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/**
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 *  '$RCSfile$'
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 *  Copyright: 2000-2011 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.dataone;
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import java.io.IOException;
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import java.io.InputStream;
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import java.math.BigInteger;
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import java.security.NoSuchAlgorithmException;
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import java.sql.SQLException;
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import java.util.Calendar;
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import java.util.Date;
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import java.util.List;
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import java.util.Timer;
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import javax.servlet.http.HttpServletRequest;
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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.CNode;
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import org.dataone.client.D1Client;
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import org.dataone.client.MNode;
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import org.dataone.client.auth.CertificateManager;
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import org.dataone.configuration.Settings;
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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.mn.tier1.v1.MNCore;
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import org.dataone.service.mn.tier1.v1.MNRead;
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import org.dataone.service.mn.tier2.v1.MNAuthorization;
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import org.dataone.service.mn.tier3.v1.MNStorage;
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import org.dataone.service.mn.tier4.v1.MNReplication;
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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.Group;
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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.LogEntry;
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import org.dataone.service.types.v1.MonitorInfo;
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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.NodeList;
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import org.dataone.service.types.v1.NodeReference;
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import org.dataone.service.types.v1.NodeState;
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import org.dataone.service.types.v1.NodeType;
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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.Ping;
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import org.dataone.service.types.v1.ReplicationStatus;
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import org.dataone.service.types.v1.Schedule;
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import org.dataone.service.types.v1.Service;
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import org.dataone.service.types.v1.Services;
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import org.dataone.service.types.v1.Session;
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import org.dataone.service.types.v1.Subject;
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import org.dataone.service.types.v1.Synchronization;
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import org.dataone.service.types.v1.SystemMetadata;
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import org.dataone.service.types.v1.util.ChecksumUtil;
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import org.dataone.service.util.Constants;
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import edu.ucsb.nceas.metacat.DocumentImpl;
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import edu.ucsb.nceas.metacat.EventLog;
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import edu.ucsb.nceas.metacat.IdentifierManager;
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import edu.ucsb.nceas.metacat.McdbDocNotFoundException;
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import edu.ucsb.nceas.metacat.MetacatHandler;
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import edu.ucsb.nceas.metacat.client.InsufficientKarmaException;
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import edu.ucsb.nceas.metacat.dataone.hazelcast.HazelcastService;
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import edu.ucsb.nceas.metacat.properties.PropertyService;
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import edu.ucsb.nceas.metacat.util.SystemUtil;
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import edu.ucsb.nceas.utilities.PropertyNotFoundException;
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/**
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 * Represents Metacat's implementation of the DataONE Member Node 
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 * service API. Methods implement the various MN* interfaces, and methods common
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 * to both Member Node and Coordinating Node interfaces are found in the
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 * D1NodeService base class.
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 * 
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 * Implements:
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 * MNCore.ping()
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 * MNCore.getLogRecords()
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 * MNCore.getObjectStatistics()
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 * MNCore.getOperationStatistics()
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 * MNCore.getStatus()
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 * MNCore.getCapabilities()
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 * MNRead.get()
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 * MNRead.getSystemMetadata()
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 * MNRead.describe()
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 * MNRead.getChecksum()
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 * MNRead.listObjects()
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 * MNRead.synchronizationFailed()
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 * MNAuthorization.isAuthorized()
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 * MNAuthorization.setAccessPolicy()
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 * MNStorage.create()
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 * MNStorage.update()
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 * MNStorage.delete()
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 * MNReplication.replicate()
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 * 
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 */
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public class MNodeService extends D1NodeService 
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    implements MNAuthorization, MNCore, MNRead, MNReplication, MNStorage {
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    /* the logger instance */
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    private Logger logMetacat = null;
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    /* A reference to a remote Memeber Node */
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    private MNode mn;
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    /* A reference to a Coordinating Node */
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    private CNode cn;
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    /**
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     * Singleton accessor to get an instance of MNodeService.
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     * 
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     * @return instance - the instance of MNodeService
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     */
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    public static MNodeService getInstance(HttpServletRequest request) {
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        return new MNodeService(request);
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    }
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    /**
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     * Constructor, private for singleton access
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     */
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    private MNodeService(HttpServletRequest request) {
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        super(request);
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        logMetacat = Logger.getLogger(MNodeService.class);
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        // set the Member Node certificate file location
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        CertificateManager.getInstance().setCertificateLocation(Settings.getConfiguration().getString("D1Client.certificate.file"));
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    }
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    /**
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     * Deletes an object from the Member Node, where the object is either a 
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     * data object or a science metadata object.
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     * 
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     * @param session - the Session object containing the credentials for the Subject
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     * @param pid - The object identifier to be deleted
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     * 
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     * @return pid - the identifier of the object used for the deletion
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     * 
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     * @throws InvalidToken
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     * @throws ServiceFailure
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     * @throws NotAuthorized
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     * @throws NotFound
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     * @throws NotImplemented
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     * @throws InvalidRequest
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     */
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    @Override
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    public Identifier delete(Session session, Identifier pid) 
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        throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented {
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    	// defer to superclass implementation
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        return super.delete(session, pid);
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    }
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    /**
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     * Updates an existing object by creating a new object identified by 
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     * newPid on the Member Node which explicitly obsoletes the object 
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     * identified by pid through appropriate changes to the SystemMetadata 
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     * of pid and newPid
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     * 
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     * @param session - the Session object containing the credentials for the Subject
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     * @param pid - The identifier of the object to be updated
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     * @param object - the new object bytes
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     * @param sysmeta - the new system metadata describing the object
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     * 
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     * @return newPid - the identifier of the new object
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     * 
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     * @throws InvalidToken
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     * @throws ServiceFailure
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     * @throws NotAuthorized
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     * @throws NotFound
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     * @throws NotImplemented
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     * @throws IdentifierNotUnique
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     * @throws UnsupportedType
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     * @throws InsufficientResources
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     * @throws InvalidSystemMetadata
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     * @throws InvalidRequest
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     */
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    @Override
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    public Identifier update(Session session, Identifier pid, InputStream object, 
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        Identifier newPid, SystemMetadata sysmeta) 
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        throws InvalidToken, ServiceFailure, NotAuthorized, IdentifierNotUnique, 
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        UnsupportedType, InsufficientResources, NotFound, 
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        InvalidSystemMetadata, NotImplemented, InvalidRequest {
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        String localId = null;
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        boolean allowed = false;
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        boolean isScienceMetadata = false;
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        if (session == null) {
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        	throw new InvalidToken("1210", "No session has been provided");
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        }
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        Subject subject = session.getSubject();
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        // do we have a valid pid?
