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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: leinfelder $'
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* '$Date: 2013-08-22 16:04:43 -0700 (Thu, 22 Aug 2013) $'
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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.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.text.DateFormat;
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import java.text.ParseException;
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import java.text.SimpleDateFormat;
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import java.util.Date;
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import java.util.Enumeration;
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import java.util.Map;
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import java.util.TimeZone;
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import java.util.concurrent.ExecutorService;
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import java.util.concurrent.Executors;
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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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import javax.xml.parsers.ParserConfigurationException;
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import org.apache.commons.fileupload.FileUploadException;
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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.client.formats.ObjectFormatInfo;
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import org.dataone.mimemultipart.MultipartRequest;
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import org.dataone.mimemultipart.MultipartRequestResolver;
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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.SynchronizationFailed;
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import org.dataone.service.exceptions.UnsupportedType;
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import org.dataone.service.types.v1.Checksum;
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import org.dataone.service.types.v1.DescribeResponse;
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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.MonitorList;
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import org.dataone.service.types.v1.Node;
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import org.dataone.service.types.v1.NodeReference;
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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.ObjectList;
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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.types.v1_1.QueryEngineDescription;
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import org.dataone.service.types.v1_1.QueryEngineList;
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import org.dataone.service.util.Constants;
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import org.dataone.service.util.DateTimeMarshaller;
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import org.dataone.service.util.ExceptionHandler;
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import org.dataone.service.util.TypeMarshaller;
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import org.jibx.runtime.JiBXException;
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import org.xml.sax.SAXException;
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import edu.ucsb.nceas.metacat.common.query.stream.ContentTypeInputStream;
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import edu.ucsb.nceas.metacat.dataone.MNodeService;
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import edu.ucsb.nceas.metacat.properties.PropertyService;
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import edu.ucsb.nceas.metacat.util.DeleteOnCloseFileInputStream;
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import edu.ucsb.nceas.utilities.PropertyNotFoundException;
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/**
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* MN REST service implementation handler
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*
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* ******************
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* MNCore -- DONE
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* ping() - GET /d1/mn/monitor/ping
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* log() - GET /d1/mn/log
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* **getObjectStatistics() - GET /d1/mn/monitor/object
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* getOperationsStatistics - GET /d1/mn/monitor/event
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* **getStatus - GET /d1/mn/monitor/status
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* getCapabilities() - GET /d1/mn/ and /d1/mn/node
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*
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* MNRead -- DONE
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* get() - GET /d1/mn/object/PID
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* getSystemMetadata() - GET /d1/mn/meta/PID
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* describe() - HEAD /d1/mn/object/PID
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* getChecksum() - GET /d1/mn/checksum/PID
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* listObjects() - GET /d1/mn/object
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* synchronizationFailed() - POST /d1/mn/error
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*
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* MNAuthorization -- DONE
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* isAuthorized() - GET /d1/mn/isAuthorized/PID
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* setAccessPolicy() - PUT /d1/mn/accessRules/PID
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*
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* MNStorage - DONE
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* create() - POST /d1/mn/object/PID
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* update() - PUT /d1/mn/object/PID
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* delete() - DELETE /d1/mn/object/PID
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* archive() - PUT /d1/mn/archive/PID
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* systemMetadataChanged() - POST /dirtySystemMetadata/PID
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*
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* MNReplication
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* replicate() - POST /d1/mn/replicate
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* getReplica() - GET /d1/mn/replica
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*
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* ******************
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* @author leinfelder
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*
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*/
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public class MNResourceHandler extends D1ResourceHandler {
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// MN-specific API Resources
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protected static final String RESOURCE_MONITOR = "monitor";
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protected static final String RESOURCE_REPLICATE = "replicate";
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protected static final String RESOURCE_REPLICAS = "replica";
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protected static final String RESOURCE_NODE = "node";
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protected static final String RESOURCE_ERROR = "error";
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protected static final String RESOURCE_META_CHANGED = "dirtySystemMetadata";
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protected static final String RESOURCE_GENERATE_ID = "generate";
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protected static final String RESOURCE_PUBLISH = "publish";
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protected static final String RESOURCE_PACKAGE = "package";
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protected static final String RESOURCE_VIEWS = "views";
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// shared executor
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private static ExecutorService executor = null;
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static {
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// use a shared executor service with nThreads == one less than available processors
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int availableProcessors = Runtime.getRuntime().availableProcessors();
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int nThreads = availableProcessors * 1;
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nThreads--;
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nThreads = Math.max(1, nThreads);
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executor = Executors.newFixedThreadPool(nThreads);
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}
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/**
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* Initializes new instance by setting servlet context,request and response
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* */
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public MNResourceHandler(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(MNResourceHandler.class);
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}
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@Override
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protected boolean isD1Enabled() {
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boolean enabled = false;
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try {
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enabled = Boolean.parseBoolean(PropertyService.getProperty("dataone.mn.services.enabled"));
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} catch (PropertyNotFoundException e) {
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logMetacat.error("Could not check if DataONE is enabled: " + e.getMessage());
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}
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return enabled;
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}
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/**
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* This function is called from REST API servlet and handles each request to the servlet
