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Code Issues Packages Projects Releases Wiki Activity

Potential #19

This commit is contained in:
James Agnew 2014-09-03 12:57:17 -04:00
parent 93c54f57fe
commit 095945562b
8 changed files with 212 additions and 109 deletions
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4
hapi-fhir-base/pom.xml
View File

@ -585,12 +585,12 @@
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-surefire-report-plugin</artifactId>
<version>2.16</version>
<version>${maven_surefire_plugin_version}</version>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-javadoc-plugin</artifactId>
<version>2.9.1</version>
<version>${maven_javadoc_plugin_version}</version>
<configuration>
<links>
<link>http://docs.oracle.com/javaee/7/api</link>

178
hapi-fhir-base/src/main/java/ca/uhn/fhir/rest/method/SearchMethodBinding.java
View File

@ -20,7 +20,8 @@ package ca.uhn.fhir.rest.method;
* #L%
*/
import static org.apache.commons.lang3.StringUtils.*;
import static org.apache.commons.lang3.StringUtils.isBlank;
import static org.apache.commons.lang3.StringUtils.isNotBlank;
import java.lang.reflect.Method;
import java.util.ArrayList;
@ -29,8 +30,8 @@ import java.util.HashSet;
import java.util.LinkedHashMap;
import java.util.List;
import java.util.Map;
import java.util.Set;
import java.util.Map.Entry;
import java.util.Set;
import org.apache.commons.lang3.StringUtils;
@ -41,7 +42,6 @@ import ca.uhn.fhir.model.api.annotation.Description;
import ca.uhn.fhir.model.dstu.valueset.RestfulOperationSystemEnum;
import ca.uhn.fhir.model.dstu.valueset.RestfulOperationTypeEnum;
import ca.uhn.fhir.model.primitive.IdDt;
import ca.uhn.fhir.rest.annotation.OptionalParam;
import ca.uhn.fhir.rest.annotation.Search;
import ca.uhn.fhir.rest.client.BaseHttpClientInvocation;
import ca.uhn.fhir.rest.param.BaseQueryParameter;
@ -95,7 +95,8 @@ public class SearchMethodBinding extends BaseResourceReturningMethodBinding {
SearchParameter sp = (SearchParameter) next;
if (sp.getName().startsWith("_")) {
if (ALLOWED_PARAMS.contains(sp.getName())) {
String msg = getContext().getLocalizer().getMessage(getClass().getName() + ".invalidSpecialParamName", theMethod.getName(), theMethod.getDeclaringClass().getSimpleName(), sp.getName());
String msg = getContext().getLocalizer().getMessage(getClass().getName() + ".invalidSpecialParamName", theMethod.getName(), theMethod.getDeclaringClass().getSimpleName(),
sp.getName());
throw new ConfigurationException(msg);
}
}
@ -117,6 +118,40 @@ public class SearchMethodBinding extends BaseResourceReturningMethodBinding {
}
public static QualifierDetails extractQualifiersFromParameterName(String theParamName) {
QualifierDetails retVal = new QualifierDetails();
if (theParamName == null || theParamName.length() == 0) {
return retVal;
}
int dotIdx = -1;
int colonIdx = -1;
for (int idx = 0; idx < theParamName.length(); idx++) {
char nextChar = theParamName.charAt(idx);
if (nextChar == '.' && dotIdx == -1) {
dotIdx = idx;
} else if (nextChar == ':' && colonIdx == -1) {
colonIdx = idx;
}
}
if (dotIdx != -1 && colonIdx != -1) {
if (dotIdx < colonIdx) {
retVal.setDotQualifier(theParamName.substring(dotIdx, colonIdx));
retVal.setColonQualifier(theParamName.substring(colonIdx));
} else {
retVal.setColonQualifier(theParamName.substring(colonIdx, dotIdx));
retVal.setDotQualifier(theParamName.substring(dotIdx));
}
} else if (dotIdx != -1) {
retVal.setDotQualifier(theParamName.substring(dotIdx));
} else if (colonIdx != -1) {
retVal.setColonQualifier(theParamName.substring(colonIdx));
}
return retVal;
}
public Class<? extends IResource> getDeclaredResourceType() {
return myDeclaredResourceType;
}
@ -181,7 +216,10 @@ public class SearchMethodBinding extends BaseResourceReturningMethodBinding {
if (temp.isRequired()) {
if (qualifiedParamNames.contains(name)) {
QualifierDetails qualifiers = extractQualifiersFromParameterName(name);
if (qualifiers.passes(temp.getQualifierWhitelist(), temp.getQualifierBlacklist())) {
methodParamsTemp.add(name);
}
} else if (unqualifiedNames.contains(name)) {
List<String> qualifiedNames = theRequest.getUnqualifiedToQualifiedNames().get(name);
qualifiedNames = processWhitelistAndBlacklist(qualifiedNames, temp.getQualifierWhitelist(), temp.getQualifierBlacklist());
@ -193,7 +231,10 @@ public class SearchMethodBinding extends BaseResourceReturningMethodBinding {
} else {
if (qualifiedParamNames.contains(name)) {
QualifierDetails qualifiers = extractQualifiersFromParameterName(name);