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        if (pid == null || pid.getValue().trim().equals("")) {
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            throw new InvalidRequest("1202", "The provided identifier was invalid.");
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        }
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        // check for the existing identifier
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        try {
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            localId = IdentifierManager.getInstance().getLocalId(pid.getValue());
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        } catch (McdbDocNotFoundException e) {
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            throw new InvalidRequest("1202", "The object with the provided " + 
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                "identifier was not found.");
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        }
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        // set the originating node
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        NodeReference originMemberNode = this.getCapabilities().getIdentifier();
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        sysmeta.setOriginMemberNode(originMemberNode);
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        // set the submitter to match the certificate
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        sysmeta.setSubmitter(subject);
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        // set the dates
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        Date now = Calendar.getInstance().getTime();
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        sysmeta.setDateSysMetadataModified(now);
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        sysmeta.setDateUploaded(now);
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        // does the subject have WRITE ( == update) priveleges on the pid?
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        allowed = isAuthorized(session, pid, Permission.WRITE);
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        if (allowed) {
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        	// check quality of SM
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        	if (sysmeta.getObsoletedBy() != null) {
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        		throw new InvalidSystemMetadata("1300", "Cannot include obsoletedBy when updating object");
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        	}
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        	if (sysmeta.getObsoletes() != null && !sysmeta.getObsoletes().getValue().equals(pid.getValue())) {
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        		throw new InvalidSystemMetadata("1300", "The identifier provided in obsoletes does not match old Identifier");
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        	}
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            // get the existing system metadata for the object
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            SystemMetadata existingSysMeta = getSystemMetadata(session, pid);
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            // add the newPid to the obsoletedBy list for the existing sysmeta
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            existingSysMeta.setObsoletedBy(newPid);
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            // then update the existing system metadata
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            updateSystemMetadata(existingSysMeta);
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            // prep the new system metadata, add pid to the affected lists
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            sysmeta.setObsoletes(pid);
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            //sysmeta.addDerivedFrom(pid);
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            isScienceMetadata = isScienceMetadata(sysmeta);
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            // do we have XML metadata or a data object?
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            if (isScienceMetadata) {
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                // update the science metadata XML document
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                // TODO: handle non-XML metadata/data documents (like netCDF)
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                // TODO: don't put objects into memory using stream to string
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                String objectAsXML = "";
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                try {
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                    objectAsXML = IOUtils.toString(object, "UTF-8");
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                    localId = insertOrUpdateDocument(objectAsXML, newPid, session, "update");
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                    // register the newPid and the generated localId
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                    if (newPid != null) {
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                        IdentifierManager.getInstance().createMapping(newPid.getValue(), localId);
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                    }
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                } catch (IOException e) {
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                    String msg = "The Node is unable to create the object. " + "There was a problem converting the object to XML";
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                    logMetacat.info(msg);
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                    throw new ServiceFailure("1310", msg + ": " + e.getMessage());
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                }
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            } else {
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                // update the data object
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                localId = insertDataObject(object, newPid, session);
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            }
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            // and insert the new system metadata
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            insertSystemMetadata(sysmeta);
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            // log the update event
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            EventLog.getInstance().log(request.getRemoteAddr(), request.getHeader("User-Agent"), subject.getValue(), localId, Event.UPDATE.toString());
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        } else {
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            throw new NotAuthorized("1200", "The provided identity does not have " + "permission to UPDATE the object identified by " + pid.getValue()
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                    + " on the Member Node.");
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        }
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        return newPid;
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    }
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    public Identifier create(Session session, Identifier pid, InputStream object, SystemMetadata sysmeta) throws InvalidToken, ServiceFailure, NotAuthorized,
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            IdentifierNotUnique, UnsupportedType, InsufficientResources, InvalidSystemMetadata, NotImplemented, InvalidRequest {
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        // check for null session
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        if (session == null) {
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          throw new InvalidToken("1110", "Session is required to WRITE to the Node.");
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        }
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        // set the submitter to match the certificate
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        sysmeta.setSubmitter(session.getSubject());
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        // set the originating node
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        NodeReference originMemberNode = this.getCapabilities().getIdentifier();
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        sysmeta.setOriginMemberNode(originMemberNode);
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        sysmeta.setArchived(false);
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        // set the dates
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        Date now = Calendar.getInstance().getTime();
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        sysmeta.setDateSysMetadataModified(now);
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        sysmeta.setDateUploaded(now);
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        // set the serial version
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        sysmeta.setSerialVersion(BigInteger.ZERO);
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        // call the shared impl
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        return super.create(session, pid, object, sysmeta);
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    }
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    /**
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     * Called by a Coordinating Node to request that the Member Node create a 
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     * copy of the specified object by retrieving it from another Member 
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     * Node and storing it locally so that it can be made accessible to 
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     * the DataONE system.
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     * 
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     * @param session - the Session object containing the credentials for the Subject
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     * @param sysmeta - Copy of the CN held system metadata for the object
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     * @param sourceNode - A reference to node from which the content should be 
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     *                     retrieved. The reference should be resolved by 
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     *                     checking the CN node registry.
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     * 
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     * @return true if the replication succeeds
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     * 
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     * @throws ServiceFailure
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     * @throws NotAuthorized
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     * @throws NotImplemented
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     * @throws UnsupportedType
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     * @throws InsufficientResources
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     * @throws InvalidRequest
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     */
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    @Override
372
    public boolean replicate(Session session, SystemMetadata sysmeta,
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            NodeReference sourceNode) throws NotImplemented, ServiceFailure,
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            NotAuthorized, InvalidRequest, InsufficientResources,
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            UnsupportedType {
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377
        if (session != null && sysmeta != null && sourceNode != null) {
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            logMetacat.info("MNodeService.replicate() called with parameters: \n" +
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                            "\tSession.Subject      = "                           +
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                            session.getSubject().getValue() + "\n"                +
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                            "\tidentifier           = "                           + 
382
                            sysmeta.getIdentifier().getValue()                    +
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                            "\n" + "\tSource NodeReference ="                     +
384
                            sourceNode.getValue());
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        }
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        boolean result = false;
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        String nodeIdStr = null;
388
        NodeReference nodeId = null;
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390
        // get the referenced object
391
        Identifier pid = sysmeta.getIdentifier();
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        // get from the membernode
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        // TODO: switch credentials for the server retrieval?
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        this.mn = D1Client.getMN(sourceNode);
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        this.cn = D1Client.getCN();
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        InputStream object = null;
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        Session thisNodeSession = null;
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        SystemMetadata localSystemMetadata = null;
400
        BaseException failure = null;
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        String localId = null;
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403
        // TODO: check credentials
404
        // cannot be called by public
405
        if (session == null || session.getSubject() == null) {
406
            String msg = "No session was provided to replicate identifier " +
407
            sysmeta.getIdentifier().getValue();
408
            failure = new NotAuthorized("2152", msg);
409
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
410
            logMetacat.info(msg);
411
            return true;
412
        }
413

