava_version>
<hamcrest_version>1.3</hamcrest_version>
<hibernate_version>4.3.7.Final<!-- 4.2.12.Final --></hibernate_version>
<hibernate_validator_version>5.1.0.Final</hibernate_validator_version>
<jetty_version>9.2.6.v20141205</jetty_version>
<jscience_version>4.3.1</jscience_version>
<junit_version>4.12</junit_version>
<logback_version>1.1.2</logback_version>
<maven_assembly_plugin_version>2.4.1</maven_assembly_plugin_version>
<maven_javadoc_plugin_version>2.10.1</maven_javadoc_plugin_version>
<maven_license_plugin_version>1.7</maven_license_plugin_version>
<maven_surefire_plugin_version>2.18.1</maven_surefire_plugin_version>
<maven_site_plugin_version>3.4</maven_site_plugin_version>
<maven_source_plugin_version>2.3</maven_source_plugin_version>
<mitreid-connect-version>1.1.8</mitreid-connect-version>
<mockito_version>1.10.17</mockito_version>
<phloc_schematron_version>2.7.1</phloc_schematron_version>
<phloc_commons_version>4.3.5</phloc_commons_version>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
<servlet_api_version>3.1.0</servlet_api_version>
<slf4j_version>1.7.9</slf4j_version>
<spring_version>4.1.3.RELEASE</spring_version>
<spring_security_version>3.2.4.RELEASE</spring_security_version>
<thymeleaf-version>2.1.4.RELEASE</thymeleaf-version>
<ebay_cors_filter_version>1.0.1</ebay_cors_filter_version>
<woodstox_version>4.4.0</woodstox_version>
</properties>
<build>
<pluginManagement>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-compiler-plugin</artifactId>
<version>3.2</version>
<configuration>
<source>1.6</source>
<target>1.6</target>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-surefire-plugin</artifactId>
<version>${maven_surefire_plugin_version}</version>
<configuration>
<redirectTestOutputToFile>true</redirectTestOutputToFile>
<runOrder>random</runOrder>
<<<<<<< HEAD
=======
<!--<argLine>-Dfile.encoding=ISO-8859-1</argLine> -->
>>>>>>> 8c96bf7d9ef6d6c590c3c7420c293b815935b336
<argLine>-Dfile.encoding=UTF-8</argLine>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-site-plugin</artifactId>
<version>${maven_site_plugin_version}</version>
<dependencies>
<dependency>
<groupId>org.apache.maven.wagon</groupId>
<artifactId>wagon-ssh</artifactId>
<version>1.0</version>
</dependency>
<dependency>
<groupId>org.apache.maven.doxia</groupId>
<artifactId>doxia-module-markdown</artifactId>
<version>1.6</version>
</dependency>
</dependencies>
<configuration>
<skip>true</skip>
<skipDeploy>true</skipDeploy>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-deploy-plugin</artifactId>
<version>2.8.1</version>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-javadoc-plugin</artifactId>
<version>${maven_javadoc_plugin_version}</version>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-source-plugin</artifactId>
<version>${maven_source_plugin_version}</version>
</plugin>
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>license-maven-plugin</artifactId>
<version>${maven_license_plugin_version}</version>
<configuration>
<verbose>true</verbose>
<addSvnKeyWords>false</addSvnKeyWords>
</configuration>
</plugin>
<plugin>
<artifactId>maven-site-plugin</artifactId>
<version>${maven_site_plugin_version}</version>
<configuration>
<skip>false</skip>
<skipDeploy>true</skipDeploy>
</configuration>
<dependencies>
<dependency>
<groupId>org.apache.maven.wagon</groupId>
<artifactId>wagon-scm</artifactId>
<version>2.2</version>
</dependency>
<dependency>
<groupId>org.apache.maven.scm</groupId>
<artifactId>maven-scm-manager-plexus</artifactId>