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*
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* @param httpVerb (GET, POST, PUT or DELETE)
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*/
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@Override
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public void handle(byte httpVerb) {
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// prepare the handler
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super.handle(httpVerb);
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try {
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// only service requests if we have D1 configured
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if (!isD1Enabled()) {
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ServiceFailure se = new ServiceFailure("0000", "DataONE services are not enabled on this node");
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serializeException(se, response.getOutputStream());
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return;
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}
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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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// default to node info
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if (resource.equals("")) {
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resource = RESOURCE_NODE;
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}
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// get the rest of the path info
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String extra = null;
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logMetacat.debug("handling verb " + httpVerb + " request with resource '" + resource + "'");
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logMetacat.debug("resource: '" + resource + "'");
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boolean status = false;
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if (resource != null) {
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if (resource.startsWith(RESOURCE_NODE)) {
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// node response
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node();
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status = true;
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} else if (resource.startsWith(RESOURCE_IS_AUTHORIZED)) {
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if (httpVerb == GET) {
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// after the command
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extra = parseTrailing(resource, RESOURCE_IS_AUTHORIZED);
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// check the access rules
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isAuthorized(extra);
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status = true;
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logMetacat.debug("done getting access");
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}
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} else if (resource.startsWith(RESOURCE_META)) {
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logMetacat.debug("Using resource 'meta'");
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// get
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if (httpVerb == GET) {
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// after the command
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extra = parseTrailing(resource, RESOURCE_META);
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getSystemMetadataObject(extra);
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status = true;
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}
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} else if (resource.startsWith(RESOURCE_OBJECTS)) {
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logMetacat.debug("Using resource 'object'");
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// after the command
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extra = parseTrailing(resource, RESOURCE_OBJECTS);
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logMetacat.debug("objectId: " + extra);
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logMetacat.debug("verb:" + httpVerb);
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if (httpVerb == GET) {
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getObject(extra);
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status = true;
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} else if (httpVerb == POST) {
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// part of the params, not the URL
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putObject(null, FUNCTION_NAME_INSERT);
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status = true;
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} else if (httpVerb == PUT) {
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putObject(extra, FUNCTION_NAME_UPDATE);
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status = true;
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} else if (httpVerb == DELETE) {
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deleteObject(extra);
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status = true;
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} else if (httpVerb == HEAD) {
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describeObject(extra);
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status = true;
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}
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} else if (resource.startsWith(RESOURCE_LOG)) {
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logMetacat.debug("Using resource 'log'");
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// handle log events
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if (httpVerb == GET) {
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getLog();
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status = true;
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}
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} else if (resource.startsWith(Constants.RESOURCE_ARCHIVE)) {
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logMetacat.debug("Using resource " + Constants.RESOURCE_ARCHIVE);
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// handle archive events
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if (httpVerb == PUT) {
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extra = parseTrailing(resource, Constants.RESOURCE_ARCHIVE);
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archive(extra);
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status = true;
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}
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} else if (resource.startsWith(Constants.RESOURCE_CHECKSUM)) {
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logMetacat.debug("Using resource 'checksum'");
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// handle checksum requests
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if (httpVerb == GET) {
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// after the command
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extra = parseTrailing(resource, Constants.RESOURCE_CHECKSUM);
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checksum(extra);
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status = true;
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}
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} else if (resource.startsWith(RESOURCE_MONITOR)) {
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293
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// there are various parts to monitoring
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if (httpVerb == GET) {
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// after the command
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extra = parseTrailing(resource, RESOURCE_MONITOR);
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297
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// ping
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if (extra.toLowerCase().equals("ping")) {
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logMetacat.debug("processing ping request");
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Date result = MNodeService.getInstance(request).ping();
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// TODO: send to output
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status = true;
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304
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} else {
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// health monitoring calls
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status = monitor(extra);
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}
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309
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}
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} else if (resource.startsWith(RESOURCE_REPLICATE)) {
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if (httpVerb == POST) {
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logMetacat.debug("processing replicate request");
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replicate();
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status = true;
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}
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} else if (resource.startsWith(RESOURCE_ERROR)) {
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// sync error
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if (httpVerb == POST) {
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syncError();
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status = true;
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}
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323
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} else if (resource.startsWith(RESOURCE_META_CHANGED)) {
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// system metadata changed
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325
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if (httpVerb == POST) {
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systemMetadataChanged();
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status = true;
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}
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329
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} else if (resource.startsWith(RESOURCE_REPLICAS)) {
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330