    
414

    
415
        // get the local node id
416
        try {
417
            nodeIdStr = PropertyService.getProperty("dataone.nodeId");
418
            nodeId = new NodeReference();
419
            nodeId.setValue(nodeIdStr);
420

    
421
        } catch (PropertyNotFoundException e1) {
422
            String msg = "Couldn't get dataone.nodeId property: " + e1.getMessage();
423
            failure = new ServiceFailure("2151", msg);
424
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
425
            logMetacat.error(msg);
426
            return true;
427

    
428
        }
429
        
430

    
431
        try {
432
            // do we already have a replica?
433
            try {
434
                localId = IdentifierManager.getInstance().getLocalId(pid.getValue());
435

    
436
                String msg = "Can't read the object bytes properly, replica is invalid.";
437
                ServiceFailure serviceFailure = new ServiceFailure("2151", msg);
438
                
439
                // if we have a local id, get the local object
440
                try {
441
                    object = MetacatHandler.read(localId);
442
                    
443
                } catch (Exception e) {
444
                    // let the CN know that the replication failed
445
                    setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, serviceFailure);  
446
                    throw serviceFailure;
447
                    
448
                }
449

    
450
            } catch (McdbDocNotFoundException e) {
451
                logMetacat.info("No replica found. Continuing.");
452
                
453
            }
454
            
455
            // no local replica, get a replica
456
            if ( object == null ) {
457
                // session should be null to use the default certificate
458
                // location set in the Certificate manager
459
                object = mn.getReplica(thisNodeSession, pid);
460
                logMetacat.info("MNodeService.getReplica() called for identifier "
461
                                + pid.getValue());
462

    
463
            }
464

    
465
        } catch (InvalidToken e) {            
466
            String msg = "Could not retrieve object to replicate (InvalidToken): "+ e.getMessage();
467
            failure = new ServiceFailure("2151", msg);
468
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
469
            logMetacat.error(msg);
470
            throw new ServiceFailure("2151", msg);
471

    
472
        } catch (NotFound e) {
473
            String msg = "Could not retrieve object to replicate (NotFound): "+ e.getMessage();
474
            failure = new ServiceFailure("2151", msg);
475
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
476
            logMetacat.error(msg);
477
            throw new ServiceFailure("2151", msg);
478

    
479
        }
480

    
481
        // verify checksum on the object, if supported
482
        if (object.markSupported()) {
483
            Checksum givenChecksum = sysmeta.getChecksum();
484
            Checksum computedChecksum = null;
485
            try {
486
                computedChecksum = ChecksumUtil.checksum(object,
487
                        givenChecksum.getAlgorithm());
488
                object.reset();
489

    
490
            } catch (Exception e) {
491
                String msg = "Error computing checksum on replica: "
492
                        + e.getMessage();
493
                ServiceFailure sf = new ServiceFailure("2151", msg);
494
                sf.initCause(e);
495
                throw sf;
496
            }
497
            if (!givenChecksum.getValue().equals(computedChecksum.getValue())) {
498
                logMetacat.debug("Given    checksum for " + pid.getValue() + 
499
                    "is " + givenChecksum.getValue());
500
                logMetacat.debug("Computed checksum for " + pid.getValue() + 
501
                    "is " + computedChecksum.getValue());
502
                throw new ServiceFailure("2151",
503
                        "Computed checksum does not match declared checksum");
504
            }
505
        }
506

