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6253
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leinfelder
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/**
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* '$RCSfile$'
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* Copyright: 2011 Regents of the University of California and the
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* National Center for Ecological Analysis and Synthesis
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*
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* '$Author$'
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* '$Date$'
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*
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* This program is free software; you can redistribute it and/or modify
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* it under the terms of the GNU General Public License as published by
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* the Free Software Foundation; either version 2 of the License, or
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* (at your option) any later version.
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*
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* This program is distributed in the hope that it will be useful,
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* but WITHOUT ANY WARRANTY; without even the implied warranty of
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* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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* GNU General Public License for more details.
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*
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* You should have received a copy of the GNU General Public License
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* along with this program; if not, write to the Free Software
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* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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*/
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package edu.ucsb.nceas.metacat.restservice;
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import java.io.ByteArrayInputStream;
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import java.io.File;
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import java.io.FileInputStream;
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import java.io.IOException;
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import java.io.InputStream;
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import java.io.OutputStream;
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import java.util.Date;
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import java.util.Map;
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import javax.servlet.ServletContext;
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import javax.servlet.http.HttpServletRequest;
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import javax.servlet.http.HttpServletResponse;
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6269
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leinfelder
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import org.apache.commons.fileupload.FileUploadException;
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6253
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import org.apache.commons.io.IOUtils;
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import org.apache.log4j.Logger;
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import org.dataone.client.ObjectFormatCache;
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import org.dataone.service.exceptions.BaseException;
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import org.dataone.service.exceptions.IdentifierNotUnique;
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import org.dataone.service.exceptions.InsufficientResources;
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import org.dataone.service.exceptions.InvalidRequest;
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import org.dataone.service.exceptions.InvalidSystemMetadata;
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import org.dataone.service.exceptions.InvalidToken;
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import org.dataone.service.exceptions.NotAuthorized;
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import org.dataone.service.exceptions.NotFound;
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import org.dataone.service.exceptions.NotImplemented;
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import org.dataone.service.exceptions.ServiceFailure;
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import org.dataone.service.exceptions.UnsupportedType;
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6366
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leinfelder
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import org.dataone.service.types.v1.AccessPolicy;
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import org.dataone.service.types.v1.Checksum;
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import org.dataone.service.types.v1.Event;
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import org.dataone.service.types.v1.Identifier;
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import org.dataone.service.types.v1.Log;
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import org.dataone.service.types.v1.ObjectFormat;
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import org.dataone.service.types.v1.ObjectFormatIdentifier;
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import org.dataone.service.types.v1.ObjectFormatList;
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import org.dataone.service.types.v1.ObjectLocationList;
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import org.dataone.service.types.v1.Permission;
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import org.dataone.service.types.v1.Subject;
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import org.dataone.service.types.v1.SystemMetadata;
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import org.dataone.service.util.DateTimeMarshaller;
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import org.dataone.service.util.TypeMarshaller;