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// get replica
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331
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if (httpVerb == GET) {
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332
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extra = parseTrailing(resource, RESOURCE_REPLICAS);
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getReplica(extra);
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status = true;
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}
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336
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} else if (resource.startsWith(RESOURCE_QUERY)) {
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logMetacat.debug("Using resource " + RESOURCE_QUERY);
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// after the command
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extra = parseTrailing(resource, RESOURCE_QUERY);
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logMetacat.debug("query extra: " + extra);
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341
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342
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String engine = null;
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343
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String query = null;
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344
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345
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if (extra != null) {
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346
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// get the engine
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347
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int engineIndex = extra.length();
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348
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if (extra.indexOf("/") > -1) {
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349
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engineIndex = extra.indexOf("/");
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350
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}
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351
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engine = extra.substring(0, engineIndex);
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352
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logMetacat.debug("query engine: " + engine);
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353
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354
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// get the query if it is there
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355
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query = extra.substring(engineIndex, extra.length());
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356
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if (query != null && query.length() == 0) {
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357
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query = null;
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358
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} else {
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359
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if (query.startsWith("/")) {
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query = query.substring(1);
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361
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}
|
|
362
|
}
|
|
363
|
logMetacat.debug("query: " + query);
|
|
364
|
|
|
365
|
}
|
|
366
|
logMetacat.debug("verb:" + httpVerb);
|
|
367
|
if (httpVerb == GET) {
|
|
368
|
doQuery(engine, query);
|
|
369
|
status = true;
|
|
370
|
}
|
|
371
|
} else if (resource.startsWith(RESOURCE_GENERATE_ID)) {
|
|
372
|
// generate an id
|
|
373
|
if (httpVerb == POST) {
|
|
374
|
generateIdentifier();
|
|
375
|
status = true;
|
|
376
|
}
|
|
377
|
} else if (resource.startsWith(RESOURCE_PUBLISH)) {
|
|
378
|
logMetacat.debug("Using resource: " + RESOURCE_PUBLISH);
|
|
379
|
// PUT
|
|
380
|
if (httpVerb == PUT) {
|
|
381
|
// after the command
|
|
382
|
extra = parseTrailing(resource, RESOURCE_PUBLISH);
|
|
383
|
publish(extra);
|
|
384
|
status = true;
|
|
385
|
}
|
|
386
|
} else if (resource.startsWith(RESOURCE_PACKAGE)) {
|
|
387
|
logMetacat.debug("Using resource: " + RESOURCE_PACKAGE);
|
|
388
|
// get
|
|
389
|
if (httpVerb == GET) {
|
|
390
|
// after the command
|
|
391
|
extra = parseTrailing(resource, RESOURCE_PACKAGE);
|
|
392
|
getPackage(extra);
|
|
393
|
status = true;
|
|
394
|
}
|
|
395
|
} else if (resource.startsWith(RESOURCE_VIEWS)) {
|
|
396
|
logMetacat.debug("Using resource " + RESOURCE_VIEWS);
|
|
397
|
// after the command
|
|
398
|
extra = parseTrailing(resource, RESOURCE_VIEWS);
|
|
399
|
logMetacat.debug("view extra: " + extra);
|
|
400
|
|
|
401
|
String format = null;
|
|
402
|
String pid = null;
|
|
403
|
|
|
404
|
if (extra != null) {
|
|
405
|
// get the format
|
|
406
|
int formatIndex = extra.length();
|
|
407
|
if (extra.indexOf("/") > -1) {
|
|
408
|
formatIndex = extra.indexOf("/");
|
|
409
|
}
|
|
410
|
format = extra.substring(0, formatIndex);
|
|
411
|
logMetacat.debug("view format: " + format);
|
|
412
|
|
|
413
|
// get the pid if it is there
|
|
414
|
pid = extra.substring(formatIndex, extra.length());
|
|
415
|
if (pid != null && pid.length() == 0) {
|
|
416
|
pid = null;
|
|
417
|
} else {
|
|
418
|
if (pid.startsWith("/")) {
|
|
419
|
pid = pid.substring(1);
|
|
420
|
}
|
|
421
|
}
|
|
422
|
logMetacat.debug("pid: " + pid);
|
|
423
|
|
|
424
|
}
|
|
425
|
logMetacat.debug("verb:" + httpVerb);
|
|
426
|
if (httpVerb == GET) {
|
|
427
|
doViews(format, pid);
|
|
428
|
status = true;
|
|
429
|
}
|
|
430
|
}
|
|
431
|
|
|
432
|
if (!status) {
|
|
433
|
throw new ServiceFailure("0000", "Unknown error, status = " + status);
|
|
434
|
}
|
|
435
|
} else {
|
|
436
|
throw new InvalidRequest("0000", "No resource matched for " + resource);
|
|
437
|
}
|
|
438
|
} catch (BaseException be) {
|
|
439
|
// report Exceptions as clearly as possible
|
|
440
|
OutputStream out = null;
|
|
441
|
try {
|
|
442
|
out = response.getOutputStream();
|
|
443
|
} catch (IOException e) {
|
|
444
|
logMetacat.error("Could not get output stream from response", e);
|
|
445
|
}
|
|
446
|
serializeException(be, out);
|
|
447
|
} catch (Exception e) {
|
|
448
|
// report Exceptions as clearly and generically as possible
|
|
449
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
|
450
|
OutputStream out = null;
|
|
451
|
try {
|
|
452
|
out = response.getOutputStream();
|
|
453
|
} catch (IOException ioe) {
|
|
454
|
logMetacat.error("Could not get output stream from response", ioe);
|
|
455
|
}
|
|
456
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
|
457
|
serializeException(se, out);
|
|
458
|
}
|
|
459
|
}
|
|
460
|
|
|
461
|
|
|
462
|
private void doQuery(String engine, String query) {
|
|
463
|
|
|
464
|
OutputStream out = null;
|
|
465
|
|
|
466
|
try {
|
|
467
|
// NOTE: we set the session explicitly for the MNode instance since these methods do not provide a parameter
|
|
468
|
if (engine == null) {
|
|
469
|
// just looking for list of engines
|
|
470
|
MNodeService mnode = MNodeService.getInstance(request);
|
|
471
|
mnode.setSession(session);
|
|
472
|
QueryEngineList qel = mnode.listQueryEngines();
|
|
473
|
response.setContentType("text/xml");
|
|
474
|
response.setStatus(200);
|
|
475
|
out = response.getOutputStream();
|
|
476
|
TypeMarshaller.marshalTypeToOutputStream(qel, out);
|
|
477
|
return;
|
|
478
|
} else {
|
|
479
|
if (query != null) {
|
|
480
|
MNodeService mnode = MNodeService.getInstance(request);
|
|
481
|
mnode.setSession(session);
|
|
482
|
InputStream stream = mnode.query(engine, query);
|
|
483
|
|
|
484
|
// set the content-type if we have it from the implementation
|
|
485
|
if (stream instanceof ContentTypeInputStream) {
|
|
486
|
//response.setContentType("application/octet-stream");
|
|
487
|
//response.setContentType("text/xml");
|
|
488
|
response.setContentType(((ContentTypeInputStream) stream).getContentType());
|
|
489
|
}
|
|
490
|
response.setStatus(200);
|
|
491
|
out = response.getOutputStream();
|
|
492
|
// write the results to the output stream
|
|
493
|
IOUtils.copyLarge(stream, out);
|
|
494
|
return;
|
|
495
|
} else {
|
|
496
|
MNodeService mnode = MNodeService.getInstance(request);
|
|
497
|
mnode.setSession(session);
|
|
498
|
QueryEngineDescription qed = mnode.getQueryEngineDescription(engine);
|
|
499
|
response.setContentType("text/xml");
|
|
500
|
response.setStatus(200);
|
|
501
|
out = response.getOutputStream();
|
|
502
|
TypeMarshaller.marshalTypeToOutputStream(qed, out);
|
|
503
|
return;
|
|
504
|
}
|
|
505
|
}
|
|
506
|
|
|
507
|
|
|
508
|
} catch (BaseException be) {
|
|
509
|
// report Exceptions as clearly as possible
|
|
510
|
try {
|
|
511
|
out = response.getOutputStream();
|
|
512
|
} catch (IOException e) {
|
|
513
|
logMetacat.error("Could not get output stream from response", e);
|
|
514
|
}
|
|
515
|
serializeException(be, out);
|
|
516
|
} catch (Exception e) {
|
|
517
|
// report Exceptions as clearly and generically as possible
|
|
518
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
|
519
|
try {
|
|
520
|
out = response.getOutputStream();
|
|
521
|
} catch (IOException ioe) {
|
|
522
|
logMetacat.error("Could not get output stream from response", ioe);
|
|
523
|
}
|
|
524
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
|
525
|
serializeException(se, out);
|
|
526
|
}
|
|
527
|
}
|
|
528
|
|
|
529
|
private void doViews(String format, String pid) {
|
|
530
|
|
|
531
|
OutputStream out = null;
|
|
532
|
MNodeService mnode = MNodeService.getInstance(request);
|
|
533
|
|
|
534
|
try {
|
|
535
|
// get a list of views
|
|
536
|
if (pid != null) {
|
|
537
|
Identifier identifier = new Identifier();
|
|
538
|
identifier.setValue(pid);
|
|
539
|
InputStream stream = mnode.getView(session, identifier, format);
|
|
540
|
|
|
541
|
// set the content-type if we have it from the implementation
|
|
542
|
if (stream instanceof ContentTypeInputStream) {
|
|
543
|
response.setContentType(((ContentTypeInputStream) stream).getContentType());
|
|
544
|
}
|
|
545
|
response.setStatus(200);
|
|
546
|
out = response.getOutputStream();
|
|
547
|
// write the results to the output stream
|
|
548
|
IOUtils.copyLarge(stream, out);
|
|
549
|
return;
|
|
550
|
} else {
|
|
551
|
// TODO: list the registered views
|
|
552
|
BaseException ni = new NotImplemented("9999", "MN.listViews() is not implemented at this node");
|
|
553
|
throw ni;
|
|
554
|
}
|
|
555
|
|
|
556
|
|
|
557
|
} catch (BaseException be) {
|
|
558
|
