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org.bridgedb.uri.ws.client.WSUriClient Maven / Gradle / Ivy
// BridgeDb,
// An abstraction layer for identifier mapping services, both local and online.
//
// Copyright 2006-2009 BridgeDb developers
// Copyright 2012-2013 Christian Y. A. Brenninkmeijer
// Copyright 2012-2013 OpenPhacts
//
// Licensed under the Apache License, Version 2.0 (the "License");
// you may not use this file except in compliance with the License.
// You may obtain a copy of the License at
//
// http://www.apache.org/licenses/LICENSE-2.0
//
// Unless required by applicable law or agreed to in writing, software
// distributed under the License is distributed on an "AS IS" BASIS,
// WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
// See the License for the specific language governing permissions and
// limitations under the License.
//
package org.bridgedb.uri.ws.client;
import com.sun.jersey.api.client.GenericType;
import com.sun.jersey.api.client.UniformInterfaceException;
import com.sun.jersey.core.util.MultivaluedMapImpl;
import java.util.List;
import javax.ws.rs.core.MediaType;
import javax.ws.rs.core.MultivaluedMap;
import javax.ws.rs.core.Response;
import org.bridgedb.uri.api.SetMappings;
import org.bridgedb.uri.lens.Lens;
import org.bridgedb.uri.ws.WSUriInterface;
import org.bridgedb.uri.ws.WsUriConstants;
import org.bridgedb.uri.ws.bean.DataSourceUriPatternBean;
import org.bridgedb.uri.ws.bean.LensBean;
import org.bridgedb.uri.ws.bean.LensesBean;
import org.bridgedb.uri.ws.bean.MappingSetInfoBean;
import org.bridgedb.uri.ws.bean.MappingSetInfosBean;
import org.bridgedb.uri.ws.bean.MappingsBean;
import org.bridgedb.uri.ws.bean.MappingsBySetBean;
import org.bridgedb.uri.ws.bean.OverallStatisticsBean;
import org.bridgedb.uri.ws.bean.SourceInfoBean;
import org.bridgedb.uri.ws.bean.SourceInfosBean;
import org.bridgedb.uri.ws.bean.SourceTargetInfoBean;
import org.bridgedb.uri.ws.bean.SourceTargetInfosBean;
import org.bridgedb.uri.ws.bean.UriExistsBean;
import org.bridgedb.uri.ws.bean.UriMappings;
import org.bridgedb.uri.ws.bean.UriSearchBean;
import org.bridgedb.utils.BridgeDBException;
import org.bridgedb.ws.WSCoreClient;
import org.bridgedb.ws.WsConstants;
import org.bridgedb.ws.bean.XrefBean;
/**
*
* @author Christian
*/
public class WSUriClient extends WSCoreClient implements WSUriInterface{
public final String NO_REPORT = null;
public final String NO_EXCEPTION = null;
public WSUriClient(String serviceAddress) throws BridgeDBException {
super(serviceAddress);
}
@Override
public Response map(String id, String scrCode, String uri, String lensUri,
Boolean includeXrefResults, Boolean includeUriResults,
List targetCodes, String graph, List targetUriPattern) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
if (id != null){
params.add(WsConstants.ID, id);
}
if (scrCode != null){
params.add(WsConstants.DATASOURCE_SYSTEM_CODE, scrCode);
}
if (uri != null){
params.add(WsUriConstants.URI, uri);
}
if (lensUri != null){
params.add(WsUriConstants.LENS_URI, lensUri);
}
if (includeXrefResults != null){
params.add(WsUriConstants.INCLUDE_XREF_RESULTS, includeXrefResults.toString());
}
if (includeUriResults != null){
params.add(WsUriConstants.INCLUDE_URI_RESULTS, includeUriResults.toString());
}
if (targetCodes != null){
for (String target:targetCodes){
params.add(WsUriConstants.TARGET_DATASOURCE_SYSTEM_CODE, target);
}
}
if (graph != null){
params.add(WsUriConstants.GRAPH, graph);
}
if (targetUriPattern != null){
for (String target:targetUriPattern){
params.add(WsUriConstants.TARGET_URI_PATTERN, target);
}
}
try{
//Make service call
MappingsBean result =
webResource.path(WsUriConstants.MAP)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
//throw new BridgeDBException ("Error", ex);
return Response.noContent().build();
}
}
@Override
public Response mapBySet(List uris, String lensUri, String graph, List targetUriPattern) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
for (String uri:uris){
if (uri != null){
params.add(WsUriConstants.URI, uri);
}
}
if (lensUri != null){
params.add(WsUriConstants.LENS_URI, lensUri);
}
if (graph != null){
params.add(WsUriConstants.GRAPH, graph);
}
if (targetUriPattern != null){
for (String target:targetUriPattern){
params.add(WsUriConstants.TARGET_URI_PATTERN, target);
}
}
try {
MappingsBySetBean result =
webResource.path(WsUriConstants.MAP_BY_SET)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response UriExists(String uri) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
params.add(WsUriConstants.URI, uri);
try {
//Make service call
UriExistsBean result =
webResource.path(WsUriConstants.URI_EXISTS)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response UriSearch(String text, String limitString) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
params.add(WsUriConstants.TEXT, text);
params.add(WsUriConstants.LIMIT, limitString);
try {
//Make service call
UriSearchBean result =
webResource.path(WsUriConstants.URI_SEARCH)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
private String encode (String original){
return original.replaceAll("%", "%20");
}
@Override