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import org.jibx.runtime.JiBXException;
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import edu.ucsb.nceas.metacat.dataone.CNodeService;
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/**
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* CN REST service implementation handler
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*
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* ******************
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CNCore -- DONE
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create() - POST /d1/cn/object/PID
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listFormats() - GET /d1/cn/formats
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getFormat() - GET /d1/cn/formats/FMTID
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getLogRecords - GET /d1/cn/log
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reserveIdentifier() - POST /d1/cn/reserve
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listNodes() - Not implemented
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registerSystemMetadata() - POST /d1/meta/PID
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CNRead -- DONE
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get() - GET /d1/cn/object/PID
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getSystemMetadata() - GET /d1/cn/meta/PID
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resolve() - GET /d1/cn/resolve/PID
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assertRelation() - GET /d1/cn/assertRelation/PID
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getChecksum() - GET /d1/cn/checksum
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search() - Not implemented in Metacat
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CNAuthorization
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setOwner() - PUT /d1/cn/owner/PID
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isAuthorized() - GET /d1/cn/isAuthorized/PID
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setAccessPolicy() - POST /d1/cn/accessRules
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CNIdentity - not implemented at all on Metacat
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CNReplication
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setReplicationStatus() - Not exposed
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updateReplicationMetadata() - New method?
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setReplicationPolicy() - Not exposed
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CNRegister -- not implemented at all in Metacat
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* ******************
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* @author leinfelder
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*
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*/
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6267
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leinfelder
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public class CNResourceHandler extends D1ResourceHandler {
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6253
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leinfelder
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/** CN-specific operations **/
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protected static final String RESOURCE_RESERVE = "reserve";
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6271
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protected static final String RESOURCE_FORMATS = "formats";
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6253
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leinfelder
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protected static final String RESOURCE_RESOLVE = "resolve";
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protected static final String RESOURCE_ASSERT_RELATION = "assertRelation";
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protected static final String RESOURCE_OWNER = "owner";
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protected static final String RESOURCE_NOTIFY = "notify";
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protected static final String RESOURCE_META_REPLICATION = "meta/replication";
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protected static final String RESOURCE_META_POLICY = "meta/policy";
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public CNResourceHandler(ServletContext servletContext,
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HttpServletRequest request, HttpServletResponse response) {
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super(servletContext, request, response);
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logMetacat = Logger.getLogger(CNResourceHandler.class);
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}
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/**
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6271
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* This function is called from REST API servlet and handles each request to the servlet
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6253
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*
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* @param httpVerb (GET, POST, PUT or DELETE)
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*/
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6271
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@Override
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6253
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leinfelder
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public void handle(byte httpVerb) {
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6271
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// prepare the handler
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super.handle(httpVerb);
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6253
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leinfelder
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try {
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6282
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leinfelder
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// get the resource