// report Exceptions as clearly as possible
|
|
559
|
try {
|
|
560
|
out = response.getOutputStream();
|
|
561
|
} catch (IOException e) {
|
|
562
|
logMetacat.error("Could not get output stream from response", e);
|
|
563
|
}
|
|
564
|
serializeException(be, out);
|
|
565
|
} catch (Exception e) {
|
|
566
|
// report Exceptions as clearly and generically as possible
|
|
567
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
|
568
|
try {
|
|
569
|
out = response.getOutputStream();
|
|
570
|
} catch (IOException ioe) {
|
|
571
|
logMetacat.error("Could not get output stream from response", ioe);
|
|
572
|
}
|
|
573
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
|
574
|
serializeException(se, out);
|
|
575
|
}
|
|
576
|
}
|
|
577
|
|
|
578
|
/**
|
|
579
|
* Handles notification of system metadata changes for the given identifier
|
|
580
|
*
|
|
581
|
* @param id the identifier for the object
|
|
582
|
* @throws InvalidToken
|
|
583
|
* @throws InvalidRequest
|
|
584
|
* @throws NotAuthorized
|
|
585
|
* @throws ServiceFailure
|
|
586
|
* @throws NotImplemented
|
|
587
|
*/
|
|
588
|
private void systemMetadataChanged()
|
|
589
|
throws NotImplemented, ServiceFailure, NotAuthorized, InvalidRequest,
|
|
590
|
InvalidToken {
|
|
591
|
|
|
592
|
long serialVersion = 0L;
|
|
593
|
String serialVersionStr = null;
|
|
594
|
Date dateSysMetaLastModified = null;
|
|
595
|
String dateSysMetaLastModifiedStr = null;
|
|
596
|
Identifier pid = null;
|
|
597
|
|
|
598
|
// mkae sure we have the multipart params
|
|
599
|
try {
|
|
600
|
initMultipartParams();
|
|
601
|
} catch (Exception e1) {
|
|
602
|
throw new ServiceFailure("1333", "Could not collect the multipart params for the request");
|
|
603
|
}
|
|
604
|
|
|
605
|
// get the pid
|
|
606
|
try {
|
|
607
|
String id = multipartparams.get("pid").get(0);
|
|
608
|
pid = new Identifier();
|
|
609
|
pid.setValue(id);
|
|
610
|
} catch (NullPointerException e) {
|
|
611
|
String msg = "The 'pid' must be provided as a parameter and was not.";
|
|
612
|
logMetacat.error(msg);
|
|
613
|
throw new InvalidRequest("1334", msg);
|
|
614
|
}
|
|
615
|
|
|
616
|
// get the serialVersion
|
|
617
|
try {
|
|
618
|
serialVersionStr = multipartparams.get("serialVersion").get(0);
|
|
619
|
serialVersion = new Long(serialVersionStr).longValue();
|
|
620
|
|
|
621
|
} catch (NullPointerException e) {
|
|
622
|
String msg = "The 'serialVersion' must be provided as a parameter and was not.";
|
|
623
|
logMetacat.error(msg);
|
|
624
|
throw new InvalidRequest("1334", msg);
|
|
625
|
|
|
626
|
}
|
|
627
|
|
|
628
|
// get the dateSysMetaLastModified
|
|
629
|
try {
|
|
630
|
dateSysMetaLastModifiedStr = multipartparams.get("dateSysMetaLastModified").get(0);
|
|
631
|
dateSysMetaLastModified = DateTimeMarshaller.deserializeDateToUTC(dateSysMetaLastModifiedStr);
|
|
632
|
|
|
633
|
} catch (NullPointerException e) {
|
|
634
|
String msg =
|
|
635
|
"The 'dateSysMetaLastModified' must be provided as a " +
|
|
636
|
"parameter and was not, or was an invalid representation of the timestamp.";
|
|
637
|
logMetacat.error(msg);
|
|
638
|
throw new InvalidRequest("1334", msg);
|
|
639
|
|
|
640
|
}
|
|
641
|
|
|
642
|
// call the service
|
|
643
|
MNodeService.getInstance(request).systemMetadataChanged(session, pid, serialVersion, dateSysMetaLastModified);
|
|
644
|
response.setStatus(200);
|
|
645
|
}
|
|
646
|
|
|
647
|
/**
|
|
648
|
* Handles identifier generation calls
|
|
649
|
*
|
|
650
|
* @throws InvalidRequest
|
|
651
|
* @throws NotImplemented
|
|
652
|
* @throws NotAuthorized
|
|
653
|
* @throws ServiceFailure
|
|
654
|
* @throws InvalidToken
|
|
655
|
* @throws IOException
|
|
656
|
* @throws JiBXException
|
|
657
|
*/
|
|
658
|
private void generateIdentifier() throws InvalidToken, ServiceFailure, NotAuthorized, NotImplemented, InvalidRequest, IOException, JiBXException {
|
|
659
|
|
|
660
|
// make sure we have the multipart params
|
|
661
|
try {
|
|
662
|
initMultipartParams();
|
|
663
|
} catch (Exception e1) {
|
|
664
|
throw new ServiceFailure("1333", "Could not collect the multipart params for the request");
|
|
665
|
}
|
|
666
|
|
|
667
|
// get the scheme
|
|
668
|
String scheme = null;
|
|
669
|
try {
|
|
670
|
scheme = multipartparams.get("scheme").get(0);
|
|
671
|
} catch (NullPointerException e) {
|
|
672
|
String msg = "The 'scheme' parameter was not provided, using default";
|
|
673
|
logMetacat.warn(msg);
|
|
674
|
}
|
|
675
|
|
|
676
|
// get the fragment
|
|
677
|
String fragment = null;
|
|
678
|
try {
|
|
679
|
fragment = multipartparams.get("fragment").get(0);
|
|
680
|
} catch (NullPointerException e) {
|
|
681
|
String msg = "The 'fragment' parameter was not provided, using default";
|
|
682
|
logMetacat.warn(msg);
|
|
683
|
}
|
|
684
|
|
|
685
|
// call the service
|
|
686
|
Identifier identifier = MNodeService.getInstance(request).generateIdentifier(session, scheme, fragment);
|
|
687
|
response.setStatus(200);
|
|
688
|
response.setContentType("text/xml");
|
|
689
|
OutputStream out = response.getOutputStream();
|
|
690
|
TypeMarshaller.marshalTypeToOutputStream(identifier, out);
|
|
691
|
}
|
|
692
|
|
|
693
|
/**
|
|
694
|
* Checks the access policy
|
|
695
|
* @param id
|
|
696
|
* @return
|
|
697
|
* @throws ServiceFailure
|
|
698
|
* @throws InvalidToken
|
|
699
|
* @throws NotFound
|
|
700
|
* @throws NotAuthorized
|
|
701
|
* @throws NotImplemented
|
|
702
|
* @throws InvalidRequest
|
|
703
|
*/
|
|
704
|
private boolean isAuthorized(String id) throws ServiceFailure, InvalidToken, NotFound, NotAuthorized, NotImplemented, InvalidRequest {
|
|
705
|
Identifier pid = new Identifier();
|
|
706
|
pid.setValue(id);
|
|
707
|
Permission permission = null;
|
|
708
|
try {
|
|
709
|
String perm = params.get("action")[0];
|
|
710
|
permission = Permission.convert(perm);
|
|
711
|
} catch (Exception e) {
|
|
712
|
logMetacat.warn("No permission specified");
|
|
713
|
}
|
|
714
|
boolean result = MNodeService.getInstance(request).isAuthorized(session, pid, permission);
|
|
715
|
response.setStatus(200);
|
|
716
|
response.setContentType("text/xml");
|
|
717
|
return result;
|
|
718
|
}
|
|
719
|
|
|
720
|
/**
|
|
721
|
* Processes failed synchronization message
|
|
722
|
* @throws NotImplemented
|
|
723
|
* @throws ServiceFailure
|
|
724
|
* @throws NotAuthorized
|
|
725
|
* @throws InvalidRequest
|
|
726
|
* @throws JiBXException
|
|
727
|
* @throws IllegalAccessException
|
|
728
|
* @throws InstantiationException
|
|
729
|
* @throws IOException
|
|
730
|
*/
|
|
731
|
private void syncError() throws NotImplemented, ServiceFailure, NotAuthorized, InvalidRequest, JiBXException, IOException, InstantiationException, IllegalAccessException {
|
|
732
|
SynchronizationFailed syncFailed = null;
|
|
733
|
try {
|
|
734
|
syncFailed = collectSynchronizationFailed();
|
|
735
|
} catch (ParserConfigurationException e) {
|
|
736
|
throw new ServiceFailure("2161", e.getMessage());
|
|
737
|
} catch (SAXException e) {
|
|
738
|
throw new ServiceFailure("2161", e.getMessage());
|
|
739
|
}
|
|
740
|
|
|
741
|
MNodeService.getInstance(request).synchronizationFailed(session, syncFailed);
|
|
742
|
}
|
|
743
|
|
|
744
|
|
|
745
|
/**
|
|
746
|
* Handles the monitoring resources
|
|
747
|
* @return
|
|
748
|
* @throws NotFound
|
|
749
|
* @throws ParseException
|
|
750
|
* @throws NotImplemented
|
|
751
|
* @throws ServiceFailure
|
|
752
|
* @throws NotAuthorized
|
|
753
|
* @throws InvalidRequest
|
|
754
|
* @throws InsufficientResources
|
|
755
|
* @throws UnsupportedType
|
|
756
|
* @throws IOException
|
|
757
|
* @throws JiBXException
|
|
758
|
*/
|
|
759
|
private boolean monitor(String pathInfo)
|
|
760
|
throws NotFound, ParseException, NotImplemented, ServiceFailure,
|
|
761
|
NotAuthorized, InvalidRequest, InsufficientResources, UnsupportedType,
|
|
762
|
IOException, JiBXException {
|
|
763
|
logMetacat.debug("processing monitor request");
|
|
764
|
|
|
765
|
logMetacat.debug("verb is GET");
|
|
766
|
logMetacat.debug("pathInfo is " + pathInfo);
|
|
767
|
|
|
768
|
if (pathInfo.toLowerCase().equals("status")) {
|
|
769
|
logMetacat.debug("processing status request");
|
|
770
|
// TODO: implement in MNCore
|
|
771
|
//MNodeService.getInstance().getStatus();
|
|
772
|
return false;
|
|
773
|
|
|
774
|
} else if (pathInfo.toLowerCase().equals("object")) {
|
|
775
|
logMetacat.debug("processing object request");
|
|
776
|
Identifier pid = null;
|
|
777
|
ObjectFormat format = null;
|
|
778
|
if (params.containsKey("format")) {
|
|
779
|
String f = params.get("format")[0];
|
|
780
|
format = ObjectFormatCache.getInstance().getFormat(f);
|
|
781
|
}
|
|
782
|
if (params.containsKey("pid")) {
|
|
783
|
String id = params.get("pid")[0];
|
|
784
|
pid = new Identifier();
|
|
785
|
pid.setValue(id);
|
|
786
|
}
|
|
787
|
|
|
788
|
// TODO: implement in MNCore
|
|
789
|
//ObjectStatistics objectStats = MNodeService.getInstance().getObjectStatistics(format, pid);
|
|
790
|
return false;
|
|
791
|
|
|
792
|
} else if (pathInfo.toLowerCase().equals("event")) {
|
|
793
|
logMetacat.debug("processing event request");
|
|
794
|
ObjectFormatIdentifier fmtid = null;
|
|
795
|
String fromDateStr = null;
|
|
796
|
Date fromDate = null;
|
|
797
|
String toDateStr = null;
|
|
798
|
Date toDate = null;
|
|
799
|
String requestor = null;
|
|
800
|
Subject subject = null;
|
|
801
|
String eventName = null;
|
|
802
|
Event event = null;
|
|
803
|
|
|
804
|
if (params.containsKey("formatId")) {
|
|
805
|
String f = params.get("formatId")[0];
|
|
806
|
fmtid = ObjectFormatCache.getInstance().getFormat(f).getFormatId();
|
|
807
|
}
|
|
808
|
|
|
809
|
if (params.containsKey("fromDate")) {
|
|
810
|
fromDateStr = params.get("fromDate")[0];
|
|
811
|
fromDate = getDateAsUTC(fromDateStr);
|
|
812
|
}
|
|
813
|
|
|
814
|
if (params.containsKey("toDate")) {
|
|
815
|
toDateStr = params.get("toDate")[0];
|
|
816
|
toDate = getDateAsUTC(toDateStr);
|
|
817
|
}
|
|
818
|
|
|
819
|
if (params.containsKey("requestor")) {
|
|
820
|
requestor = params.get("requestor")[0];
|
|
821
|
subject = new Subject();
|
|
822
|
subject.setValue(requestor);
|
|
823
|
}
|
|
824
|
|
|
825
|
if (params.containsKey("event")) {
|
|
826
|
eventName = params.get("event")[0];
|
|
827
|
event = Event.convert(eventName);
|
|
828
|
}
|
|
829
|
|
|
830
|
MonitorList monitorList = MNodeService.getInstance(request).getOperationStatistics(session, fromDate, toDate, subject, event, fmtid);
|
|
831
|
|
|
832
|
OutputStream out = response.getOutputStream();
|
|
833
|
response.setStatus(200);
|
|
834
|
response.setContentType("text/xml");
|
|
835
|
|
|
836
|
TypeMarshaller.marshalTypeToOutputStream(monitorList, out);
|
|
837
|
|
|
838
|
return true;
|
|
839
|
|
|
840
|
}
|
|
841
|
|
|
842
|
return false;
|
|
843
|
}
|
|
844
|
|
|
845
|
/*
|
|
846
|
* Parse an ISO8601 date string, returning a Date in UTC time if the string
|
|
847
|
* ends in 'Z'.