if (qualifiers.passes(temp.getQualifierWhitelist(), temp.getQualifierBlacklist())) {
methodParamsTemp.add(name);
}
} else if (unqualifiedNames.contains(name)) {
List<String> qualifiedNames = theRequest.getUnqualifiedToQualifiedNames().get(name);
qualifiedNames = processWhitelistAndBlacklist(qualifiedNames, temp.getQualifierWhitelist(), temp.getQualifierBlacklist());
@ -281,67 +322,27 @@ public class SearchMethodBinding extends BaseResourceReturningMethodBinding {
}
public void setResourceType(Class<? extends IResource> resourceType) {
this.myDeclaredResourceType = resourceType;
}
private List<String> processWhitelistAndBlacklist(List<String> theQualifiedNames, Set<String> theQualifierWhitelist, Set<String> theQualifierBlacklist) {
if (theQualifierWhitelist == null && theQualifierBlacklist == null) {
return theQualifiedNames;
}
ArrayList<String> retVal = new ArrayList<String>(theQualifiedNames.size());
for (String next : theQualifiedNames) {
String qualifier = "";
int start = -1;
int end = -1;
for (int idx = 0; idx < next.length(); idx++) {
char nextChar = next.charAt(idx);
if (nextChar == '.' || nextChar == ':') {
if (start == -1) {
start = idx;
} else {
end = idx;
break;
}
}
}
if (start != -1) {
if (end != -1) {
qualifier = next.substring(start, end);
} else {
qualifier = next.substring(start);
}
}
if (theQualifierWhitelist != null) {
if (qualifier != null) {
if (!theQualifierWhitelist.contains(qualifier)) {
if (qualifier.charAt(0) == '.') {
if (!theQualifierWhitelist.contains(".*")) {
QualifierDetails qualifiers = extractQualifiersFromParameterName(next);
if (!qualifiers.passes(theQualifierWhitelist, theQualifierBlacklist)) {
continue;
}
}
if (qualifier.charAt(0) == ':') {
if (!theQualifierWhitelist.contains(":*")) {
continue;
}
}
}
}
}
if (theQualifierBlacklist != null) {
if (theQualifierBlacklist.contains(qualifier)) {
continue;
}
}
retVal.add(next);
}
return retVal;
}
public static BaseHttpClientInvocation createSearchInvocation(FhirContext theContext, String theResourceName, Map<String, List<String>> theParameters, IdDt theId, String theCompartmentName, SearchStyleEnum theSearchStyle) {
public void setResourceType(Class<? extends IResource> resourceType) {
this.myDeclaredResourceType = resourceType;
}
public static BaseHttpClientInvocation createSearchInvocation(FhirContext theContext, String theResourceName, Map<String, List<String>> theParameters, IdDt theId, String theCompartmentName,
SearchStyleEnum theSearchStyle) {
SearchStyleEnum searchStyle = theSearchStyle;
if (searchStyle == null) {
int length = 0;
@ -372,8 +373,7 @@ public class SearchMethodBinding extends BaseResourceReturningMethodBinding {
}
/*
* Are we doing a get (GET [base]/Patient?name=foo) or a get with search (GET [base]/Patient/_search?name=foo)
* or a post (POST [base]/Patient with parameters in the POST body)
* Are we doing a get (GET [base]/Patient?name=foo) or a get with search (GET [base]/Patient/_search?name=foo) or a post (POST [base]/Patient with parameters in the POST body)
*/
switch (searchStyle) {
case GET:
@ -402,6 +402,76 @@ public class SearchMethodBinding extends BaseResourceReturningMethodBinding {
return invocation;
}
public static class QualifierDetails {
private String myColonQualifier;
private String myDotQualifier;
public String getColonQualifier() {
return myColonQualifier;
}
public String getDotQualifier() {
return myDotQualifier;
}
public boolean passes(Set<String> theQualifierWhitelist, Set<String> theQualifierBlacklist) {
if (theQualifierWhitelist != null) {
if (!theQualifierWhitelist.contains(".*")) {
if (myDotQualifier != null) {
if (!theQualifierWhitelist.contains(myDotQualifier)) {
return false;
}
} else {
if (!theQualifierWhitelist.contains(".")) {
return false;
}
}
}
if (!theQualifierWhitelist.contains(":*")) {
if (myColonQualifier != null) {
if (!theQualifierWhitelist.contains(myColonQualifier)) {
return false;
}
} else {
if (!theQualifierWhitelist.contains(":")) {
return false;
}
}
}
}
if (theQualifierBlacklist != null) {
if (myDotQualifier != null) {
if (theQualifierBlacklist.contains(myDotQualifier)) {
return false;
}
}
if (myColonQualifier != null) {
if (theQualifierBlacklist.contains(myColonQualifier)) {
return false;
}
}
}
return true;
}
public void setColonQualifier(String theColonQualifier) {
myColonQualifier = theColonQualifier;
}
public void setDotQualifier(String theDotQualifier) {
myDotQualifier = theDotQualifier;
}
}
@Override
public String toString() {
return getMethod().toString();
}
public static enum RequestType {
DELETE, GET, OPTIONS, POST, PUT
}