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String resource = request.getPathInfo();
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resource = resource.substring(resource.indexOf("/") + 1);
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6253
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leinfelder
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// for the rest of the resouce
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6282
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leinfelder
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String extra = null;
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6253
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leinfelder
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logMetacat.debug("handling verb " + httpVerb + " request with resource '" + resource + "'");
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boolean status = false;
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6271
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leinfelder
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6253
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leinfelder
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if (resource != null) {
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6282
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leinfelder
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if (resource.startsWith(RESOURCE_ACCESS_RULES) && httpVerb == PUT) {
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6253
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leinfelder
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logMetacat.debug("Setting access policy");
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6270
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leinfelder
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setAccess();
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6253
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leinfelder
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status = true;
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logMetacat.debug("done setting access");
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6282
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leinfelder
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} else if (resource.startsWith(RESOURCE_META)) {
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6253
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leinfelder
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logMetacat.debug("Using resource: " + RESOURCE_META);
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6282
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leinfelder
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6396
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leinfelder
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// after the command
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extra = parseTrailing(resource, RESOURCE_META);
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6253
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leinfelder
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// get
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if (httpVerb == GET) {
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6282
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leinfelder
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getSystemMetadataObject(extra);
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6253
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leinfelder
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status = true;
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}
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// post to register system metadata
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if (httpVerb == POST) {
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6282
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leinfelder
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registerSystemMetadata(extra);
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6253
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leinfelder
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status = true;
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}
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6282
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leinfelder
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} else if (resource.startsWith(RESOURCE_RESERVE)) {
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6253
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leinfelder
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// reserve the ID (in params)
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if (httpVerb == POST) {
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reserve();
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status = true;
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}
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6282
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leinfelder
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} else if (resource.startsWith(RESOURCE_ASSERT_RELATION)) {
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| 182 |
6396
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leinfelder
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// after the command
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extra = parseTrailing(resource, RESOURCE_ASSERT_RELATION);
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6253
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leinfelder
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// reserve the ID (in params)
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if (httpVerb == GET) {
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6282
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leinfelder
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assertRelation(extra);
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6253
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leinfelder
|
status = true;
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}
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6282
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_RESOLVE)) {