    
507
        // add it to local store
508
        Identifier retPid;
509
        try {
510
            // skip the MN.create -- this mutates the system metadata and we
511
            // dont want it to
512
            if ( localId == null ) {
513
                
514
                retPid = super.create(session, pid, object, sysmeta);
515
                result = (retPid.getValue().equals(pid.getValue()));
516
            }
517
            
518
        } catch (InvalidToken e) {
519
            String msg = "Could not save object to local store (InvalidToken): " + e.getMessage();
520
            failure = new ServiceFailure("2151", msg);
521
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
522
            logMetacat.error(msg);
523
            throw new ServiceFailure("2151", msg);
524
        
525
        } catch (IdentifierNotUnique e) {
526
            String msg = "Could not save object to local store (IdentifierNotUnique): " + e.getMessage();
527
            failure = new ServiceFailure("2151", msg);
528
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
529
            logMetacat.error(msg);
530
            throw new ServiceFailure("2151", msg);
531
        
532
        } catch (InvalidSystemMetadata e) {
533
            String msg = "Could not save object to local store (InvalidSystemMetadata): " + e.getMessage();
534
            failure = new ServiceFailure("2151", msg);
535
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
536
            logMetacat.error(msg);
537
            throw new ServiceFailure("2151", msg);
538
            
539
        }
540

    
541
        // finish by setting the replication status
542
        setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.COMPLETED, null);
543
        return result;
544

    
545
    }
546

    
547
    /**
548
     * Return the object identified by the given object identifier
549
     * 
550
     * @param session - the Session object containing the credentials for the Subject
551
     * @param pid - the object identifier for the given object
552
     * 
553
     * @return inputStream - the input stream of the given object
554
     * 
555
     * @throws InvalidToken
556
     * @throws ServiceFailure
557
     * @throws NotAuthorized
558
     * @throws InvalidRequest
559
     * @throws NotImplemented
560
     */
561
    @Override
562
    public InputStream get(Session session, Identifier pid) 
563
    throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented {
564

    
565
        return super.get(session, pid);
566

    
567
    }
568

    
569
    /**
570
     * Returns a Checksum for the specified object using an accepted hashing algorithm
571
     * 
572
     * @param session - the Session object containing the credentials for the Subject
573
     * @param pid - the object identifier for the given object
574
     * @param algorithm -  the name of an algorithm that will be used to compute 
575
     *                     a checksum of the bytes of the object
576
     * 
577
     * @return checksum - the checksum of the given object
578
     * 
579
     * @throws InvalidToken
580
     * @throws ServiceFailure
581
     * @throws NotAuthorized
582
     * @throws NotFound
583
     * @throws InvalidRequest
584
     * @throws NotImplemented
585
     */
586
    @Override
587
    public Checksum getChecksum(Session session, Identifier pid, String algorithm) 
588
        throws InvalidToken, ServiceFailure, NotAuthorized, NotFound,
589
        InvalidRequest, NotImplemented {
590

    
591
        Checksum checksum = null;
592

    
593
        InputStream inputStream = get(session, pid);
594

    
595
        try {
596
            checksum = ChecksumUtil.checksum(inputStream, algorithm);
597

    
598
        } catch (NoSuchAlgorithmException e) {
599
            throw new ServiceFailure("1410", "The checksum for the object specified by " + pid.getValue() + "could not be returned due to an internal error: "
600
                    + e.getMessage());
601
        } catch (IOException e) {
602
            throw new ServiceFailure("1410", "The checksum for the object specified by " + pid.getValue() + "could not be returned due to an internal error: "
603
                    + e.getMessage());
604
        }
605

    
606
        if (checksum == null) {
607
            throw new ServiceFailure("1410", "The checksum for the object specified by " + pid.getValue() + "could not be returned.");
608
        }
609

    
610
        return checksum;
611
    }
612

    
613
    /**
614
     * Return the system metadata for a given object
615
     * 
616
     * @param session - the Session object containing the credentials for the Subject
617
     * @param pid - the object identifier for the given object
618
     * 
619
     * @return inputStream - the input stream of the given system metadata object
620
     * 
621
     * @throws InvalidToken
622
     * @throws ServiceFailure
623
     * @throws NotAuthorized
624
     * @throws NotFound
625
     * @throws InvalidRequest
626
     * @throws NotImplemented
627
     */
628
    @Override
629
    public SystemMetadata getSystemMetadata(Session session, Identifier pid) 
630
        throws InvalidToken, ServiceFailure, NotAuthorized, NotFound,
631
        NotImplemented {
632

    
633
        return super.getSystemMetadata(session, pid);
634
    }
635

    
636
    /**
637
     * Retrieve the list of objects present on the MN that match the calling parameters
638
     * 
639
     * @param session - the Session object containing the credentials for the Subject
640
     * @param startTime - Specifies the beginning of the time range from which 
641
     *                    to return object (>=)
642
     * @param endTime - Specifies the beginning of the time range from which 
643
     *                  to return object (>=)
644
     * @param objectFormat - Restrict results to the specified object format
645
     * @param replicaStatus - Indicates if replicated objects should be returned in the list
646
     * @param start - The zero-based index of the first value, relative to the 
647
     *                first record of the resultset that matches the parameters.
648
     * @param count - The maximum number of entries that should be returned in 
649
     *                the response. The Member Node may return less entries 
650
     *                than specified in this value.
651
     * 
652
     * @return objectList - the list of objects matching the criteria
653
     * 
654
     * @throws InvalidToken
655
     * @throws ServiceFailure
656
     * @throws NotAuthorized
657
     * @throws InvalidRequest
658
     * @throws NotImplemented
659
     */
660
    @Override
661
    public ObjectList listObjects(Session session, Date startTime, Date endTime, ObjectFormatIdentifier objectFormatId, Boolean replicaStatus, Integer start,
662
            Integer count) throws NotAuthorized, InvalidRequest, NotImplemented, ServiceFailure, InvalidToken {
663