<version>1.9</version>
</dependency>
<dependency>
<groupId>org.apache.maven.scm</groupId>
<artifactId>maven-scm-provider-gitexe</artifactId>
<version>1.9</version>
</dependency>
<dependency>
<groupId>org.apache.maven.scm</groupId>
<artifactId>maven-scm-api</artifactId>
<version>1.9</version>
</dependency>
</dependencies>
</plugin>
<!--This plugin's configuration is used to store Eclipse m2e settings only. It has no influence on the Maven build itself.-->
<plugin>
<groupId>org.eclipse.m2e</groupId>
<artifactId>lifecycle-mapping</artifactId>
<version>1.0.0</version>
<configuration>
<lifecycleMappingMetadata>
<pluginExecutions>
<pluginExecution>
<pluginExecutionFilter>
<groupId>
ca.uhn.hapi.fhir
</groupId>
<artifactId>
hapi-tinder-plugin
</artifactId>
<versionRange>
[0.8-SNAPSHOT,)
</versionRange>
<goals>
<goal>
generate-jparest-server
</goal>
</goals>
</pluginExecutionFilter>
<action>
<ignore></ignore>
</action>
</pluginExecution>
<pluginExecution>
<pluginExecutionFilter>
<groupId>
org.apache.maven.plugins
</groupId>
<artifactId>
maven-antrun-plugin
</artifactId>
<versionRange>
[1.7,)
</versionRange>
<goals>
<goal>run</goal>
</goals>
</pluginExecutionFilter>
<action>
<ignore></ignore>
</action>
</pluginExecution>
</pluginExecutions>
</lifecycleMappingMetadata>
</configuration>
</plugin>
</plugins>
</pluginManagement>
<plugins>
<plugin>
<artifactId>maven-antrun-plugin</artifactId>
<version>1.7</version>
<inherited>false</inherited>
<executions>
<execution>
<id>copySubProjects</id>
<phase>site</phase>
<goals>
<goal>run</goal>
</goals>
<configuration>
<target>
<copy todir="target/site/apidocs">
<fileset dir="hapi-fhir-base/target/site/apidocs"/>
</copy>
<copy todir="target/site/apidocs-dstu">
<fileset dir="hapi-fhir-structures-dstu/target/site/apidocs"/>
</copy>
<copy todir="target/site/apidocs-dev">
<fileset dir="hapi-fhir-structures-dev/target/site/apidocs"/>
</copy>
</target>
</configuration>
</execution>
<execution>
<id>addSyntaxHighlighter</id>
<phase>site</phase>
<goals>
<goal>run</goal>
</goals>
<configuration>
<target>
<echo>Adding Syntax Highlighter</echo>
<replace dir="target/site" summary="true">
<include name="*.html"></include>
<replacetoken><![CDATA[</body>]]></replacetoken>
<replacevalue><![CDATA[
<script type="text/javascript">
var elements = document.getElementsByClassName("source");
for (var i=0; i < elements.length; i++) {
var pres = elements[i].getElementsByTagName("pre");
for (var j = 0; j < pres.length; j++) {
var pre = pres[j];
if (pre.innerHTML.match(/\/\*/)) {
pre.className = 'brush: java';
} else if (pre.innerHTML.match(/^\/\//)) {
pre.className = 'brush: java';
} else if (pre.innerHTML.match(/^\{/)) {
pre.className = 'brush: jscript';
} else if (pre.innerHTML.match(/^\#/)) {
pre.className = 'brush: bash';
} else if (pre.innerHTML.match(/\&lt\;\//)) {
pre.className = 'brush: xml';
} else {
pre.className = 'brush: java';
}
}
}
SyntaxHighlighter.all();
</script>
</body>
]]></replacevalue>
</replace>
</target>
</configuration>
</execution>
<execution>
<id>addAnalytics</id>
<phase>post-site</phase>
<configuration>
<target>
<echo>Adding Google analytics in target/site for &lt;body&gt;</echo>
<replace dir="target/site" summary="true">
<include name="**/*.html"></include>
<replacefilter token="#build#" value="${label}" />
<replacefilter token="#version#" value="${project.version}" />
<replacetoken><![CDATA[</body>]]></replacetoken>
<replacevalue><![CDATA[
<script>
(function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){