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| 191 |
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| 192 |
6396
|
leinfelder
|
// after the command
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extra = parseTrailing(resource, RESOURCE_RESOLVE);
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| 195 |
6253
|
leinfelder
|
// resolve the object location
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| 196 |
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if (httpVerb == GET) {
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6282
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leinfelder
|
resolve(extra);
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| 198 |
6253
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leinfelder
|
status = true;
|
| 199 |
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}
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| 200 |
6282
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_OWNER)) {
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| 202 |
6396
|
leinfelder
|
// after the command
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| 203 |
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extra = parseTrailing(resource, RESOURCE_OWNER);
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| 204 |
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|
| 205 |
6253
|
leinfelder
|
// set the owner
|
| 206 |
|
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if (httpVerb == PUT) {
|
| 207 |
6282
|
leinfelder
|
owner(extra);
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| 208 |
6253
|
leinfelder
|
status = true;
|
| 209 |
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}
|
| 210 |
6282
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_IS_AUTHORIZED)) {
|
| 211 |
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|
| 212 |
6396
|
leinfelder
|
// after the command
|
| 213 |
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extra = parseTrailing(resource, RESOURCE_IS_AUTHORIZED);
|
| 214 |
|
|
|
| 215 |
6253
|
leinfelder
|
// authorized?
|
| 216 |
|
|
if (httpVerb == GET) {
|
| 217 |
6282
|
leinfelder
|
isAuthorized(extra);
|
| 218 |
6253
|
leinfelder
|
status = true;
|
| 219 |
|
|
}
|
| 220 |
6282
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_OBJECTS)) {
|
| 221 |
6253
|
leinfelder
|
logMetacat.debug("Using resource 'object'");
|
| 222 |
|
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logMetacat.debug("D1 Rest: Starting resource processing...");
|
| 223 |
|
|
|
| 224 |
6396
|
leinfelder
|
// after the command
|
| 225 |
|
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extra = parseTrailing(resource, RESOURCE_OBJECTS);
|
| 226 |
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|
| 227 |
6282
|
leinfelder
|
logMetacat.debug("objectId: " + extra);
|
| 228 |
6253
|
leinfelder
|
logMetacat.debug("verb:" + httpVerb);
|
| 229 |
|
|
|
| 230 |
|
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if (httpVerb == GET) {
|
| 231 |
6282
|
leinfelder
|
if (extra != null) {
|
| 232 |
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getObject(extra);
|
| 233 |
|
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} else {
|
| 234 |
|
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query();
|
| 235 |
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}
|
| 236 |
6253
|
leinfelder
|
status = true;
|
| 237 |
|
|
} else if (httpVerb == POST) {
|
| 238 |
6282
|
leinfelder
|
putObject(extra, FUNCTION_NAME_INSERT);
|
| 239 |
6253
|
leinfelder
|
status = true;
|
| 240 |
|
|
}
|
| 241 |
|
|
|
| 242 |
6282
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_FORMATS)) {
|
| 243 |
6253
|
leinfelder
|
logMetacat.debug("Using resource: " + RESOURCE_FORMATS);
|
| 244 |
|
|
|
| 245 |
6396
|
leinfelder
|
// after the command
|
| 246 |
|
|
extra = parseTrailing(resource, RESOURCE_FORMATS);
|
| 247 |
6253
|
leinfelder
|
|
| 248 |
|
|
// handle each verb
|
| 249 |
|
|
if (httpVerb == GET) {
|
| 250 |
6282
|
leinfelder
|
if (extra == null) {
|
| 251 |
6253
|
leinfelder
|
// list the formats collection
|
| 252 |
|
|
listFormats();
|
| 253 |
|
|
} else {
|
| 254 |
|
|
// get the specified format
|
| 255 |
6282
|
leinfelder
|
getFormat(extra);
|
| 256 |
6253
|
leinfelder
|
}
|
| 257 |
|
|
status = true;
|
| 258 |
|
|
}
|
| 259 |
|
|
|
| 260 |
6282
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_LOG)) {
|
| 261 |
6253
|
leinfelder
|
logMetacat.debug("Using resource: " + RESOURCE_LOG);
|
| 262 |
|
|
//handle log events
|
| 263 |
|
|
if (httpVerb == GET) {
|
| 264 |
|
|
getLog();
|
| 265 |
|
|
status = true;
|
| 266 |
|
|
}
|
| 267 |
|
|
|
| 268 |
6282
|
leinfelder
|
} else if (resource.startsWith(RESOURCE_CHECKSUM)) {
|
| 269 |
6253
|
leinfelder
|
logMetacat.debug("Using resource: " + RESOURCE_CHECKSUM);
|
| 270 |
6396
|
leinfelder
|
|
| 271 |
|
|
// after the command
|
| 272 |
|
|
extra = parseTrailing(resource, RESOURCE_CHECKSUM);
|
| 273 |
|
|
|
| 274 |
6253
|
leinfelder
|
//handle checksum requests
|
| 275 |
|
|
if (httpVerb == GET) {
|
| 276 |
|
|
|
| 277 |
6282
|
leinfelder
|
checksum(extra);
|
| 278 |
6253
|
leinfelder
|
status = true;
|
| 279 |
|
|
}
|
| 280 |
|
|
}
|
| 281 |
|
|
|
| 282 |
|
|
if (!status) {
|
| 283 |
6271
|
leinfelder
|
throw new ServiceFailure("0000", "Unknown error, status = " + status);
|
| 284 |
6253
|
leinfelder
|
}
|
| 285 |
|
|
} else {
|
| 286 |
6270
|
leinfelder
|
throw new InvalidRequest("0000", "No resource matched for " + resource);
|
| 287 |
6253
|
leinfelder
|
}
|
| 288 |
|
|
} catch (BaseException be) {
|
| 289 |
6270
|
leinfelder
|
// report Exceptions as clearly and generically as possible
|
| 290 |
6253
|
leinfelder
|
OutputStream out = null;
|
| 291 |
|
|
try {
|
| 292 |
|
|
out = response.getOutputStream();
|
| 293 |
6270
|
leinfelder
|
} catch (IOException ioe) {
|
| 294 |
|
|
logMetacat.error("Could not get output stream from response", ioe);
|
| 295 |
6253
|
leinfelder
|
}
|
| 296 |
|
|
serializeException(be, out);
|
| 297 |
|
|
} catch (Exception e) {
|
| 298 |
6270
|
leinfelder
|
// report Exceptions as clearly and generically as possible
|
| 299 |
6253
|
leinfelder
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
| 300 |
6270
|
leinfelder
|
OutputStream out = null;
|
| 301 |
|
|
try {
|
| 302 |
|
|
out = response.getOutputStream();
|
| 303 |
|
|
} catch (IOException ioe) {
|
| 304 |
|
|