    
664
        ObjectList objectList = null;
665

    
666
        try {
667
            objectList = IdentifierManager.getInstance().querySystemMetadata(startTime, endTime, objectFormatId, replicaStatus, start, count);
668
        } catch (Exception e) {
669
            throw new ServiceFailure("1580", "Error querying system metadata: " + e.getMessage());
670
        }
671

    
672
        return objectList;
673
    }
674

    
675
    /**
676
     * Return a description of the node's capabilities and services.
677
     * 
678
     * @return node - the technical capabilities of the Member Node
679
     * 
680
     * @throws ServiceFailure
681
     * @throws NotAuthorized
682
     * @throws InvalidRequest
683
     * @throws NotImplemented
684
     */
685
    @Override
686
    public Node getCapabilities() 
687
        throws NotImplemented, ServiceFailure {
688

    
689
        String nodeName = null;
690
        String nodeId = null;
691
        String subject = null;
692
        String contactSubject = null;
693
        String nodeDesc = null;
694
        String nodeTypeString = null;
695
        NodeType nodeType = null;
696
        String mnCoreServiceVersion = null;
697
        String mnReadServiceVersion = null;
698
        String mnAuthorizationServiceVersion = null;
699
        String mnStorageServiceVersion = null;
700
        String mnReplicationServiceVersion = null;
701

    
702
        boolean nodeSynchronize = false;
703
        boolean nodeReplicate = false;
704
        boolean mnCoreServiceAvailable = false;
705
        boolean mnReadServiceAvailable = false;
706
        boolean mnAuthorizationServiceAvailable = false;
707
        boolean mnStorageServiceAvailable = false;
708
        boolean mnReplicationServiceAvailable = false;
709

    
710
        try {
711
            // get the properties of the node based on configuration information
712
            nodeName = PropertyService.getProperty("dataone.nodeName");
713
            nodeId = PropertyService.getProperty("dataone.nodeId");
714
            subject = PropertyService.getProperty("dataone.subject");
715
            contactSubject = PropertyService.getProperty("dataone.contactSubject");
716
            nodeDesc = PropertyService.getProperty("dataone.nodeDescription");
717
            nodeTypeString = PropertyService.getProperty("dataone.nodeType");
718
            nodeType = NodeType.convert(nodeTypeString);
719
            nodeSynchronize = new Boolean(PropertyService.getProperty("dataone.nodeSynchronize")).booleanValue();
720
            nodeReplicate = new Boolean(PropertyService.getProperty("dataone.nodeReplicate")).booleanValue();
721

    
722
            mnCoreServiceVersion = PropertyService.getProperty("dataone.mnCore.serviceVersion");
723
            mnReadServiceVersion = PropertyService.getProperty("dataone.mnRead.serviceVersion");
724
            mnAuthorizationServiceVersion = PropertyService.getProperty("dataone.mnAuthorization.serviceVersion");
725
            mnStorageServiceVersion = PropertyService.getProperty("dataone.mnStorage.serviceVersion");
726
            mnReplicationServiceVersion = PropertyService.getProperty("dataone.mnReplication.serviceVersion");
727

    
728
            mnCoreServiceAvailable = new Boolean(PropertyService.getProperty("dataone.mnCore.serviceAvailable")).booleanValue();
729
            mnReadServiceAvailable = new Boolean(PropertyService.getProperty("dataone.mnRead.serviceAvailable")).booleanValue();
730
            mnAuthorizationServiceAvailable = new Boolean(PropertyService.getProperty("dataone.mnAuthorization.serviceAvailable")).booleanValue();
731
            mnStorageServiceAvailable = new Boolean(PropertyService.getProperty("dataone.mnStorage.serviceAvailable")).booleanValue();
732
            mnReplicationServiceAvailable = new Boolean(PropertyService.getProperty("dataone.mnReplication.serviceAvailable")).booleanValue();
733

    
734
            // Set the properties of the node based on configuration information and
735
            // calls to current status methods
736
            String serviceName = SystemUtil.getContextURL() + "/" + PropertyService.getProperty("dataone.serviceName");
737
            Node node = new Node();
738
            node.setBaseURL(serviceName + "/" + nodeTypeString);
739
            node.setDescription(nodeDesc);
740

    
741
            // set the node's health information
742
            node.setState(NodeState.UP);
743
            
744
            // set the ping response to the current value
745
            Ping canPing = new Ping();
746
            canPing.setSuccess(false);
747
            try {
748
            	Date pingDate = ping();
749
                canPing.setSuccess(pingDate != null);
750
            } catch (BaseException e) {
751
                e.printStackTrace();
752
                // guess it can't be pinged
753
            }
754
            
755
            node.setPing(canPing);
756

    
757
            NodeReference identifier = new NodeReference();
758
            identifier.setValue(nodeId);
759
            node.setIdentifier(identifier);
760
            Subject s = new Subject();
761
            s.setValue(subject);
762
            node.addSubject(s);
763
            Subject contact = new Subject();
764
            contact.setValue(contactSubject);
765
            node.addContactSubject(contact);
766
            node.setName(nodeName);
767
            node.setReplicate(nodeReplicate);
768
            node.setSynchronize(nodeSynchronize);
769

    
770
            // services: MNAuthorization, MNCore, MNRead, MNReplication, MNStorage
771
            Services services = new Services();
772