(i[r].q=i[r].q||[]).push(arguments)},i[r].l=1*new Date();a=s.createElement(o),
m=s.getElementsByTagName(o)[0];a.async=1;a.src=g;m.parentNode.insertBefore(a,m)
})(window,document,'script','//www.google-analytics.com/analytics.js','ga');
ga('create', 'UA-1395874-5', 'auto');
ga('require', 'displayfeatures');
ga('require', 'linkid', 'linkid.js');
ga('send', 'pageview');
</script>
</body >
]]></replacevalue>
</replace>
<echo>Adding Google analytics in target/site for &lt;BODY&gt;</echo>
<replace dir="target/site" summary="true">
<include name="**/*.html"></include>
<replacetoken><![CDATA[</BODY>]]></replacetoken>
<replacevalue><![CDATA[
<script>
(function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){
(i[r].q=i[r].q||[]).push(arguments)},i[r].l=1*new Date();a=s.createElement(o),
m=s.getElementsByTagName(o)[0];a.async=1;a.src=g;m.parentNode.insertBefore(a,m)
})(window,document,'script','//www.google-analytics.com/analytics.js','ga');
ga('create', 'UA-1395874-5', 'auto');
ga('require', 'displayfeatures');
ga('require', 'linkid', 'linkid.js');
ga('send', 'pageview');
</script>
</BODY >
]]></replacevalue>
</replace>
<echo>Adding social plugins for HAPI</echo>
<replace dir="target/site/" summary="true">
<include name="**/*.html"></include>
<replacetoken><![CDATA[SOCIALPLUGINSHEREFHIR]]></replacetoken>
<replacevalue><![CDATA[
<table cellpadding="0" cellspacing="0" border="0"><tr>
<td><div class="g-plusone" data-annotation="inline" data-width="300" data-href="http://hl7api.sourceforge.net/"></div></td>
<td><div class="fb-like" data-href="http://hl7api.sourceforge.net/" data-send="false" data-layout="button_count" data-width="450" data-show-faces="true"></div></td>
</tr></table>
</p><p>
<!-- Place this tag after the last +1 button tag. -->
<script type="text/javascript">
(function() {
var po = document.createElement('script'); po.type = 'text/javascript'; po.async = true;
po.src = 'https://apis.google.com/js/plusone.js';
var s = document.getElementsByTagName('script')[0]; s.parentNode.insertBefore(po, s);
})();
</script>
<div id="fb-root"></div>
<script>(function(d, s, id) {
var js, fjs = d.getElementsByTagName(s)[0];
if (d.getElementById(id)) return;
js = d.createElement(s); js.id = id;
js.src = "//connect.facebook.net/en_US/all.js#xfbml=1";
fjs.parentNode.insertBefore(js, fjs);
}(document, 'script', 'facebook-jssdk'));</script>
]]></replacevalue>
</replace>
</target>
</configuration>
<goals>
<goal>run</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>animal-sniffer-maven-plugin</artifactId>
<version>1.12</version>
<inherited>true</inherited>
<configuration>
<signature>
<groupId>org.codehaus.mojo.signature</groupId>
<artifactId>java16</artifactId>
<version>1.01</version>
</signature>
</configuration>
</plugin>
<plugin>
<artifactId>maven-site-plugin</artifactId>
<inherited>false</inherited>
<executions>
<execution>
<id>stage-for-scm-publish</id>
<phase>post-site</phase>
<goals>
<goal>stage</goal>
</goals>
<configuration>
<stagingDirectory>${siteMainDirectory}</stagingDirectory>
</configuration>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-scm-publish-plugin</artifactId>
<version>1.1</version>
<inherited>false</inherited>
<configuration>
<checkoutDirectory>${scmPubCheckoutDirectory}</checkoutDirectory>
<content>\${siteMainDirectory}</content>
<tryUpdate>true</tryUpdate>
<scmBranch>gh-pages</scmBranch>
<pubScmUrl>scm:git:git@github.com:jamesagnew/hapi-fhir.git</pubScmUrl>
</configuration>
<executions>
<execution>