logMetacat.error("Could not get output stream from response", ioe);
|
| 305 |
|
|
}
|
| 306 |
|
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
| 307 |
|
|
serializeException(se, out);
|
| 308 |
6253
|
leinfelder
|
}
|
| 309 |
|
|
}
|
| 310 |
|
|
|
| 311 |
6396
|
leinfelder
|
private String parseTrailing(String resource, String token) {
|
| 312 |
|
|
// get the rest
|
| 313 |
|
|
String extra = null;
|
| 314 |
|
|
if (resource.indexOf(token) != -1) {
|
| 315 |
|
|
// what comes after the token?
|
| 316 |
|
|
extra = resource.substring(resource.indexOf(token) + token.length());
|
| 317 |
|
|
// remove the slash
|
| 318 |
|
|
if (extra.startsWith("/")) {
|
| 319 |
|
|
extra = extra.substring(1);
|
| 320 |
|
|
}
|
| 321 |
|
|
// is there anything left?
|
| 322 |
|
|
if (extra.length() == 0) {
|
| 323 |
|
|
extra = null;
|
| 324 |
|
|
}
|
| 325 |
|
|
}
|
| 326 |
|
|
return extra;
|
| 327 |
|
|
}
|
| 328 |
|
|
|
| 329 |
6270
|
leinfelder
|
/**
|
| 330 |
|
|
* Get the checksum for the given guid
|
| 331 |
|
|
*
|
| 332 |
|
|
* @param guid
|
| 333 |
|
|
* @throws NotImplemented
|
| 334 |
|
|
* @throws InvalidRequest
|
| 335 |
|
|
* @throws NotFound
|
| 336 |
|
|
* @throws NotAuthorized
|
| 337 |
|
|
* @throws ServiceFailure
|
| 338 |
|
|
* @throws InvalidToken
|
| 339 |
|
|
* @throws IOException
|
| 340 |
|
|
* @throws JiBXException
|
| 341 |
|
|
*/
|
| 342 |
|
|
private void checksum(String guid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, JiBXException, IOException {
|
| 343 |
|
|
Identifier guidid = new Identifier();
|
| 344 |
|
|
guidid.setValue(guid);
|
| 345 |
|
|
logMetacat.debug("getting checksum for object " + guid);
|
| 346 |
|
|
Checksum c = CNodeService.getInstance().getChecksum(session, guidid);
|
| 347 |
|
|
logMetacat.debug("got checksum " + c.getValue());
|
| 348 |
|
|
response.setStatus(200);
|
| 349 |
|
|
logMetacat.debug("serializing response");
|
| 350 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(c, response.getOutputStream());
|
| 351 |
6270
|
leinfelder
|
logMetacat.debug("done serializing response.");
|
| 352 |
|
|
|
| 353 |
|
|
}
|
| 354 |
|
|
|
| 355 |
6253
|
leinfelder
|
/**
|
| 356 |
6362
|
leinfelder
|
* get the logs based on passed params. Available
|
| 357 |
6253
|
leinfelder
|
* params are token, fromDate, toDate, event. See
|
| 358 |
|
|
* http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.getLogRecords
|
| 359 |
|
|
* for more info
|
| 360 |
6270
|
leinfelder
|
* @throws NotImplemented
|
| 361 |
|
|
* @throws InvalidRequest
|
| 362 |
|
|
* @throws NotAuthorized
|
| 363 |
|
|
* @throws ServiceFailure
|
| 364 |
|
|
* @throws InvalidToken
|
| 365 |
|
|
* @throws IOException
|
| 366 |
|
|
* @throws JiBXException
|
| 367 |
6253
|
leinfelder
|
*/
|
| 368 |
6270
|
leinfelder
|
private void getLog() throws InvalidToken, ServiceFailure, NotAuthorized, InvalidRequest, NotImplemented, IOException, JiBXException
|
| 369 |
6253
|
leinfelder
|
{
|
| 370 |
6270
|
leinfelder
|
|
| 371 |
|
|
Date fromDate = null;
|
| 372 |
|
|
Date toDate = null;
|
| 373 |
|
|
Event event = null;
|
| 374 |
|
|
Integer start = null;
|
| 375 |
|
|
Integer count = null;
|
| 376 |
|
|
|
| 377 |
|
|
try {
|
| 378 |
|
|
String fromDateS = params.get("fromDate")[0];
|
| 379 |
6272
|
leinfelder
|
logMetacat.debug("param fromDateS: " + fromDateS);
|
| 380 |
6469
|
leinfelder
|
fromDate = DateTimeMarshaller.deserializeDateToUTC(fromDateS);
|
| 381 |
6270
|
leinfelder
|
} catch (Exception e) {
|
| 382 |
|
|
logMetacat.warn("Could not parse fromDate: " + e.getMessage());
|
| 383 |
6253
|
leinfelder
|
}
|
| 384 |
6270
|
leinfelder
|
try {
|
| 385 |
|
|
String toDateS = params.get("toDate")[0];
|
| 386 |
6272
|
leinfelder
|
logMetacat.debug("param toDateS: " + toDateS);
|
| 387 |
6469
|
leinfelder
|
toDate = DateTimeMarshaller.deserializeDateToUTC(toDateS);
|
| 388 |
6270
|
leinfelder
|
} catch (Exception e) {
|
| 389 |
|
|
logMetacat.warn("Could not parse toDate: " + e.getMessage());
|
| 390 |
|
|
}
|
| 391 |
|
|
try {
|
| 392 |
|
|
String eventS = params.get("event")[0];
|
| 393 |
|
|
event = Event.convert(eventS);
|
| 394 |
|
|
} catch (Exception e) {
|
| 395 |
|
|
logMetacat.warn("Could not parse event: " + e.getMessage());
|
| 396 |
|
|
}
|
| 397 |
6272
|
leinfelder
|
logMetacat.debug("fromDate: " + fromDate + " toDate: " + toDate);
|
| 398 |
6270
|
leinfelder
|
|
| 399 |
|
|
try {
|
| 400 |
|
|
start = Integer.parseInt(params.get("start")[0]);
|
| 401 |
|
|
} catch (Exception e) {
|
| 402 |
|
|
logMetacat.warn("Could not parse start: " + e.getMessage());
|
| 403 |
|
|
}
|
| 404 |
|
|
try {
|
| 405 |
|
|
count = Integer.parseInt(params.get("count")[0]);
|
| 406 |
|
|
} catch (Exception e) {
|
| 407 |
|
|
logMetacat.warn("Could not parse count: " + e.getMessage());
|
| 408 |
|
|
}
|
| 409 |
|
|
|
| 410 |
6272
|
leinfelder
|
logMetacat.debug("calling getLogRecords");
|
| 411 |
6270
|
leinfelder
|
Log log = CNodeService.getInstance().getLogRecords(session, fromDate, toDate, event, start, count);
|
| 412 |
|
|
|
| 413 |
|
|
OutputStream out = response.getOutputStream();
|
| 414 |
|
|
response.setStatus(200);
|
| 415 |
|
|
response.setContentType("text/xml");
|
| 416 |
|
|
|
| 417 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(log, out);
|
| 418 |
6270
|
leinfelder
|
|
| 419 |
6253
|
leinfelder
|
}
|
| 420 |
|
|
|
| 421 |
|
|
/**
|
| 422 |
|
|
* Implements REST version of DataONE CRUD API --> get
|
| 423 |
|
|
* @param guid ID of data object to be read
|
| 424 |
6270
|
leinfelder
|
* @throws NotImplemented
|
| 425 |
|
|
* @throws InvalidRequest
|
| 426 |
|
|
* @throws NotFound
|
| 427 |
|
|
* @throws NotAuthorized
|
| 428 |
|
|
* @throws ServiceFailure
|
| 429 |
|
|
* @throws InvalidToken
|
| 430 |
|
|
* @throws IOException
|
| 431 |
6253
|
leinfelder
|
*/
|
| 432 |
6270
|
leinfelder
|
protected void getObject(String guid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, IOException {
|
| 433 |
|
|
|
| 434 |
6280
|
leinfelder
|
Identifier id = new Identifier();
|
| 435 |
|
|
id.setValue(guid);
|
| 436 |
|
|
|
| 437 |
|
|
SystemMetadata sm = CNodeService.getInstance().getSystemMetadata(session, id);
|
| 438 |
6270
|
leinfelder
|
|
| 439 |
6280
|
leinfelder
|
//set the content type
|
| 440 |
6384
|
cjones
|
if(sm.getFmtid().getValue().trim().equals(
|
| 441 |
6280
|
leinfelder
|
ObjectFormatCache.getInstance().getFormat("text/csv").getFmtid().getValue()))
|
| 442 |
|
|
{
|
| 443 |
|
|
response.setContentType("text/csv");