    
773
            Service sMNCore = new Service();
774
            sMNCore.setName("MNCore");
775
            sMNCore.setVersion(mnCoreServiceVersion);
776
            sMNCore.setAvailable(mnCoreServiceAvailable);
777

    
778
            Service sMNRead = new Service();
779
            sMNRead.setName("MNRead");
780
            sMNRead.setVersion(mnReadServiceVersion);
781
            sMNRead.setAvailable(mnReadServiceAvailable);
782

    
783
            Service sMNAuthorization = new Service();
784
            sMNAuthorization.setName("MNAuthorization");
785
            sMNAuthorization.setVersion(mnAuthorizationServiceVersion);
786
            sMNAuthorization.setAvailable(mnAuthorizationServiceAvailable);
787

    
788
            Service sMNStorage = new Service();
789
            sMNStorage.setName("MNStorage");
790
            sMNStorage.setVersion(mnStorageServiceVersion);
791
            sMNStorage.setAvailable(mnStorageServiceAvailable);
792

    
793
            Service sMNReplication = new Service();
794
            sMNReplication.setName("MNReplication");
795
            sMNReplication.setVersion(mnReplicationServiceVersion);
796
            sMNReplication.setAvailable(mnReplicationServiceAvailable);
797

    
798
            services.addService(sMNRead);
799
            services.addService(sMNCore);
800
            services.addService(sMNAuthorization);
801
            services.addService(sMNStorage);
802
            services.addService(sMNReplication);
803
            node.setServices(services);
804

    
805
            // Set the schedule for synchronization
806
            Synchronization synchronization = new Synchronization();
807
            Schedule schedule = new Schedule();
808
            Date now = new Date();
809
            schedule.setYear(PropertyService.getProperty("dataone.nodeSynchronization.schedule.year"));
810
            schedule.setMon(PropertyService.getProperty("dataone.nodeSynchronization.schedule.mon"));
811
            schedule.setMday(PropertyService.getProperty("dataone.nodeSynchronization.schedule.mday"));
812
            schedule.setWday(PropertyService.getProperty("dataone.nodeSynchronization.schedule.wday"));
813
            schedule.setHour(PropertyService.getProperty("dataone.nodeSynchronization.schedule.hour"));
814
            schedule.setMin(PropertyService.getProperty("dataone.nodeSynchronization.schedule.min"));
815
            schedule.setSec(PropertyService.getProperty("dataone.nodeSynchronization.schedule.sec"));
816
            synchronization.setSchedule(schedule);
817
            synchronization.setLastHarvested(now);
818
            synchronization.setLastCompleteHarvest(now);
819
            node.setSynchronization(synchronization);
820

    
821
            node.setType(nodeType);
822
            return node;
823

    
824
        } catch (PropertyNotFoundException pnfe) {
825
            String msg = "MNodeService.getCapabilities(): " + "property not found: " + pnfe.getMessage();
826
            logMetacat.error(msg);
827
            throw new ServiceFailure("2162", msg);
828
        }
829
    }
830

    
831
    /**
832
     * Returns the number of operations that have been serviced by the node 
833
     * over time periods of one and 24 hours.
834
     * 
835
     * @param session - the Session object containing the credentials for the Subject
836
     * @param period - An ISO8601 compatible DateTime range specifying the time 
837
     *                 range for which to return operation statistics.
838
     * @param requestor - Limit to operations performed by given requestor identity.
839
     * @param event -  Enumerated value indicating the type of event being examined
840
     * @param format - Limit to events involving objects of the specified format
841
     * 
842
     * @return the desired log records
843
     * 
844
     * @throws InvalidToken
845
     * @throws ServiceFailure
846
     * @throws NotAuthorized
847
     * @throws InvalidRequest
848
     * @throws NotImplemented
849
     */
850
    public MonitorList getOperationStatistics(Session session, Date startTime, 
851
        Date endTime, Subject requestor, Event event, ObjectFormatIdentifier formatId)
852
        throws NotImplemented, ServiceFailure, NotAuthorized, InsufficientResources, UnsupportedType {
853

    
854
        MonitorList monitorList = new MonitorList();
855

    
856
        try {
857

    
858
            // get log records first
859
            Log logs = getLogRecords(session, startTime, endTime, event, 0, null);
860

    
861
            // TODO: aggregate by day or hour -- needs clarification
862
            int count = 1;
863
            for (LogEntry logEntry : logs.getLogEntryList()) {
864
                Identifier pid = logEntry.getIdentifier();
865
                Date logDate = logEntry.getDateLogged();
866
                // if we are filtering by format
867
                if (formatId != null) {
868
                    SystemMetadata sysmeta = HazelcastService.getInstance().getSystemMetadataMap().get(pid);
869
                    if (!sysmeta.getFormatId().getValue().equals(formatId.getValue())) {
870
                        // does not match
871
                        continue;
872
                    }
873
                }
874
                MonitorInfo item = new MonitorInfo();
875
                item.setCount(count);
876
                item.setDate(new java.sql.Date(logDate.getTime()));
877
                monitorList.addMonitorInfo(item);
878

    
879
            }
880
        } catch (Exception e) {
881
            e.printStackTrace();
882
            throw new ServiceFailure("2081", "Could not retrieve statistics: " + e.getMessage());
883
        }
884

    
885
        return monitorList;
886

    
887
    }
888

    
889
    /**
890
     * A callback method used by a CN to indicate to a MN that it cannot 
891
     * complete synchronization of the science metadata identified by pid.  Log
892
     * the event in the metacat event log.
893
     * 
894
     * @param session
895
     * @param syncFailed
896
     * 
897
     * @throws ServiceFailure
898
     * @throws NotAuthorized
899
     * @throws NotImplemented
900
     */
901
    @Override
902
    public boolean synchronizationFailed(Session session, SynchronizationFailed syncFailed) 
903
        throws NotImplemented, ServiceFailure, NotAuthorized {
904