|
|
848
|
*
|
|
849
|
* @param fromDateStr - the date string to be parsed
|
|
850
|
* @return date - the date object represented by the string
|
|
851
|
*/
|
|
852
|
private Date getDateAsUTC(String fromDateStr)
|
|
853
|
throws ParseException {
|
|
854
|
|
|
855
|
Date date = null;
|
|
856
|
|
|
857
|
try {
|
|
858
|
// try the expected date format
|
|
859
|
// a date format for date string arguments
|
|
860
|
DateFormat dateFormat =
|
|
861
|
new SimpleDateFormat("yyyy-MM-dd'T'HH:mm:ss");
|
|
862
|
|
|
863
|
date = dateFormat.parse(fromDateStr);
|
|
864
|
|
|
865
|
} catch (ParseException e) {
|
|
866
|
// try the date with the UTC indicator
|
|
867
|
DateFormat utcDateFormat =
|
|
868
|
new SimpleDateFormat("yyyy-MM-dd'T'hh:mm:ss'Z'");
|
|
869
|
utcDateFormat.setTimeZone(TimeZone.getTimeZone("GMT-0"));
|
|
870
|
date = utcDateFormat.parse(fromDateStr);
|
|
871
|
|
|
872
|
}
|
|
873
|
|
|
874
|
return date;
|
|
875
|
}
|
|
876
|
|
|
877
|
/**
|
|
878
|
* Calculate the checksum
|
|
879
|
* @throws NotImplemented
|
|
880
|
* @throws JiBXException
|
|
881
|
* @throws IOException
|
|
882
|
* @throws InvalidToken
|
|
883
|
* @throws ServiceFailure
|
|
884
|
* @throws NotAuthorized
|
|
885
|
* @throws NotFound
|
|
886
|
* @throws InvalidRequest
|
|
887
|
*/
|
|
888
|
private void checksum(String pid) throws NotImplemented, JiBXException, IOException, InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest {
|
|
889
|
String checksumAlgorithm = "MD5";
|
|
890
|
try {
|
|
891
|
checksumAlgorithm = PropertyService.getProperty("dataone.checksumAlgorithm.default");
|
|
892
|
} catch(Exception e) {
|
|
893
|
logMetacat.warn("Could not lookup configured default checksum algorithm, using: " + checksumAlgorithm);
|
|
894
|
}
|
|
895
|
|
|
896
|
Identifier pidid = new Identifier();
|
|
897
|
pidid.setValue(pid);
|
|
898
|
try {
|
|
899
|
checksumAlgorithm = params.get("checksumAlgorithm")[0];
|
|
900
|
} catch(Exception e) {
|
|
901
|
//do nothing. use the default
|
|
902
|
logMetacat.warn("No algorithm specified, using default: " + checksumAlgorithm);
|
|
903
|
}
|
|
904
|
logMetacat.debug("getting checksum for object " + pid + " with algorithm " + checksumAlgorithm);
|
|
905
|
|
|
906
|
Checksum c = MNodeService.getInstance(request).getChecksum(session, pidid, checksumAlgorithm);
|
|
907
|
logMetacat.debug("got checksum " + c.getValue());
|
|
908
|
response.setStatus(200);
|
|
909
|
logMetacat.debug("serializing response");
|
|
910
|
TypeMarshaller.marshalTypeToOutputStream(c, response.getOutputStream());
|
|
911
|
logMetacat.debug("done serializing response.");
|
|
912
|
|
|
913
|
}
|
|
914
|
|
|
915
|
/**
|
|
916
|
* handle the replicate action for MN
|
|
917
|
* @throws JiBXException
|
|
918
|
* @throws FileUploadException
|
|
919
|
* @throws IOException
|
|
920
|
* @throws InvalidRequest
|
|
921
|
* @throws ServiceFailure
|
|
922
|
* @throws UnsupportedType
|
|
923
|
* @throws InsufficientResources
|
|
924
|
* @throws NotAuthorized
|
|
925
|
* @throws NotImplemented
|
|
926
|
* @throws IllegalAccessException
|
|
927
|
* @throws InstantiationException
|
|
928
|
* @throws InvalidToken
|
|
929
|
*/
|
|
930
|
private void replicate()
|
|
931
|
throws ServiceFailure, InvalidRequest, IOException, FileUploadException,
|
|
932
|
JiBXException, NotImplemented, NotAuthorized, InsufficientResources,
|
|
933
|
UnsupportedType, InstantiationException, IllegalAccessException, InvalidToken {
|
|
934
|
|
|
935
|
logMetacat.debug("in POST replicate()");
|
|
936
|
|
|
937
|
// somewhat unorthodox, but the call is asynchronous and we'd like to return this info sooner
|
|
938
|
boolean allowed = false;
|
|
939
|
if (session == null) {
|
|
940
|
String msg = "No session was provided.";
|
|
941
|
NotAuthorized failure = new NotAuthorized("2152", msg);
|
|
942
|
throw failure;
|
|
943
|
} else {
|
|
944
|
allowed = MNodeService.getInstance(request).isAdminAuthorized(session);
|
|
945
|
if (!allowed) {
|
|
946
|
String msg = "User is not an admin user";
|
|
947
|
NotAuthorized failure = new NotAuthorized("2152", msg);
|
|
948
|
throw failure;
|
|
949
|
}
|
|
950
|
}
|
|
951
|
|
|
952
|
//parse the systemMetadata
|
|
953
|
final SystemMetadata sysmeta = collectSystemMetadata();
|
|
954
|
|
|
955
|
String sn = multipartparams.get("sourceNode").get(0);
|
|
956
|
logMetacat.debug("sourceNode: " + sn);
|
|
957
|
final NodeReference sourceNode = new NodeReference();
|
|
958
|
sourceNode.setValue(sn);
|
|
959
|
|
|
960
|
// run it in a thread to avoid connection timeout
|
|
961
|
Runnable runner = new Runnable() {
|
|
962
|
@Override
|
|
963
|
public void run() {
|
|
964
|
try {
|
|
965
|
MNodeService.getInstance(request).replicate(session, sysmeta, sourceNode);
|
|
966
|
} catch (Exception e) {
|
|
967
|
logMetacat.error("Error running replication: " + e.getMessage(), e);
|
|
968
|
throw new RuntimeException(e.getMessage(), e);
|
|
969
|
}
|
|
970
|
}
|
|
971
|
};
|
|
972
|
// submit the task, and that's it
|
|
973
|
executor.submit(runner);
|
|
974
|
|
|
975
|
// thread was started, so we return success
|
|
976
|
response.setStatus(200);
|
|
977
|
|
|
978
|
}
|
|
979
|
|
|
980
|
/**
|
|
981
|
* Handle the getReplica action for the MN
|
|
982
|
* @param id the identifier for the object
|
|
983
|
* @throws NotFound
|
|
984
|
* @throws ServiceFailure
|
|
985
|
* @throws NotImplemented
|
|
986
|
* @throws NotAuthorized
|
|
987
|
* @throws InvalidToken
|
|
988
|
* @throws InvalidRequest
|
|
989
|
*/
|
|
990
|
private void getReplica(String id)
|
|
991
|
throws InvalidRequest, InvalidToken, NotAuthorized, NotImplemented,
|
|
992
|
ServiceFailure, NotFound {
|
|
993
|
|
|
994
|
Identifier pid = new Identifier();
|
|
995
|
pid.setValue(id);
|
|
996
|
OutputStream out = null;
|
|
997
|
InputStream dataBytes = null;
|
|
998
|
|
|
999
|
try {
|
|
1000
|
// call the service
|
|
1001
|
dataBytes = MNodeService.getInstance(request).getReplica(session, pid);
|
|
1002
|
|
|
1003
|
response.setContentType("application/octet-stream");
|
|
1004
|
response.setStatus(200);
|
|
1005
|
out = response.getOutputStream();
|
|
1006
|
// write the object to the output stream
|
|
1007
|
IOUtils.copyLarge(dataBytes, out);
|
|
1008
|
|
|
1009
|
} catch (IOException e) {
|
|
1010
|
String msg = "There was an error writing the output: " + e.getMessage();
|
|
1011
|
logMetacat.error(msg);
|
|
1012
|
throw new ServiceFailure("2181", msg);
|
|
1013
|
|
|
1014
|
}
|
|
1015
|
|
|
1016
|
}
|
|
1017
|
|
|
1018
|
/**
|
|
1019
|
* Get the Node information
|
|
1020
|
*
|
|
1021
|
* @throws JiBXException
|
|
1022
|
* @throws IOException
|
|
1023
|
* @throws InvalidRequest
|
|
1024
|
* @throws ServiceFailure
|
|
1025
|
* @throws NotAuthorized
|
|
1026
|
* @throws NotImplemented
|
|
1027
|
*/
|
|
1028
|
private void node()
|
|
1029
|
throws JiBXException, IOException, NotImplemented, NotAuthorized, ServiceFailure, InvalidRequest {
|
|
1030
|
|
|
1031
|
Node n = MNodeService.getInstance(request).getCapabilities();
|
|
1032
|
|
|
1033
|