public Response toXref(String uri) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
params.add(WsUriConstants.URI, encode(uri));
try {
//Make service call
XrefBean result =
webResource.path(WsUriConstants.TO_XREF)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response toUris(String id, String scrCode) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
params.add(WsUriConstants.ID, encode(id));
params.add(WsUriConstants.DATASOURCE_SYSTEM_CODE, encode(scrCode));
try {
//Make service call
UriMappings result =
webResource.path(WsUriConstants.TO_XREF)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
/*@Override
public List getSampleMappings() throws BridgeDBException {
List result =
webResource.path(WsUriConstants.GET_SAMPLE_MAPPINGS)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType>() {});
return result;
}*/
@Override
public Response getOverallStatistics(String lensUri) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
params.add(WsUriConstants.LENS_URI, encode(lensUri));
try {
//Make service call
OverallStatisticsBean result =
webResource.path(WsUriConstants.GET_OVERALL_STATISTICS)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response getSourceInfos(String lensUri) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
params.add(WsUriConstants.LENS_URI, encode(lensUri));
try {
SourceInfosBean result =
webResource.path(WsUriConstants.SOURCE_INFOS)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response getSourceTargetInfos(String sourceSysCode, String lensUri) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
params.add(WsUriConstants.SOURCE_DATASOURCE_SYSTEM_CODE, encode(sourceSysCode));
params.add(WsUriConstants.LENS_URI, encode(lensUri));
try {
SourceTargetInfosBean result =
webResource.path(WsUriConstants.SOURCE_TARGET_INFOS)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
ex.printStackTrace();
return Response.noContent().build();
}
}
@Override
public Response getMappingSetInfo(String mappingSetId) throws BridgeDBException {
try {
MappingSetInfoBean result =
webResource.path(WsUriConstants.MAPPING_SET + "/" + mappingSetId)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response getMappingSetInfos(String sourceSysCode, String targetSysCode, String lensUri) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
params.add(WsUriConstants.SOURCE_DATASOURCE_SYSTEM_CODE, sourceSysCode);
params.add(WsUriConstants.TARGET_DATASOURCE_SYSTEM_CODE, targetSysCode);
params.add(WsUriConstants.LENS_URI, encode(lensUri));
try {
//Make service call
MappingSetInfosBean result =
webResource.path(WsUriConstants.MAPPING_SET)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response getDataSource(String dataSource) throws BridgeDBException{
try {
//Make service call
DataSourceUriPatternBean result =
webResource.path(WsUriConstants.DATA_SOURCE + "/" + dataSource)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
/*TODO FIX this
@Override
public ValidationBean validateString(String info, String mimeType, String storeType, String validationType,
String includeWarnings) throws BridgeDBException {
ValidationBean input = new ValidationBean(NO_REPORT, info, mimeType, storeType, validationType,
includeWarnings, NO_EXCEPTION);
ValidationBean result =
webResource.path("/validateStringXML")
.type(MediaType.APPLICATION_XML)
.post(ValidationBean.class, input);
return result;
}*/
public Response getLenses() {
try {
List result =
webResource.path(Lens.METHOD_NAME)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType>() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response getLens(String id) throws BridgeDBException {
try {
LensBean result = webResource.path(Lens.METHOD_NAME + "/" + id)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response getSqlCompatVersion() throws BridgeDBException {
try {
//Make service call
String result =
webResource.path(WsUriConstants.SQL_COMPAT_VERSION)
.accept(MediaType.TEXT_PLAIN)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response mapUri(List uris, String lensUri, String graph, List targetUriPatterns) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
for (String uri:uris){
if (uri != null){
params.add(WsUriConstants.URI, uri);
}
}
if (lensUri != null){
params.add(WsUriConstants.LENS_URI, lensUri);
}
if (graph != null){
params.add(WsUriConstants.GRAPH, graph);
}
if (targetUriPatterns != null){
for (String target:targetUriPatterns){
params.add(WsUriConstants.TARGET_URI_PATTERN, target);
}
}
try{
//Make service call
UriMappings result =
webResource.path(WsUriConstants.MAP_URI)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
@Override
public Response getLenses(String lensUri, String lensGroup) throws BridgeDBException {
MultivaluedMap params = new MultivaluedMapImpl();
if (lensUri != null){
params.add(WsUriConstants.LENS_URI, lensUri);
}
if (lensGroup != null){
params.add(WsUriConstants.LENS_GROUP, lensGroup);
}
try{
//Make service call
LensesBean result =
webResource.path(WsUriConstants.MAP_URI)
.queryParams(params)
.accept(MediaType.APPLICATION_XML_TYPE)
.get(new GenericType() {});
return Response.ok(result, MediaType.APPLICATION_XML_TYPE).build();
} catch (UniformInterfaceException ex){
return Response.noContent().build();
}
}
}