<id>scm-publish</id>
<phase>site-deploy</phase>
<goals>
<goal>publish-scm</goal>
</goals>
</execution>
</executions>
</plugin>
</plugins>
</build>
<reporting>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-changes-plugin</artifactId>
<version>2.11</version>
<inherited>false</inherited>
<reportSets>
<reportSet>
<reports>
<report>changes-report</report>
</reports>
</reportSet>
</reportSets>
<configuration>
<feedType>atom_1.0</feedType>
<issueLinkTemplatePerSystem>
<default>https://github.com/jamesagnew/hapi-fhir/issues/%ISSUE%</default>
</issueLinkTemplatePerSystem>
<escapeHTML>false</escapeHTML>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-surefire-report-plugin</artifactId>
<version>${maven_surefire_plugin_version}</version>
<configuration>
<aggregate>true</aggregate>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-project-info-reports-plugin</artifactId>
<version>2.7</version>
<inherited>false</inherited>
<reportSets>
<reportSet>
<reports>
<report>project-team</report>
<report>issue-tracking</report>
<report>license</report>
<report>scm</report>
</reports>
</reportSet>
</reportSets>
</plugin>
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>findbugs-maven-plugin</artifactId>
<version>3.0.0</version>
<configuration>
<classFilesDirectory>./hapi-fhir-base/target/classes</classFilesDirectory>
</configuration>
<reportSets>
<reportSet>
<reports>
<report>findbugs</report>
</reports>
</reportSet>
</reportSets>
</plugin>
<!-- <plugin> <groupId>org.apache.maven.plugins</groupId> <artifactId>maven-linkcheck-plugin</artifactId>
<version>1.1</version> </plugin> -->
</plugins>
</reporting>
<profiles>
<profile>
<id>ROOT</id>
<modules>
</modules>
<build>
<plugins>
<!--
<plugin>
<artifactId>maven-assembly-plugin</artifactId>
<version>${maven_assembly_plugin_version}</version>
<executions>
<execution>
<phase>package</phase>
<goals>
<goal>single</goal>
</goals>
<configuration>
<attach>false</attach>
<descriptors>
<descriptor>${project.basedir}/src/assembly/hapi-fhir-sample-projects.xml</descriptor>
</descriptors>
</configuration>
</execution>
</executions>
</plugin>
-->
</plugins>
</build>
</profile>
<profile>
<id>SIGN_ARTIFACTS</id>
<activation>
<property>
<name>gpg.passphrase</name>
</property>
</activation>
<build>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-gpg-plugin</artifactId>
<version>1.5</version>
<executions>
<execution>
<id>sign-artifacts</id>
<phase>verify</phase>
<goals>
<goal>sign</goal>
</goals>
</execution>
</executions>
</plugin>
</plugins>
</build>
</profile>
<profile>
<id>SITE</id>
<modules>
<module>hapi-fhir-base</module>
<module>hapi-fhir-structures-dstu</module>
<module>hapi-fhir-structures-dev</module>
<module>examples</module>
</modules>
</profile>
<profile>
<id>ALLMODULES</id>
<activation>
<activeByDefault>true</activeByDefault>
</activation>
<modules>
<module>hapi-deployable-pom</module>
<module>hapi-fhir-base</module>
<!--<module>hapi-fhir-oauth2</module>-->
<module>hapi-fhir-base/testmindeps</module>
<module>hapi-tinder-plugin</module>
<module>hapi-tinder-test</module>
<module>hapi-fhir-structures-dstu</module>
<module>hapi-fhir-structures-dev</module>
<module>hapi-fhir-jpaserver-base</module>
<module>hapi-fhir-jpaserver-test</module>
<module>restful-server-example</module>
<module>restful-server-example-test</module>
<module>hapi-fhir-testpage-overlay</module>
<module>hapi-fhir-jpaserver-uhnfhirtest</module>
<!-- <module>hapi-fhir-dist</module> -->
</modules>
</profile>
</profiles>
</project>