|
| 444 |
|
|
response.setHeader("Content-Disposition", "inline; filename=" + id.getValue() + ".csv");
|
| 445 |
6253
|
leinfelder
|
}
|
| 446 |
6384
|
cjones
|
else if(sm.getFmtid().getValue().trim().equals(
|
| 447 |
6280
|
leinfelder
|
ObjectFormatCache.getInstance().getFormat("text/plain").getFmtid().getValue()))
|
| 448 |
|
|
{
|
| 449 |
|
|
response.setContentType("text/plain");
|
| 450 |
|
|
response.setHeader("Content-Disposition", "inline; filename=" + id.getValue() + ".txt");
|
| 451 |
|
|
}
|
| 452 |
6384
|
cjones
|
else if(sm.getFmtid().getValue().trim().equals(
|
| 453 |
6280
|
leinfelder
|
ObjectFormatCache.getInstance().getFormat("application/octet-stream").getFmtid().getValue()))
|
| 454 |
|
|
{
|
| 455 |
|
|
response.setContentType("application/octet-stream");
|
| 456 |
|
|
}
|
| 457 |
|
|
else
|
| 458 |
|
|
{
|
| 459 |
|
|
response.setContentType("text/xml");
|
| 460 |
|
|
response.setHeader("Content-Disposition", "inline; filename=" + id.getValue() + ".xml");
|
| 461 |
|
|
}
|
| 462 |
|
|
|
| 463 |
|
|
InputStream data = CNodeService.getInstance().get(session, id);
|
| 464 |
|
|
|
| 465 |
|
|
OutputStream out = response.getOutputStream();
|
| 466 |
|
|
response.setStatus(200);
|
| 467 |
|
|
IOUtils.copyLarge(data, out);
|
| 468 |
6270
|
leinfelder
|
|
| 469 |
6253
|
leinfelder
|
}
|
| 470 |
|
|
|
| 471 |
|
|
|
| 472 |
|
|
/**
|
| 473 |
|
|
* Implements REST version of DataONE CRUD API --> getSystemMetadata
|
| 474 |
|
|
* @param guid ID of data object to be read
|
| 475 |
6270
|
leinfelder
|
* @throws NotImplemented
|
| 476 |
|
|
* @throws InvalidRequest
|
| 477 |
|
|
* @throws NotFound
|
| 478 |
|
|
* @throws NotAuthorized
|
| 479 |
|
|
* @throws ServiceFailure
|
| 480 |
|
|
* @throws InvalidToken
|
| 481 |
|
|
* @throws IOException
|
| 482 |
|
|
* @throws JiBXException
|
| 483 |
6253
|
leinfelder
|
*/
|
| 484 |
6270
|
leinfelder
|
protected void getSystemMetadataObject(String guid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, IOException, JiBXException {
|
| 485 |
|
|
|
| 486 |
|
|
Identifier id = new Identifier();
|
| 487 |
|
|
id.setValue(guid);
|
| 488 |
|
|
SystemMetadata sysmeta = CNodeService.getInstance().getSystemMetadata(session, id);
|
| 489 |
|
|
|
| 490 |
|
|
response.setContentType("text/xml");
|
| 491 |
|
|
response.setStatus(200);
|
| 492 |
|
|
OutputStream out = response.getOutputStream();
|
| 493 |
|
|
|
| 494 |
|
|
// Serialize and write it to the output stream
|
| 495 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(sysmeta, out);
|
| 496 |
6270
|
leinfelder
|
}
|
| 497 |
6253
|
leinfelder
|
|
| 498 |
|
|
/**
|
| 499 |
|
|
* Earthgrid API > Put Service >Put Function : calls MetacatHandler > handleInsertOrUpdateAction
|
| 500 |
|
|
*
|
| 501 |
|
|
* @param guid - ID of data object to be inserted or updated. If action is update, the pid
|
| 502 |
|
|
* is the existing pid. If insert, the pid is the new one
|
| 503 |
6269
|
leinfelder
|
* @throws InvalidRequest
|
| 504 |
|
|
* @throws ServiceFailure
|
| 505 |
|
|
* @throws IdentifierNotUnique
|
| 506 |
|
|
* @throws JiBXException
|
| 507 |
|
|
* @throws NotImplemented
|
| 508 |
|
|
* @throws InvalidSystemMetadata
|
| 509 |
|
|
* @throws InsufficientResources
|
| 510 |
|
|
* @throws UnsupportedType
|
| 511 |
|
|
* @throws NotAuthorized
|
| 512 |
|
|
* @throws InvalidToken
|
| 513 |
|
|
* @throws IOException
|
| 514 |
6367
|
leinfelder
|
* @throws IllegalAccessException
|
| 515 |
|
|
* @throws InstantiationException
|
| 516 |
6253
|
leinfelder
|
*/
|
| 517 |
6367
|
leinfelder
|
protected void putObject(String pid, String action) throws ServiceFailure, InvalidRequest, IdentifierNotUnique, JiBXException, InvalidToken, NotAuthorized, UnsupportedType, InsufficientResources, InvalidSystemMetadata, NotImplemented, IOException, InstantiationException, IllegalAccessException {
|
| 518 |
6253
|
leinfelder
|
logMetacat.debug("Entering putObject: " + pid + "/" + action);
|
| 519 |
6269
|
leinfelder
|
|
| 520 |
|
|
// Read the incoming data from its Mime Multipart encoding
|
| 521 |
|
|
Map<String, File> files = collectMultipartFiles();
|
| 522 |
|
|
InputStream object = null;
|
| 523 |
|
|
InputStream sysmeta = null;
|
| 524 |
6253
|
leinfelder
|
|
| 525 |
6269
|
leinfelder
|
File smFile = files.get("sysmeta");
|
| 526 |
|
|
sysmeta = new FileInputStream(smFile);
|
| 527 |
|
|
File objFile = files.get("object");
|
| 528 |
|
|
object = new FileInputStream(objFile);
|
| 529 |
|
|
|
| 530 |
6270
|
leinfelder
|
if (action.equals(FUNCTION_NAME_INSERT)) { //handle inserts
|
| 531 |
6253
|
leinfelder
|
|
| 532 |
6269
|
leinfelder
|
logMetacat.debug("Commence creation...");
|
| 533 |
6367
|
leinfelder
|
SystemMetadata smd = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
| 534 |
6253
|
leinfelder
|
|
| 535 |
6269
|
leinfelder
|
Identifier id = new Identifier();
|
| 536 |
|
|
id.setValue(pid);
|
| 537 |
|
|
logMetacat.debug("creating object with pid " + id.getValue());
|
| 538 |
|
|
Identifier rId = CNodeService.getInstance().create(session, id, object, smd);
|
| 539 |
6253
|
leinfelder
|
|
| 540 |
6269
|
leinfelder
|
OutputStream out = response.getOutputStream();
|
| 541 |
|
|
response.setStatus(200);
|
| 542 |
|
|
response.setContentType("text/xml");
|
| 543 |
6253
|
leinfelder
|
|
| 544 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(rId, out);
|
| 545 |
6269
|
leinfelder
|
|
| 546 |
|
|
} else {
|
| 547 |
|
|
throw new InvalidRequest("1000", "Operation must be create.");
|
| 548 |
6253
|
leinfelder
|
}
|
| 549 |
|
|
}
|
| 550 |
|
|
|
| 551 |
|
|
/**
|
| 552 |
|
|
* List the object formats registered with the system
|
| 553 |
6270
|
leinfelder
|
* @throws NotImplemented
|
| 554 |
|
|
* @throws InsufficientResources
|
| 555 |
|
|
* @throws NotFound
|
| 556 |
|
|
* @throws ServiceFailure
|
| 557 |
|
|
* @throws InvalidRequest
|
| 558 |
|
|
* @throws IOException
|
| 559 |
|
|
* @throws JiBXException
|
| 560 |
6253
|
leinfelder
|
*/
|
| 561 |
6270
|
leinfelder
|
private void listFormats() throws InvalidRequest, ServiceFailure, NotFound, InsufficientResources, NotImplemented, IOException, JiBXException {
|
| 562 |
6253
|
leinfelder
|
logMetacat.debug("Entering listFormats()");
|
| 563 |
6270
|
leinfelder
|
|
| 564 |
|
|
ObjectFormatList objectFormatList = CNodeService.getInstance().listFormats();
|
| 565 |
6253
|
leinfelder
|
// get the response output stream
|
| 566 |
6270
|
leinfelder
|
OutputStream out = response.getOutputStream();