15
hapi-fhir-base/src/main/java/ca/uhn/fhir/rest/method/SearchParameter.java
View File

@ -117,20 +117,15 @@ public class SearchParameter extends BaseQueryParameter {
ourParamTypes.put(ReferenceParam.class, SearchParamTypeEnum.REFERENCE);
ourParamTypes.put(ReferenceOrListParam.class, SearchParamTypeEnum.REFERENCE);
ourParamTypes.put(ReferenceAndListParam.class, SearchParamTypeEnum.REFERENCE);
ourParamQualifiers.put(SearchParamTypeEnum.REFERENCE, CollectionUtil.newSet(Constants.PARAMQUALIFIER_MISSING)); // no
// empty
// because
// that
// gets
// added
// from
// OptionalParam#chainWhitelist
// --vvvv-- no empty because that gets added from OptionalParam#chainWhitelist
ourParamQualifiers.put(SearchParamTypeEnum.REFERENCE, CollectionUtil.newSet(Constants.PARAMQUALIFIER_MISSING));
ourParamTypes.put(CompositeParam.class, SearchParamTypeEnum.COMPOSITE);
ourParamTypes.put(CompositeOrListParam.class, SearchParamTypeEnum.COMPOSITE);
ourParamTypes.put(CompositeAndListParam.class, SearchParamTypeEnum.COMPOSITE);
ourParamQualifiers.put(SearchParamTypeEnum.COMPOSITE, CollectionUtil.newSet(Constants.PARAMQUALIFIER_MISSING, EMPTY_STRING));
}
private List<Class<? extends IQueryParameterType>> myCompositeTypes;
private List<Class<? extends IResource>> myDeclaredTypes;
private String myDescription;
@ -230,9 +225,9 @@ public class SearchParameter extends BaseQueryParameter {
for (int i = 0; i < theChainWhitelist.length; i++) {
if (theChainWhitelist[i].equals(OptionalParam.ALLOW_CHAIN_ANY)) {
myQualifierWhitelist.add(OptionalParam.ALLOW_CHAIN_ANY);
myQualifierWhitelist.add('.' + OptionalParam.ALLOW_CHAIN_ANY);
} else if (theChainWhitelist[i].equals(EMPTY_STRING)) {
myQualifierWhitelist.add("");
myQualifierWhitelist.add(".");
} else {
myQualifierWhitelist.add('.' + theChainWhitelist[i]);
}