response.setContentType("text/xml");
|
|
1034
|
response.setStatus(200);
|
|
1035
|
TypeMarshaller.marshalTypeToOutputStream(n, response.getOutputStream());
|
|
1036
|
|
|
1037
|
}
|
|
1038
|
|
|
1039
|
/**
|
|
1040
|
* MN_crud.describe()
|
|
1041
|
* http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.describe
|
|
1042
|
* @param pid
|
|
1043
|
* @throws InvalidRequest
|
|
1044
|
* @throws NotImplemented
|
|
1045
|
* @throws NotFound
|
|
1046
|
* @throws NotAuthorized
|
|
1047
|
* @throws ServiceFailure
|
|
1048
|
* @throws InvalidToken
|
|
1049
|
*/
|
|
1050
|
private void describeObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, InvalidRequest
|
|
1051
|
{
|
|
1052
|
|
|
1053
|
response.setContentType("text/xml");
|
|
1054
|
|
|
1055
|
Identifier id = new Identifier();
|
|
1056
|
id.setValue(pid);
|
|
1057
|
|
|
1058
|
DescribeResponse dr = null;
|
|
1059
|
try {
|
|
1060
|
dr = MNodeService.getInstance(request).describe(session, id);
|
|
1061
|
} catch (BaseException e) {
|
|
1062
|
response.setStatus(e.getCode());
|
|
1063
|
response.addHeader("DataONE-Exception-Name", e.getClass().getName());
|
|
1064
|
response.addHeader("DataONE-Exception-DetailCode", e.getDetail_code());
|
|
1065
|
response.addHeader("DataONE-Exception-Description", e.getDescription());
|
|
1066
|
response.addHeader("DataONE-Exception-PID", id.getValue());
|
|
1067
|
return;
|
|
1068
|
}
|
|
1069
|
|
|
1070
|
response.setStatus(200);
|
|
1071
|
|
|
1072
|
//response.addHeader("pid", pid);
|
|
1073
|
response.addHeader("DataONE-Checksum", dr.getDataONE_Checksum().getAlgorithm() + "," + dr.getDataONE_Checksum().getValue());
|
|
1074
|
response.addHeader("Content-Length", dr.getContent_Length() + "");
|
|
1075
|
response.addHeader("Last-Modified", DateTimeMarshaller.serializeDateToUTC(dr.getLast_Modified()));
|
|
1076
|
response.addHeader("DataONE-ObjectFormat", dr.getDataONE_ObjectFormatIdentifier().getValue());
|
|
1077
|
response.addHeader("DataONE-SerialVersion", dr.getSerialVersion().toString());
|
|
1078
|
|
|
1079
|
|
|
1080
|
}
|
|
1081
|
|
|
1082
|
/**
|
|
1083
|
* get the logs based on passed params. Available
|
|
1084
|
* See http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.getLogRecords
|
|
1085
|
* for more info
|
|
1086
|
* @throws NotImplemented
|
|
1087
|
* @throws InvalidRequest
|
|
1088
|
* @throws NotAuthorized
|
|
1089
|
* @throws ServiceFailure
|
|
1090
|
* @throws InvalidToken
|
|
1091
|
* @throws IOException
|
|
1092
|
* @throws JiBXException
|
|
1093
|
*/
|
|
1094
|
private void getLog() throws InvalidToken, ServiceFailure, NotAuthorized, InvalidRequest, NotImplemented, IOException, JiBXException
|
|
1095
|
{
|
|
1096
|
|
|
1097
|
Date fromDate = null;
|
|
1098
|
Date toDate = null;
|
|
1099
|
Event event = null;
|
|
1100
|
Integer start = null;
|
|
1101
|
Integer count = null;
|
|
1102
|
String pidFilter = null;
|
|
1103
|
|
|
1104
|
try {
|
|
1105
|
String fromDateS = params.get("fromDate")[0];
|
|
1106
|
logMetacat.debug("param fromDateS: " + fromDateS);
|
|
1107
|
fromDate = DateTimeMarshaller.deserializeDateToUTC(fromDateS);
|
|
1108
|
} catch (Exception e) {
|
|
1109
|
logMetacat.warn("Could not parse fromDate: " + e.getMessage());
|
|
1110
|
}
|
|
1111
|
try {
|
|
1112
|
String toDateS = params.get("toDate")[0];
|
|
1113
|
logMetacat.debug("param toDateS: " + toDateS);
|
|
1114
|
toDate = DateTimeMarshaller.deserializeDateToUTC(toDateS);
|
|
1115
|
} catch (Exception e) {
|
|
1116
|
logMetacat.warn("Could not parse toDate: " + e.getMessage());
|
|
1117
|
}
|
|
1118
|
try {
|
|
1119
|
String eventS = params.get("event")[0];
|
|
1120
|
event = Event.convert(eventS);
|
|
1121
|
} catch (Exception e) {
|
|
1122
|
logMetacat.warn("Could not parse event: " + e.getMessage());
|
|
1123
|
}
|
|
1124
|
logMetacat.debug("fromDate: " + fromDate + " toDate: " + toDate);
|
|
1125
|
|
|
1126
|
try {
|
|
1127
|
start = Integer.parseInt(params.get("start")[0]);
|
|
1128
|
} catch (Exception e) {
|
|
1129
|
logMetacat.warn("Could not parse start: " + e.getMessage());
|
|
1130
|
}
|
|
1131
|
try {
|
|
1132
|
count = Integer.parseInt(params.get("count")[0]);
|
|
1133
|
} catch (Exception e) {
|
|
1134
|
logMetacat.warn("Could not parse count: " + e.getMessage());
|
|
1135
|
}
|
|
1136
|
|
|
1137
|
try {
|
|
1138
|
pidFilter = params.get("pidFilter")[0];
|
|
1139
|
} catch (Exception e) {
|
|
1140
|
logMetacat.warn("Could not parse pidFilter: " + e.getMessage());
|
|
1141
|
}
|
|
1142
|
|
|
1143
|
logMetacat.debug("calling getLogRecords");
|
|
1144
|
Log log = MNodeService.getInstance(request).getLogRecords(session, fromDate, toDate, event, pidFilter, start, count);
|
|
1145
|
|
|
1146
|
OutputStream out = response.getOutputStream();
|
|
1147
|
response.setStatus(200);
|
|
1148
|
response.setContentType("text/xml");
|
|
1149
|
|
|
1150
|
TypeMarshaller.marshalTypeToOutputStream(log, out);
|
|
1151
|
|
|
1152
|
}
|
|
1153
|
|
|
1154
|
|
|
1155
|
|
|
1156
|
/**
|
|
1157
|
* Implements REST version of DataONE CRUD API --> get
|
|
1158
|
* @param pid ID of data object to be read
|
|
1159
|
* @throws NotImplemented
|
|
1160
|
* @throws InvalidRequest
|
|
1161
|
* @throws NotFound
|
|
1162
|
* @throws NotAuthorized
|
|
1163
|
* @throws ServiceFailure
|
|
1164
|
* @throws InvalidToken
|
|
1165
|
* @throws IOException
|
|
1166
|
* @throws JiBXException
|
|
1167
|
*/
|
|
1168
|
protected void getObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, IOException, JiBXException {
|
|
1169
|
OutputStream out = null;
|
|
1170
|
|
|
1171
|
if (pid != null) { //get a specific document
|
|
1172
|
Identifier id = new Identifier();
|
|
1173
|
id.setValue(pid);
|
|
1174
|
|
|
1175
|
SystemMetadata sm = MNodeService.getInstance(request).getSystemMetadata(session, id);
|
|
1176
|
|
|
1177
|
// set the headers for the content
|
|
1178
|
String mimeType = ObjectFormatInfo.instance().getMimeType(sm.getFormatId().getValue());
|
|
1179
|
if (mimeType == null) {
|
|
1180
|
mimeType = "application/octet-stream";
|
|
1181
|
}
|
|
1182
|
String extension = ObjectFormatInfo.instance().getExtension(sm.getFormatId().getValue());
|
|
1183
|
String filename = id.getValue();
|
|
1184
|
if (extension != null) {
|
|
1185
|
filename = id.getValue() + extension;
|
|
1186
|
}
|
|
1187
|
response.setContentType(mimeType);
|
|
1188
|
response.setHeader("Content-Disposition", "inline; filename=" + filename);
|
|
1189
|
|
|
1190
|
InputStream data = MNodeService.getInstance(request).get(session, id);
|
|
1191
|
|
|
1192
|
out = response.getOutputStream();
|
|
1193
|
IOUtils.copyLarge(data, out);
|
|
1194
|
|
|
1195
|
}
|
|
1196
|
else
|
|
1197
|
{ //call listObjects with specified params
|
|
1198
|
Date startTime = null;
|
|
1199
|
Date endTime = null;
|
|
1200
|
ObjectFormatIdentifier formatId = null;
|
|
1201
|
boolean replicaStatus = true;
|
|
1202
|
int start = 0;
|
|
1203
|
//TODO: make the max count into a const
|
|
1204
|
int count = 1000;
|
|
1205
|
Enumeration paramlist = request.getParameterNames();
|
|
1206
|