|
| 567 |
|
|
response.setStatus(200);
|
| 568 |
|
|
response.setContentType("text/xml");
|
| 569 |
6253
|
leinfelder
|
|
| 570 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(objectFormatList, out);
|
| 571 |
6270
|
leinfelder
|
|
| 572 |
6253
|
leinfelder
|
}
|
| 573 |
|
|
|
| 574 |
|
|
/**
|
| 575 |
|
|
* Return the requested object format
|
| 576 |
|
|
*
|
| 577 |
|
|
* @param fmtidStr the requested format identifier as a string
|
| 578 |
6270
|
leinfelder
|
* @throws NotImplemented
|
| 579 |
|
|
* @throws InsufficientResources
|
| 580 |
|
|
* @throws NotFound
|
| 581 |
|
|
* @throws ServiceFailure
|
| 582 |
|
|
* @throws InvalidRequest
|
| 583 |
|
|
* @throws IOException
|
| 584 |
|
|
* @throws JiBXException
|
| 585 |
6253
|
leinfelder
|
*/
|
| 586 |
6270
|
leinfelder
|
private void getFormat(String fmtidStr) throws InvalidRequest, ServiceFailure, NotFound, InsufficientResources, NotImplemented, IOException, JiBXException {
|
| 587 |
6253
|
leinfelder
|
logMetacat.debug("Entering listFormats()");
|
| 588 |
|
|
|
| 589 |
|
|
ObjectFormatIdentifier fmtid = new ObjectFormatIdentifier();
|
| 590 |
|
|
fmtid.setValue(fmtidStr);
|
| 591 |
|
|
|
| 592 |
6270
|
leinfelder
|
// get the specified object format
|
| 593 |
|
|
ObjectFormat objectFormat = CNodeService.getInstance().getFormat(fmtid);
|
| 594 |
6253
|
leinfelder
|
|
| 595 |
6270
|
leinfelder
|
OutputStream out = response.getOutputStream();
|
| 596 |
|
|
response.setStatus(200);
|
| 597 |
|
|
response.setContentType("text/xml");
|
| 598 |
6253
|
leinfelder
|
|
| 599 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(objectFormat, out);
|
| 600 |
6253
|
leinfelder
|
|
| 601 |
|
|
}
|
| 602 |
|
|
|
| 603 |
|
|
/**
|
| 604 |
|
|
* Reserve the given Identifier
|
| 605 |
|
|
* @throws InvalidToken
|
| 606 |
|
|
* @throws ServiceFailure
|
| 607 |
|
|
* @throws NotAuthorized
|
| 608 |
|
|
* @throws IdentifierNotUnique
|
| 609 |
|
|
* @throws NotImplemented
|
| 610 |
|
|
* @throws InvalidRequest
|
| 611 |
|
|
* @throws IOException
|
| 612 |
6270
|
leinfelder
|
* @throws JiBXException
|
| 613 |
6253
|
leinfelder
|
*/
|
| 614 |
6270
|
leinfelder
|
private void reserve() throws InvalidToken, ServiceFailure, NotAuthorized, IdentifierNotUnique, NotImplemented, InvalidRequest, IOException, JiBXException {
|
| 615 |
6279
|
leinfelder
|
Identifier pid = null;
|
| 616 |
|
|
String scope = null;
|
| 617 |
|
|
String format = null;
|
| 618 |
|
|
// gather the params
|
| 619 |
|
|
try {
|
| 620 |
|
|
String id = params.get("pid")[0];
|
| 621 |
|
|
pid = new Identifier();
|
| 622 |
|
|
pid.setValue(id);
|
| 623 |
|
|
} catch (Exception e) {
|
| 624 |
|
|
logMetacat.warn("pid not specified");
|
| 625 |
|
|
}
|
| 626 |
|
|
try {
|
| 627 |
|
|
scope = params.get("scope")[0];
|
| 628 |
|
|
} catch (Exception e) {
|
| 629 |
|
|
logMetacat.warn("pid not specified");
|
| 630 |
|
|
}
|
| 631 |
|
|
try {
|
| 632 |
|
|
format = params.get("format")[0];
|
| 633 |
|
|
} catch (Exception e) {
|
| 634 |
|
|
logMetacat.warn("pid not specified");
|
| 635 |
|
|
}
|
| 636 |
|
|
// call the implementation
|
| 637 |
6378
|
leinfelder
|
boolean result = CNodeService.getInstance().reserveIdentifier(session, pid);
|
| 638 |
6253
|
leinfelder
|
OutputStream out = response.getOutputStream();
|
| 639 |
|
|
response.setStatus(200);
|
| 640 |
|
|
response.setContentType("text/xml");
|
| 641 |
6378
|
leinfelder
|
// nothing to send back
|
| 642 |
6253
|
leinfelder
|
}
|
| 643 |
|
|
|
| 644 |
6270
|
leinfelder
|
/**
|
| 645 |
|
|
*
|
| 646 |
|
|
* @param id
|
| 647 |
|
|
* @throws InvalidRequest
|
| 648 |
|
|
* @throws InvalidToken
|
| 649 |
|
|
* @throws ServiceFailure
|
| 650 |
|
|
* @throws NotAuthorized
|
| 651 |
|
|
* @throws NotFound
|
| 652 |
|
|
* @throws NotImplemented
|
| 653 |
|
|
* @throws IOException
|
| 654 |
|
|
* @throws JiBXException
|
| 655 |
|
|
*/
|
| 656 |
|
|
private void resolve(String id) throws InvalidRequest, InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, IOException, JiBXException {
|
| 657 |
6253
|
leinfelder
|
Identifier pid = new Identifier();
|
| 658 |
|
|
pid.setValue(id);
|
| 659 |
|
|
ObjectLocationList locationList = CNodeService.getInstance().resolve(session, pid);
|
| 660 |
|
|
OutputStream out = response.getOutputStream();
|
| 661 |
|
|
response.setStatus(200);
|
| 662 |
|
|
response.setContentType("text/xml");
|
| 663 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(locationList, out);
|
| 664 |
6270
|
leinfelder
|
|
| 665 |
6253
|
leinfelder
|
}
|
| 666 |
|
|
|
| 667 |
6270
|
leinfelder
|
/**
|
| 668 |
|
|
* Assert that a relationship exists between two resources
|
| 669 |
|
|
* @param id
|
| 670 |
|
|
* @return
|
| 671 |
|
|
* @throws InvalidToken
|
| 672 |
|
|
* @throws ServiceFailure
|
| 673 |
|
|
* @throws NotAuthorized
|
| 674 |
|
|
* @throws NotFound
|
| 675 |
|
|
* @throws InvalidRequest
|
| 676 |
|
|
* @throws NotImplemented
|
| 677 |
|
|
*/
|
| 678 |
6268
|
leinfelder
|
private boolean assertRelation(String id) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented {
|
| 679 |
6253
|
leinfelder
|
Identifier pidOfSubject = new Identifier();
|
| 680 |
|
|
pidOfSubject.setValue(id);
|
| 681 |
6270
|
leinfelder
|
String relationship = null;
|
| 682 |
|
|
try {
|
| 683 |
|
|
relationship = params.get("relationship")[0];
|
| 684 |
|
|
} catch (Exception e) {
|
| 685 |
|
|
logMetacat.warn("relationship not specified");
|
| 686 |
|
|
}
|
| 687 |
6253
|
leinfelder
|
Identifier pidOfObject = new Identifier();
|
| 688 |
6270
|
leinfelder
|
try {
|
| 689 |
|
|
String objPid = params.get("pidOfObject")[0];
|
| 690 |
|
|
pidOfObject.setValue(objPid);
|
| 691 |
|
|
} catch (Exception e) {
|
| 692 |
|
|
logMetacat.warn("pidOfObject not specified");
|
| 693 |
|
|
}
|
| 694 |
6253
|
leinfelder
|
boolean result = CNodeService.getInstance().assertRelation(session, pidOfSubject, relationship, pidOfObject);
|
| 695 |
|
|
response.setStatus(200);
|
| 696 |
|
|
response.setContentType("text/xml");
|
| 697 |
|
|
return result;
|
| 698 |
|
|
}
|
| 699 |
|
|
|
| 700 |
6270
|
leinfelder
|
/**
|
| 701 |
|
|
* Set the owner of a resource
|
| 702 |
|
|
* @param id
|
| 703 |
|
|
* @throws JiBXException
|
| 704 |
|
|
* @throws InvalidToken
|
| 705 |
|
|
* @throws ServiceFailure
|
| 706 |
|
|
* @throws NotFound
|
| 707 |
|
|
* @throws NotAuthorized
|
| 708 |
|
|
* @throws NotImplemented
|
| 709 |
|
|
* @throws InvalidRequest
|
| 710 |
|
|
* @throws IOException