    
905
        String localId;
906
        Identifier pid;
907
        if ( syncFailed.getPid() != null ) {
908
            pid = new Identifier();
909
            pid.setValue(syncFailed.getPid());
910
            boolean allowed;
911
            
912
            //are we allowed? only CNs
913
            try {
914
                allowed = isAdminAuthorized(session, pid, Permission.READ);
915
                if ( !allowed ){
916
                    throw new NotAuthorized("2162", 
917
                            "Not allowed to call synchronizationFailed() on this node.");
918
                }
919
            } catch (InvalidToken e) {
920
                throw new NotAuthorized("2162", 
921
                        "Not allowed to call synchronizationFailed() on this node.");
922

    
923
            }
924
            
925
        } else {
926
            throw new ServiceFailure("2161", "The identifier cannot be null.");
927

    
928
        }
929
        
930
        try {
931
            localId = IdentifierManager.getInstance().getLocalId(pid.getValue());
932
        } catch (McdbDocNotFoundException e) {
933
            throw new ServiceFailure("2161", "The identifier specified by " + 
934
                    syncFailed.getPid() + " was not found on this node.");
935

    
936
        }
937
        // TODO: update the CN URL below when the CNRead.SynchronizationFailed
938
        // method is changed to include the URL as a parameter
939
        logMetacat.debug("Synchronization for the object identified by " + 
940
                pid.getValue() + " failed from " + syncFailed.getNodeId() + 
941
                " Logging the event to the Metacat EventLog as a 'syncFailed' event.");
942
        // TODO: use the event type enum when the SYNCHRONIZATION_FAILED event is added
943
        String principal = Constants.SUBJECT_PUBLIC;
944
        if (session != null && session.getSubject() != null) {
945
          principal = session.getSubject().getValue();
946
        }
947
        try {
948
          EventLog.getInstance().log(request.getRemoteAddr(), request.getHeader("User-Agent"), principal, localId, "synchronization_failed");
949
        } catch (Exception e) {
950
            throw new ServiceFailure("2161", "Could not log the error for: " + pid.getValue());
951
        }
952
        //EventLog.getInstance().log("CN URL WILL GO HERE", 
953
        //  session.getSubject().getValue(), localId, Event.SYNCHRONIZATION_FAILED);
954
        return true;
955

    
956
    }
957

    
958
    /**
959
     * Essentially a get() but with different logging behavior
960
     */
961
    @Override
962
    public InputStream getReplica(Session session, Identifier pid) 
963
        throws NotAuthorized, NotImplemented, ServiceFailure, InvalidToken {
964

    
965
        logMetacat.info("MNodeService.getReplica() called.");
966

    
967
        // cannot be called by public
968
        if (session == null) {
969
        	throw new InvalidToken("2183", "No session was provided.");
970
        }
971
        
972
        logMetacat.info("MNodeService.getReplica() called with parameters: \n" +
973
             "\tSession.Subject      = " + session.getSubject().getValue() + "\n" +
974
             "\tIdentifier           = " + pid.getValue());
975

    
976
        InputStream inputStream = null; // bytes to be returned
977
        handler = new MetacatHandler(new Timer());
978
        boolean allowed = false;
979
        String localId; // the metacat docid for the pid
980

    
981
        // get the local docid from Metacat
982
        try {
983
            localId = IdentifierManager.getInstance().getLocalId(pid.getValue());
984
        } catch (McdbDocNotFoundException e) {
985
            throw new ServiceFailure("2181", "The object specified by " + 
986
                    pid.getValue() + " does not exist at this node.");
987
            
988
        }
989

    
990
        Subject targetNodeSubject = session.getSubject();
991

    
992
        // check for authorization to replicate, null session to act as this source MN
993
        try {
994
            allowed = D1Client.getCN().isNodeAuthorized(null, targetNodeSubject, pid);
995
        } catch (InvalidToken e1) {
996
            throw new ServiceFailure("2181", "Could not determine if node is authorized: " 
997
                + e1.getMessage());
998
            
999
        } catch (NotFound e1) {
1000
            throw new ServiceFailure("2181", "Could not determine if node is authorized: " 
1001
                    + e1.getMessage());
1002

    
1003
        } catch (InvalidRequest e1) {
1004
            throw new ServiceFailure("2181", "Could not determine if node is authorized: " 
1005
                    + e1.getMessage());
1006

    
1007
        }
1008

    
1009
        logMetacat.info("Called D1Client.isNodeAuthorized(). Allowed = " + allowed +
1010
            " for identifier " + pid.getValue());
1011

    
1012
        // if the person is authorized, perform the read
1013
        if (allowed) {
1014
            try {
1015
                inputStream = MetacatHandler.read(localId);
1016
            } catch (Exception e) {
1017
                throw new ServiceFailure("1020", "The object specified by " + 
1018
                    pid.getValue() + "could not be returned due to error: " + e.getMessage());
1019
            }
1020
        }
1021

    
1022
        // if we fail to set the input stream
1023
        if (inputStream == null) {
1024
            throw new ServiceFailure("2181", "The object specified by " + 
1025
                pid.getValue() + "does not exist at this node.");
1026
        }
1027

    
1028
        // log the replica event
1029
        String principal = null;
1030
        if (session.getSubject() != null) {
1031
            principal = session.getSubject().getValue();
1032
        }
1033
        EventLog.getInstance().log(request.getRemoteAddr(), 
1034
            request.getHeader("User-Agent"), principal, localId, "replicate");
1035