while (paramlist.hasMoreElements())
|
|
1207
|
{ //parse the params and make the crud call
|
|
1208
|
String name = (String) paramlist.nextElement();
|
|
1209
|
String[] value = (String[])request.getParameterValues(name);
|
|
1210
|
|
|
1211
|
if (name.equals("fromDate") && value != null)
|
|
1212
|
{
|
|
1213
|
try
|
|
1214
|
{
|
|
1215
|
//startTime = dateFormat.parse(value[0]);
|
|
1216
|
startTime = DateTimeMarshaller.deserializeDateToUTC(value[0]);
|
|
1217
|
//startTime = parseDateAndConvertToGMT(value[0]);
|
|
1218
|
}
|
|
1219
|
catch(Exception e)
|
|
1220
|
{ //if we can't parse it, just don't use the fromDate param
|
|
1221
|
logMetacat.warn("Could not parse fromDate: " + value[0]);
|
|
1222
|
startTime = null;
|
|
1223
|
}
|
|
1224
|
}
|
|
1225
|
else if(name.equals("toDate") && value != null)
|
|
1226
|
{
|
|
1227
|
try
|
|
1228
|
{
|
|
1229
|
endTime = DateTimeMarshaller.deserializeDateToUTC(value[0]);
|
|
1230
|
}
|
|
1231
|
catch(Exception e)
|
|
1232
|
{ //if we can't parse it, just don't use the toDate param
|
|
1233
|
logMetacat.warn("Could not parse toDate: " + value[0]);
|
|
1234
|
endTime = null;
|
|
1235
|
}
|
|
1236
|
}
|
|
1237
|
else if(name.equals("formatId") && value != null)
|
|
1238
|
{
|
|
1239
|
formatId = new ObjectFormatIdentifier();
|
|
1240
|
formatId.setValue(value[0]);
|
|
1241
|
}
|
|
1242
|
else if(name.equals("replicaStatus") && value != null)
|
|
1243
|
{
|
|
1244
|
if(value != null &&
|
|
1245
|
value.length > 0 &&
|
|
1246
|
(value[0].equalsIgnoreCase("false") || value[0].equalsIgnoreCase("no")))
|
|
1247
|
{
|
|
1248
|
replicaStatus = false;
|
|
1249
|
}
|
|
1250
|
}
|
|
1251
|
else if(name.equals("start") && value != null)
|
|
1252
|
{
|
|
1253
|
start = new Integer(value[0]).intValue();
|
|
1254
|
}
|
|
1255
|
else if(name.equals("count") && value != null)
|
|
1256
|
{
|
|
1257
|
count = new Integer(value[0]).intValue();
|
|
1258
|
}
|
|
1259
|
}
|
|
1260
|
//make the crud call
|
|
1261
|
logMetacat.debug("session: " + session + " startTime: " + startTime +
|
|
1262
|
" endTime: " + endTime + " formatId: " +
|
|
1263
|
formatId + " replicaStatus: " + replicaStatus +
|
|
1264
|
" start: " + start + " count: " + count);
|
|
1265
|
|
|
1266
|
ObjectList ol =
|
|
1267
|
MNodeService.getInstance(request).listObjects(session, startTime, endTime,
|
|
1268
|
formatId, replicaStatus, start, count);
|
|
1269
|
|
|
1270
|
out = response.getOutputStream();
|
|
1271
|
response.setStatus(200);
|
|
1272
|
response.setContentType("text/xml");
|
|
1273
|
// Serialize and write it to the output stream
|
|
1274
|
TypeMarshaller.marshalTypeToOutputStream(ol, out);
|
|
1275
|
|
|
1276
|
}
|
|
1277
|
|
|
1278
|
}
|
|
1279
|
|
|
1280
|
|
|
1281
|
/**
|
|
1282
|
* Retrieve data package as Bagit zip
|
|
1283
|
* @param pid
|
|
1284
|
* @throws NotImplemented
|
|
1285
|
* @throws NotFound
|
|
1286
|
* @throws NotAuthorized
|
|
1287
|
* @throws ServiceFailure
|
|
1288
|
* @throws InvalidToken
|
|
1289
|
* @throws IOException
|
|
1290
|
*/
|
|
1291
|
protected void getPackage(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, IOException {
|
|
1292
|
|
|
1293
|
Identifier id = new Identifier();
|
|
1294
|
id.setValue(pid);
|
|
1295
|
InputStream is = MNodeService.getInstance(request).getPackage(session, id);
|
|
1296
|
|
|
1297
|
// use the provided filename
|
|
1298
|
String filename = null;
|
|
1299
|
if (is instanceof DeleteOnCloseFileInputStream) {
|
|
1300
|
filename = ((DeleteOnCloseFileInputStream)is).getFile().getName();
|
|
1301
|
} else {
|
|
1302
|
filename = "dataPackage-" + System.currentTimeMillis() + ".zip";
|
|
1303
|
}
|
|
1304
|
response.setHeader("Content-Disposition", "inline; filename=" + filename);
|
|
1305
|
response.setContentType("application/zip");
|
|
1306
|
response.setStatus(200);
|
|
1307
|
OutputStream out = response.getOutputStream();
|
|
1308
|
|
|
1309
|
// write it to the output stream
|
|
1310
|
IOUtils.copyLarge(is, out);
|
|
1311
|
}
|
|
1312
|
|
|
1313
|
protected void publish(String pid) throws InvalidToken, ServiceFailure,
|
|
1314
|
NotAuthorized, NotFound, NotImplemented, IOException,
|
|
1315
|
JiBXException, InvalidRequest, IdentifierNotUnique,
|
|
1316
|
UnsupportedType, InsufficientResources, InvalidSystemMetadata {
|
|
1317
|
|
|
1318
|
// publish the object
|
|
1319
|
Identifier originalIdentifier = new Identifier();
|
|
1320
|
originalIdentifier.setValue(pid);
|
|
1321
|
Identifier newIdentifier = MNodeService.getInstance(request).publish(session, originalIdentifier);
|
|
1322
|
|
|
1323
|
response.setStatus(200);
|
|
1324
|
response.setContentType("text/xml");
|
|
1325
|
OutputStream out = response.getOutputStream();
|
|
1326
|
|
|
1327
|
// write new identifier to the output stream
|
|
1328
|
TypeMarshaller.marshalTypeToOutputStream(newIdentifier, out);
|
|
1329
|
}
|
|
1330
|
|
|
1331
|
/**
|
|
1332
|
* Retrieve System Metadata
|
|
1333
|
* @param pid
|
|
1334
|
* @throws InvalidToken
|
|
1335
|
* @throws ServiceFailure
|
|
1336
|
* @throws NotAuthorized
|
|
1337
|
* @throws NotFound
|
|
1338
|
* @throws InvalidRequest
|
|
1339
|
* @throws NotImplemented
|
|
1340
|
* @throws IOException
|
|
1341
|
* @throws JiBXException
|
|
1342
|
*/
|
|
1343
|
protected void getSystemMetadataObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, IOException, JiBXException {
|
|
1344
|
|
|
1345
|
Identifier id = new Identifier();
|
|
1346
|
id.setValue(pid);
|
|
1347
|
SystemMetadata sysmeta = MNodeService.getInstance(request).getSystemMetadata(session, id);
|
|
1348
|
|
|
1349
|
response.setContentType("text/xml");
|
|
1350
|
response.setStatus(200);
|
|
1351
|
OutputStream out = response.getOutputStream();
|
|
1352
|
|
|
1353
|
// Serialize and write it to the output stream
|
|
1354
|
TypeMarshaller.marshalTypeToOutputStream(sysmeta, out);
|
|
1355
|
}
|
|
1356
|
|
|
1357
|
|
|
1358
|
/**
|
|
1359
|
* Inserts or updates the object
|
|
1360
|
*
|
|
1361
|
* @param pid - ID of data object to be inserted or updated. If action is update, the pid
|
|
1362
|
* is the existing pid. If insert, the pid is the new one
|
|
1363
|
* @throws InvalidRequest
|
|
1364
|
* @throws ServiceFailure
|
|
1365
|
* @throws JiBXException
|
|
1366
|
* @throws NotImplemented
|
|
1367
|
* @throws InvalidSystemMetadata
|
|
1368
|
* @throws InsufficientResources
|
|
1369
|
* @throws UnsupportedType
|
|
1370
|
* @throws IdentifierNotUnique
|
|
1371
|
* @throws NotAuthorized
|
|
1372
|
* @throws InvalidToken
|
|
1373
|
* @throws NotFound
|
|
1374
|
* @throws IOException
|
|
1375
|
* @throws IllegalAccessException
|
|
1376
|
* @throws InstantiationException
|
|
1377
|
*/
|
|
1378
|
protected void putObject(String trailingPid, String action) throws ServiceFailure, InvalidRequest, JiBXException, InvalidToken, NotAuthorized, IdentifierNotUnique, UnsupportedType, InsufficientResources, InvalidSystemMetadata, NotImplemented, NotFound, IOException, InstantiationException, IllegalAccessException {
|
|
1379
|
|
|
1380
|
// Read the incoming data from its Mime Multipart encoding