33
hapi-fhir-base/src/main/java/ca/uhn/fhir/rest/param/BaseQueryParameter.java
View File

@ -20,8 +20,6 @@ package ca.uhn.fhir.rest.param;
* #L%
*/
import static org.apache.commons.lang3.StringUtils.*;
import java.lang.reflect.Method;
import java.util.ArrayList;
import java.util.Collection;
@ -33,12 +31,13 @@ import org.apache.commons.lang3.StringUtils;
import ca.uhn.fhir.context.FhirContext;
import ca.uhn.fhir.model.dstu.valueset.SearchParamTypeEnum;
import ca.uhn.fhir.rest.annotation.OptionalParam;
import ca.uhn.fhir.rest.client.BaseHttpClientInvocation;
import ca.uhn.fhir.rest.method.IParameter;
import ca.uhn.fhir.rest.method.QualifiedParamList;
import ca.uhn.fhir.rest.method.Request;
import ca.uhn.fhir.rest.method.RequestDetails;
import ca.uhn.fhir.rest.method.SearchMethodBinding;
import ca.uhn.fhir.rest.method.SearchMethodBinding.QualifierDetails;
import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
import ca.uhn.fhir.rest.server.exceptions.InvalidRequestException;
@ -89,7 +88,7 @@ public abstract class BaseQueryParameter implements IParameter {
theTargetQueryArguments.put(getName() + StringUtils.defaultString(qualifier), paramValues);
}
}
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(BaseQueryParameter.class);
@Override
public Object translateQueryParametersIntoServerArgument(Request theRequest, Object theRequestContents) throws InternalErrorException, InvalidRequestException {
@ -105,6 +104,9 @@ public abstract class BaseQueryParameter implements IParameter {
}
if (paramList.isEmpty()) {
ourLog.debug("No value for parameter '{}' - Qualified names {} and qualifier whitelist {}", getName(), qualified, getQualifierWhitelist());
if (handlesMissing()) {
return parse(paramList);
} else {
@ -117,29 +119,10 @@ public abstract class BaseQueryParameter implements IParameter {
}
private void parseParams(RequestDetails theRequest, List<QualifiedParamList> paramList, String theQualifiedParamName, String theQualifier) {
if (getQualifierWhitelist() != null) {
if (!getQualifierWhitelist().contains(defaultString(theQualifier))) {
if (theQualifier == null) {
QualifierDetails qualifiers = SearchMethodBinding.extractQualifiersFromParameterName(theQualifier);
if (!qualifiers.passes(getQualifierWhitelist(), getQualifierBlacklist())) {
return;
}
if (theQualifier.charAt(0) == '.') {
if (!getQualifierWhitelist().contains(".*")) {
return;
}
} else if (theQualifier.charAt(0) == ':') {
if (!getQualifierWhitelist().contains(":*")) {
return;
}
} else {
return;
}
}
}
if (getQualifierBlacklist() != null) {
if (getQualifierBlacklist().contains(defaultString(theQualifier))) {
return;
}
}
String[] value = theRequest.getParameters().get(theQualifiedParamName);
if (value != null) {