|
| 711 |
6367
|
leinfelder
|
* @throws IllegalAccessException
|
| 712 |
|
|
* @throws InstantiationException
|
| 713 |
6270
|
leinfelder
|
*/
|
| 714 |
6367
|
leinfelder
|
private void owner(String id) throws JiBXException, InvalidToken, ServiceFailure, NotFound, NotAuthorized, NotImplemented, InvalidRequest, IOException, InstantiationException, IllegalAccessException {
|
| 715 |
6253
|
leinfelder
|
Identifier pid = new Identifier();
|
| 716 |
|
|
pid.setValue(id);
|
| 717 |
|
|
String subjectStr = params.get("subject")[0];
|
| 718 |
6367
|
leinfelder
|
Subject subject = TypeMarshaller.unmarshalTypeFromStream(Subject.class, new ByteArrayInputStream(subjectStr.getBytes("UTF-8")));
|
| 719 |
6253
|
leinfelder
|
Identifier retPid = CNodeService.getInstance().setOwner(session, pid, subject);
|
| 720 |
|
|
OutputStream out = response.getOutputStream();
|
| 721 |
|
|
response.setStatus(200);
|
| 722 |
|
|
response.setContentType("text/xml");
|
| 723 |
6367
|
leinfelder
|
TypeMarshaller.marshalTypeToOutputStream(retPid, out);
|
| 724 |
6253
|
leinfelder
|
}
|
| 725 |
|
|
|
| 726 |
6270
|
leinfelder
|
/**
|
| 727 |
|
|
* Processes the authorization check for given id
|
| 728 |
|
|
* @param id
|
| 729 |
|
|
* @return
|
| 730 |
|
|
* @throws ServiceFailure
|
| 731 |
|
|
* @throws InvalidToken
|
| 732 |
|
|
* @throws NotFound
|
| 733 |
|
|
* @throws NotAuthorized
|
| 734 |
|
|
* @throws NotImplemented
|
| 735 |
|
|
* @throws InvalidRequest
|
| 736 |
|
|
*/
|
| 737 |
6253
|
leinfelder
|
private boolean isAuthorized(String id) throws ServiceFailure, InvalidToken, NotFound, NotAuthorized, NotImplemented, InvalidRequest {
|
| 738 |
|
|
Identifier pid = new Identifier();
|
| 739 |
|
|
pid.setValue(id);
|
| 740 |
6510
|
leinfelder
|
String permission = params.get("action")[0];
|
| 741 |
6373
|
leinfelder
|
boolean result = CNodeService.getInstance().isAuthorized(session, pid, Permission.convert(permission));
|
| 742 |
6253
|
leinfelder
|
response.setStatus(200);
|
| 743 |
|
|
response.setContentType("text/xml");
|
| 744 |
|
|
return result;
|
| 745 |
|
|
}
|
| 746 |
|
|
|
| 747 |
|
|
/**
|
| 748 |
|
|
* Register System Metadata without data or metadata object
|
| 749 |
|
|
* @param pid identifier for System Metadata entry
|
| 750 |
6269
|
leinfelder
|
* @throws JiBXException
|
| 751 |
|
|
* @throws FileUploadException
|
| 752 |
|
|
* @throws IOException
|
| 753 |
|
|
* @throws InvalidRequest
|
| 754 |
|
|
* @throws ServiceFailure
|
| 755 |
|
|
* @throws InvalidSystemMetadata
|
| 756 |
|
|
* @throws NotAuthorized
|
| 757 |
|
|
* @throws NotImplemented
|
| 758 |
6367
|
leinfelder
|
* @throws IllegalAccessException
|
| 759 |
|
|
* @throws InstantiationException
|
| 760 |
6253
|
leinfelder
|
*/
|
| 761 |
6397
|
leinfelder
|
protected Identifier registerSystemMetadata(String pid) throws ServiceFailure, InvalidRequest, IOException, FileUploadException, JiBXException, NotImplemented, NotAuthorized, InvalidSystemMetadata, InstantiationException, IllegalAccessException {
|
| 762 |
6253
|
leinfelder
|
logMetacat.debug("Entering registerSystemMetadata: " + pid);
|
| 763 |
|
|
|
| 764 |
6269
|
leinfelder
|
// get the system metadata from the request
|
| 765 |
|
|
SystemMetadata systemMetadata = collectSystemMetadata();
|
| 766 |
6253
|
leinfelder
|
|
| 767 |
6269
|
leinfelder
|
Identifier guid = new Identifier();
|
| 768 |
|
|
guid.setValue(pid);
|
| 769 |
|
|
logMetacat.debug("registering system metadata with pid " + guid.getValue());
|
| 770 |
6397
|
leinfelder
|
Identifier retGuid = CNodeService.getInstance().registerSystemMetadata(session, guid, systemMetadata);
|
| 771 |
6269
|
leinfelder
|
|
| 772 |
|
|
response.setStatus(200);
|
| 773 |
|
|
response.setContentType("text/xml");
|
| 774 |
6397
|
leinfelder
|
return retGuid;
|
| 775 |
6269
|
leinfelder
|
|
| 776 |
6253
|
leinfelder
|
}
|
| 777 |
6268
|
leinfelder
|
|
| 778 |
|
|
/**
|
| 779 |
|
|
* set the access perms on a document
|
| 780 |
6270
|
leinfelder
|
* @throws JiBXException
|
| 781 |
|
|
* @throws InvalidRequest
|
| 782 |
|
|
* @throws NotImplemented
|
| 783 |
|
|
* @throws NotAuthorized
|
| 784 |
|
|
* @throws NotFound
|
| 785 |
|
|
* @throws ServiceFailure
|
| 786 |
|
|
* @throws InvalidToken
|
| 787 |
6367
|
leinfelder
|
* @throws IllegalAccessException
|
| 788 |
|
|
* @throws InstantiationException
|
| 789 |
|
|
* @throws IOException
|
| 790 |
6268
|
leinfelder
|
*/
|
| 791 |
6367
|
leinfelder
|
protected void setAccess() throws JiBXException, InvalidToken, ServiceFailure, NotFound, NotAuthorized, NotImplemented, InvalidRequest, IOException, InstantiationException, IllegalAccessException {
|
| 792 |
6270
|
leinfelder
|
|
| 793 |
|
|
String guid = params.get("guid")[0];
|
| 794 |
|
|
Identifier id = new Identifier();
|
| 795 |
|
|
id.setValue(guid);
|
| 796 |
|
|
String accesspolicy = params.get("accesspolicy")[0];
|
| 797 |
6367
|
leinfelder
|
AccessPolicy accessPolicy = TypeMarshaller.unmarshalTypeFromStream(AccessPolicy.class, new ByteArrayInputStream(accesspolicy.getBytes("UTF-8")));
|
| 798 |
6270
|
leinfelder
|
CNodeService.getInstance().setAccessPolicy(session, id, accessPolicy);
|
| 799 |
|
|
|
| 800 |
6268
|
leinfelder
|
}
|
| 801 |
|
|
|
| 802 |
|
|
/**
|
| 803 |
6282
|
leinfelder
|
* Pass to the CN search service
|
| 804 |
|
|
*
|
| 805 |
|
|
* @throws NotImplemented
|
| 806 |
|
|
* @throws InvalidRequest
|
| 807 |
|
|
* @throws NotAuthorized
|
| 808 |
|
|
* @throws ServiceFailure
|
| 809 |
|
|
* @throws InvalidToken
|
| 810 |
6268
|
leinfelder
|
* @throws Exception
|
| 811 |
|
|
*/
|
| 812 |
6282
|
leinfelder
|
private void query() throws InvalidToken, ServiceFailure, NotAuthorized, InvalidRequest, NotImplemented {
|
| 813 |
|
|
|
| 814 |
|
|
String query = null;
|
| 815 |
6397
|
leinfelder
|
String queryType = null;
|
| 816 |
6282
|
leinfelder
|
try {
|
| 817 |
|
|
query = params.get("query")[0];
|
| 818 |
|
|
} catch (Exception e) {
|
| 819 |
|
|
logMetacat.warn("query not specified");
|
| 820 |
|
|
}
|
| 821 |
|
|
try {
|
| 822 |
|
|
String qt = params.get("queryType")[0];
|
| 823 |
6397
|
leinfelder
|
queryType = qt;
|
| 824 |
6282
|
leinfelder
|
} catch (Exception e) {
|
| 825 |
|
|
logMetacat.warn("queryType not specified");
|
| 826 |
|
|
}
|
| 827 |
|
|
|
| 828 |
|
|
// expecting to throw NotImplemented
|
| 829 |
|
|
CNodeService.getInstance().search(session, queryType, query);
|
| 830 |
6268
|
leinfelder
|
}
|
| 831 |
|
|
|
| 832 |
6253
|
leinfelder
|
}
|