|
|
1381
|
Map<String, File> files = collectMultipartFiles();
|
|
1382
|
|
|
1383
|
Identifier pid = new Identifier();
|
|
1384
|
if (trailingPid == null) {
|
|
1385
|
// get the pid string from the body and set the value
|
|
1386
|
String pidString = multipartparams.get("pid").get(0);
|
|
1387
|
if (pidString != null) {
|
|
1388
|
pid.setValue(pidString);
|
|
1389
|
|
|
1390
|
} else {
|
|
1391
|
throw new InvalidRequest("1102", "The pid param must be included and contain the identifier.");
|
|
1392
|
|
|
1393
|
}
|
|
1394
|
} else {
|
|
1395
|
// use the pid included in the URL
|
|
1396
|
pid.setValue(trailingPid);
|
|
1397
|
}
|
|
1398
|
logMetacat.debug("putObject with pid " + pid.getValue());
|
|
1399
|
logMetacat.debug("Entering putObject: " + pid.getValue() + "/" + action);
|
|
1400
|
|
|
1401
|
InputStream object = null;
|
|
1402
|
InputStream sysmeta = null;
|
|
1403
|
File smFile = files.get("sysmeta");
|
|
1404
|
sysmeta = new FileInputStream(smFile);
|
|
1405
|
File objFile = files.get("object");
|
|
1406
|
object = new FileInputStream(objFile);
|
|
1407
|
|
|
1408
|
// ensure we have the object bytes
|
|
1409
|
if ( objFile == null ) {
|
|
1410
|
throw new InvalidRequest("1102", "The object param must contain the object bytes.");
|
|
1411
|
|
|
1412
|
}
|
|
1413
|
|
|
1414
|
// ensure we have the system metadata
|
|
1415
|
if ( smFile == null ) {
|
|
1416
|
throw new InvalidRequest("1102", "The sysmeta param must contain the system metadata document.");
|
|
1417
|
|
|
1418
|
}
|
|
1419
|
|
|
1420
|
response.setStatus(200);
|
|
1421
|
response.setContentType("text/xml");
|
|
1422
|
OutputStream out = response.getOutputStream();
|
|
1423
|
|
|
1424
|
if (action.equals(FUNCTION_NAME_INSERT)) {
|
|
1425
|
// handle inserts
|
|
1426
|
logMetacat.debug("Commence creation...");
|
|
1427
|
SystemMetadata smd = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
|
1428
|
|
|
1429
|
logMetacat.debug("creating object with pid " + pid.getValue());
|
|
1430
|
Identifier rId = MNodeService.getInstance(request).create(session, pid, object, smd);
|
|
1431
|
TypeMarshaller.marshalTypeToOutputStream(rId, out);
|
|
1432
|
|
|
1433
|
} else if (action.equals(FUNCTION_NAME_UPDATE)) {
|
|
1434
|
// handle updates
|
|
1435
|
|
|
1436
|
// construct pids
|
|
1437
|
Identifier newPid = null;
|
|
1438
|
try {
|
|
1439
|
String newPidString = multipartparams.get("newPid").get(0);
|
|
1440
|
newPid = new Identifier();
|
|
1441
|
newPid.setValue(newPidString);
|
|
1442
|
} catch (Exception e) {
|
|
1443
|
logMetacat.error("Could not get newPid from request");
|
|
1444
|
}
|
|
1445
|
logMetacat.debug("Commence update...");
|
|
1446
|
|
|
1447
|
// get the systemmetadata object
|
|
1448
|
SystemMetadata smd = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
|
1449
|
|
|
1450
|
Identifier rId = MNodeService.getInstance(request).update(session, pid, object, newPid, smd);
|
|
1451
|
TypeMarshaller.marshalTypeToOutputStream(rId, out);
|
|
1452
|
} else {
|
|
1453
|
throw new InvalidRequest("1000", "Operation must be create or update.");
|
|
1454
|
}
|
|
1455
|
|
|
1456
|
}
|
|
1457
|
|
|
1458
|
/**
|
|
1459
|
* Handle delete
|
|
1460
|
* @param pid ID of data object to be deleted
|
|
1461
|
* @throws IOException
|
|
1462
|
* @throws InvalidRequest
|
|
1463
|
* @throws NotImplemented
|
|
1464
|
* @throws NotFound
|
|
1465
|
* @throws NotAuthorized
|
|
1466
|
* @throws ServiceFailure
|
|
1467
|
* @throws InvalidToken
|
|
1468
|
* @throws JiBXException
|
|
1469
|
*/
|
|
1470
|
private void deleteObject(String pid) throws IOException, InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, InvalidRequest, JiBXException
|
|
1471
|
{
|
|
1472
|
|
|
1473
|
OutputStream out = response.getOutputStream();
|
|
1474
|
response.setStatus(200);
|
|
1475
|
response.setContentType("text/xml");
|
|
1476
|
|
|
1477
|
Identifier id = new Identifier();
|
|
1478
|
id.setValue(pid);
|
|
1479
|
|
|
1480
|
logMetacat.debug("Calling delete");
|
|
1481
|
MNodeService.getInstance(request).delete(session, id);
|
|
1482
|
TypeMarshaller.marshalTypeToOutputStream(id, out);
|
|
1483
|
|
|
1484
|
}
|
|
1485
|
|
|
1486
|
/**
|
|
1487
|
* Archives the given pid
|
|
1488
|
* @param pid
|
|
1489
|
* @throws InvalidToken
|
|
1490
|
* @throws ServiceFailure
|
|
1491
|
* @throws NotAuthorized
|
|
1492
|
* @throws NotFound
|
|
1493
|
* @throws NotImplemented
|
|
1494
|
* @throws IOException
|
|
1495
|
* @throws JiBXException
|
|
1496
|
*/
|
|
1497
|
private void archive(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, IOException, JiBXException {
|
|
1498
|
|
|
1499
|
OutputStream out = response.getOutputStream();
|
|
1500
|
response.setStatus(200);
|
|
1501
|
response.setContentType("text/xml");
|
|
1502
|
|
|
1503
|
Identifier id = new Identifier();
|
|
1504
|
id.setValue(pid);
|
|
1505
|
|
|
1506
|
logMetacat.debug("Calling archive");
|
|
1507
|
MNodeService.getInstance(request).archive(session, id);
|
|
1508
|
|
|
1509
|
TypeMarshaller.marshalTypeToOutputStream(id, out);
|
|
1510
|
|
|
1511
|
}
|
|
1512
|
|
|
1513
|
protected SynchronizationFailed collectSynchronizationFailed() throws IOException, ServiceFailure, InvalidRequest, JiBXException, InstantiationException, IllegalAccessException, ParserConfigurationException, SAXException {
|
|
1514
|
|
|
1515
|
// Read the incoming data from its Mime Multipart encoding
|
|
1516
|
logMetacat.debug("Disassembling MIME multipart form");
|
|
1517
|
InputStream sf = null;
|
|
1518
|
|
|
1519
|
// handle MMP inputs
|
|
1520
|
File tmpDir = getTempDirectory();
|
|
1521
|
logMetacat.debug("temp dir: " + tmpDir.getAbsolutePath());
|
|
1522
|
MultipartRequestResolver mrr =
|
|
1523
|
new MultipartRequestResolver(tmpDir.getAbsolutePath(), 1000000000, 0);
|
|
1524
|
MultipartRequest mr = null;
|
|
1525
|
try {
|
|
1526
|
mr = mrr.resolveMultipart(request);
|
|
1527
|
} catch (Exception e) {
|
|
1528
|
throw new ServiceFailure("2161",
|
|
1529
|
"Could not resolve multipart: " + e.getMessage());
|
|
1530
|
}
|
|
1531
|
logMetacat.debug("resolved multipart request");
|
|
1532
|
Map<String, File> files = mr.getMultipartFiles();
|
|
1533
|
if (files == null || files.keySet() == null) {
|
|
1534
|
throw new InvalidRequest("2163",
|
|
1535
|
"must have multipart file with name 'message'");
|
|
1536
|
}
|
|
1537
|
logMetacat.debug("got multipart files");
|
|
1538
|
|
|
1539
|
multipartparams = mr.getMultipartParameters();
|
|
1540
|
|
|
1541
|
File sfFile = files.get("message");
|
|
1542
|
if (sfFile == null) {
|
|
1543
|
throw new InvalidRequest("2163",
|
|
1544
|
"Missing the required file-part 'message' from the multipart request.");
|
|
1545
|
}
|
|
1546
|
logMetacat.debug("sfFile: " + sfFile.getAbsolutePath());
|
|
1547
|
sf = new FileInputStream(sfFile);
|
|
1548
|
|
|
1549
|
SynchronizationFailed syncFailed = (SynchronizationFailed) ExceptionHandler.deserializeXml(sf, "Error deserializing exception");
|
|
1550
|
return syncFailed;
|
|
1551
|
}
|
|
1552
|
|
|
1553
|
}
|