10
hapi-fhir-base/src/test/java/ca/uhn/fhir/rest/client/InterceptorTest.java
View File

@ -4,6 +4,8 @@ import static org.junit.Assert.*;
import static org.mockito.Matchers.*;
import static org.mockito.Mockito.*;
import java.util.ResourceBundle;
import org.eclipse.jetty.server.Server;
import org.eclipse.jetty.servlet.ServletHandler;
import org.eclipse.jetty.servlet.ServletHolder;
@ -21,6 +23,7 @@ import ca.uhn.fhir.rest.annotation.IdParam;
import ca.uhn.fhir.rest.annotation.Read;
import ca.uhn.fhir.rest.client.interceptor.LoggingInterceptor;
import ca.uhn.fhir.rest.server.IResourceProvider;
import ca.uhn.fhir.rest.server.ResourceBinding;
import ca.uhn.fhir.rest.server.RestfulServer;
import ca.uhn.fhir.testutil.RandomServerPortProvider;
import ch.qos.logback.classic.spi.ILoggingEvent;
@ -53,7 +56,12 @@ public class InterceptorTest {
Patient patient = client.read(Patient.class, "1");
assertFalse(patient.getIdentifierFirstRep().isEmpty());
verify(mockAppender).doAppend(argThat(new ArgumentMatcher<ILoggingEvent>() {
int times = 1;
if (LoggerFactory.getLogger(ResourceBinding.class).isDebugEnabled()) {
times = 3;
}
verify(mockAppender, times(times)).doAppend(argThat(new ArgumentMatcher<ILoggingEvent>() {
@Override
public boolean matches(final Object argument) {
return ((LoggingEvent) argument).getFormattedMessage().contains("Content-Type: application/xml+fhir; charset=UTF-8");

62
hapi-fhir-base/src/test/java/ca/uhn/fhir/rest/server/ReferenceParameterTest.java
View File