    
1036
        return inputStream;
1037
    }
1038

    
1039
    /**
1040
     * A method to notify the Member Node that the authoritative copy of 
1041
     * system metadata on the Coordinating Nodes has changed.
1042
     * 
1043
     * @param session   Session information that contains the identity of the 
1044
     *                  calling user as retrieved from the X.509 certificate 
1045
     *                  which must be traceable to the CILogon service.
1046
     * @param serialVersion   The serialVersion of the system metadata
1047
     * @param dateSysMetaLastModified  The time stamp for when the system metadata was changed
1048
     * @throws NotImplemented
1049
     * @throws ServiceFailure
1050
     * @throws NotAuthorized
1051
     * @throws InvalidRequest
1052
     * @throws InvalidToken
1053
     */
1054
    public boolean systemMetadataChanged(Session session, Identifier pid,
1055
        long serialVersion, Date dateSysMetaLastModified) 
1056
        throws NotImplemented, ServiceFailure, NotAuthorized, InvalidRequest,
1057
        InvalidToken {
1058
        
1059
        SystemMetadata currentLocalSysMeta = null;
1060
        SystemMetadata newSysMeta = null;
1061
        CNode cn = D1Client.getCN();
1062
        NodeList nodeList = null;
1063
        Subject callingSubject = null;
1064
        boolean allowed = false;
1065
        
1066
        // are we allowed to call this?
1067
        callingSubject = session.getSubject();
1068
        nodeList = cn.listNodes();
1069
        
1070
        for(Node node : nodeList.getNodeList()) {
1071
            // must be a CN
1072
            if ( node.getType().equals(NodeType.CN)) {
1073
               List<Subject> subjectList = node.getSubjectList();
1074
               // the calling subject must be in the subject list
1075
               if ( subjectList.contains(callingSubject)) {
1076
                   allowed = true;
1077
                   
1078
               }
1079
               
1080
            }
1081
        }
1082
        
1083
        if (!allowed ) {
1084
            String msg = "The subject identified by " + callingSubject.getValue() +
1085
              " is not authorized to call this service.";
1086
            throw new NotAuthorized("1331", msg);
1087
            
1088
        }
1089
        
1090
        // compare what we have locally to what is sent in the change notification
1091
        try {
1092
            currentLocalSysMeta = HazelcastService.getInstance().getSystemMetadataMap().get(pid);
1093
             
1094
        } catch (RuntimeException e) {
1095
            String msg = "SystemMetadata for pid " + pid.getValue() +
1096
              " couldn't be updated because it couldn't be found locally: " +
1097
              e.getMessage();
1098
            logMetacat.error(msg);
1099
            ServiceFailure sf = new ServiceFailure("1333", msg);
1100
            sf.initCause(e);
1101
            throw sf; 
1102
        }
1103
        
1104
        if (currentLocalSysMeta.getSerialVersion().longValue() < serialVersion ) {
1105
            try {
1106
                newSysMeta = cn.getSystemMetadata(null, pid);
1107
            } catch (NotFound e) {
1108
                // huh? you just said you had it
1109
            	String msg = "On updating the local copy of system metadata " + 
1110
                "for pid " + pid.getValue() +", the CN reports it is not found." +
1111
                " The error message was: " + e.getMessage();
1112
                logMetacat.error(msg);
1113
                ServiceFailure sf = new ServiceFailure("1333", msg);
1114
                sf.initCause(e);
1115
                throw sf;
1116
            }
1117
            
1118
            // update the local copy of system metadata for the pid
1119
            try {
1120
                HazelcastService.getInstance().getSystemMetadataMap().put(newSysMeta.getIdentifier(), newSysMeta);
1121
                logMetacat.info("Updated local copy of system metadata for pid " +
1122
                    pid.getValue() + " after change notification from the CN.");
1123
                
1124
            } catch (RuntimeException e) {
1125
                String msg = "SystemMetadata for pid " + pid.getValue() +
1126
                  " couldn't be updated: " +
1127
                  e.getMessage();
1128
                logMetacat.error(msg);
1129
                ServiceFailure sf = new ServiceFailure("1333", msg);
1130
                sf.initCause(e);
1131
                throw sf;
1132
            }
1133
        }
1134
        
1135
        return true;
1136
        
1137
    }
1138
    
1139
    /*
1140
     * Set the replication status for the object on the Coordinating Node
1141
     * 
1142
     * @param session - the session for the this target node
1143
     * @param pid - the identifier of the object being updated
1144
     * @param nodeId - the identifier of this target node
1145
     * @param status - the replication status to set
1146
     * @param failure - the exception to include, if any
1147
     */
1148
    private void setReplicationStatus(Session session, Identifier pid, 
1149
        NodeReference nodeId, ReplicationStatus status, BaseException failure) 
1150
        throws ServiceFailure, NotImplemented, NotAuthorized, 
1151
        InvalidRequest {
1152
        
1153
        // call the CN as the MN to set the replication status
1154
        try {
1155
            this.cn = D1Client.getCN();
1156
            this.cn.setReplicationStatus(session, pid, nodeId,
1157
                    status, failure);
1158
            
1159
        } catch (InvalidToken e) {
1160
            throw new ServiceFailure("2151",
1161
                    "Could not set the replication status on the CN (InvalidToken): " + 
1162
                    e.getMessage());
1163
            
1164
        } catch (NotFound e) {
1165
            throw new ServiceFailure("2151",
1166
                    "Could not set the replication status on the CN (NotFound): " + 
1167
                    e.getMessage());
1168
            
1169
        }
1170

    
1171

    
1172
    }
1173
    
1174
}
(3-3/5)