@ -28,6 +28,7 @@ import ca.uhn.fhir.model.api.IResource;
import ca.uhn.fhir.model.dstu.resource.Conformance;
import ca.uhn.fhir.model.dstu.resource.Conformance.RestResource;
import ca.uhn.fhir.model.dstu.resource.Conformance.RestResourceSearchParam;
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.ResourceTypeEnum;
@ -35,6 +36,7 @@ import ca.uhn.fhir.rest.annotation.OptionalParam;
import ca.uhn.fhir.rest.annotation.Search;
import ca.uhn.fhir.rest.param.ReferenceParam;
import ca.uhn.fhir.rest.param.StringParam;
import ca.uhn.fhir.rest.server.exceptions.InternalErrorException;
import ca.uhn.fhir.testutil.RandomServerPortProvider;
/**
@ -156,7 +158,7 @@ public class ReferenceParameterTest {
String responseContent = IOUtils.toString(status.getEntity().getContent());
IOUtils.closeQuietly(status.getEntity().getContent());
assertEquals(200, status.getStatusLine().getStatusCode());
assertThat(responseContent, containsString("value=\"theBarId po123 bar\""));
assertThat(responseContent, containsString("value=\"theBarId Organization/po123 bar\""));
}
@Test
@ -166,7 +168,15 @@ public class ReferenceParameterTest {
String responseContent = IOUtils.toString(status.getEntity().getContent());
IOUtils.closeQuietly(status.getEntity().getContent());
assertEquals(200, status.getStatusLine().getStatusCode());
assertThat(responseContent, containsString("value=\"thePartOfId po123 null\""));
assertThat(responseContent, containsString("value=\"thePartOfId Organization/po123 null\""));
}
@Test
public void testSearchWithMultipleParamsOfTheSameName8() throws Exception {
HttpGet httpGet = new HttpGet("http://localhost:" + ourPort + "/Location?partof=po123");
HttpResponse status = ourClient.execute(httpGet);
IOUtils.closeQuietly(status.getEntity().getContent());
assertEquals(400, status.getStatusLine().getStatusCode());
}
@ -202,7 +212,7 @@ public class ReferenceParameterTest {
assertEquals(200, status.getStatusLine().getStatusCode());
Conformance conf = ourCtx.newXmlParser().parseResource(Conformance.class, responseContent);
RestResource res = conf.getRestFirstRep().getResource().get(1);
RestResource res = conf.getRestFirstRep().getResource().get(2);
assertEquals("Patient", res.getType().getValue());
RestResourceSearchParam param = res.getSearchParamFirstRep();
@ -227,7 +237,7 @@ public class ReferenceParameterTest {
ServletHandler proxyHandler = new ServletHandler();
RestfulServer servlet = new RestfulServer();
ourCtx = servlet.getFhirContext();
servlet.setResourceProviders(patientProvider, new DummyOrganizationResourceProvider());
servlet.setResourceProviders(patientProvider, new DummyOrganizationResourceProvider(), new DummyLocationResourceProvider());
ServletHolder servletHolder = new ServletHolder(servlet);
proxyHandler.addServletWithMapping(servletHolder, "/*");
ourServer.setHandler(proxyHandler);
@ -272,10 +282,8 @@ public class ReferenceParameterTest {
retVal.add(org);
}
if (retVal.isEmpty()) {
Organization org = new Organization();
org.setId("0");
org.getName().setValue("none");
retVal.add(org);
ourLog.info("No values for foo - Going to fail");
throw new InternalErrorException("No Values for foo");
}
return retVal;
@ -295,10 +303,8 @@ public class ReferenceParameterTest {
retVal.add(org);
}
if (retVal.isEmpty()) {
Organization org = new Organization();
org.setId("0");
org.getName().setValue("none");
retVal.add(org);
ourLog.info("No values for bar - Going to fail");
throw new InternalErrorException("No Values for bar");
}
return retVal;
@ -306,6 +312,38 @@ public class ReferenceParameterTest {
}
public static class DummyLocationResourceProvider implements IResourceProvider {
@Override
public Class<? extends IResource> getResourceType() {
return Location.class;
}
//@formatter:off
@Search
public List<Location> searchByNameWithDifferentChain(
@OptionalParam(name = "partof", chainWhitelist= {"bar"}) ReferenceParam theBarId) {
//@formatter:on
ArrayList<Location> retVal = new ArrayList<Location>();
if (theBarId != null) {
Location loc = new Location();
loc.setId("1");
loc.getName().setValue("theBarId " + theBarId.getValue() + " " + theBarId.getChain());
retVal.add(loc);
}
if (retVal.isEmpty()) {
ourLog.info("No values for bar - Going to fail");
throw new InternalErrorException("No Values for bar");
}
return retVal;
}
}
/**
* Created by dsotnikov on 2/25/2014.
*/

2
hapi-fhir-base/src/test/resources/logback-test.xml
View File

@ -18,7 +18,7 @@
</logger>
-->
<root level="info">
<root level="debug">
<appender-ref ref="STDOUT" />
</root>

9
pom.xml
View File

@ -91,6 +91,7 @@
<junit_version>4.11</junit_version>
<logback_version>1.1.1</logback_version>
<maven_javadoc_plugin_version>2.9.1</maven_javadoc_plugin_version>
<maven_surefire_plugin_version>2.17</maven_surefire_plugin_version>
<maven_site_plugin_version>3.4</maven_site_plugin_version>
<mitreid-connect-version>1.1.8</mitreid-connect-version>
<mockito_version>1.9.5</mockito_version>
@ -115,6 +116,14 @@
<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>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-site-plugin</artifactId>