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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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        // check that we are not attempting to subvert versioning
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        if (sysmeta.getObsoletes() != null && sysmeta.getObsoletes().getValue() != null) {
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            throw new InvalidSystemMetadata("1180", 
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              "The supplied system metadata is invalid. " +
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              "The obsoletes field cannot have a value when creating entries.");
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        }
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353
        if (sysmeta.getObsoletedBy() != null && sysmeta.getObsoletedBy().getValue() != null) {
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            throw new InvalidSystemMetadata("1180", 
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              "The supplied system metadata is invalid. " +
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              "The obsoletedBy field cannot have a value when creating entries.");
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        }
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        // call the shared impl
361
        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.
369
     * 
370
     * @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 
373
     *                     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
377
     * 
378
     * @throws ServiceFailure
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     * @throws NotAuthorized
380
     * @throws NotImplemented
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     * @throws UnsupportedType
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     * @throws InsufficientResources
383
     * @throws InvalidRequest
384
     */
385
    @Override
386
    public boolean replicate(Session session, SystemMetadata sysmeta,
387
            NodeReference sourceNode) throws NotImplemented, ServiceFailure,
388
            NotAuthorized, InvalidRequest, InsufficientResources,
389
            UnsupportedType {
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391
        if (session != null && sysmeta != null && sourceNode != null) {
392
            logMetacat.info("MNodeService.replicate() called with parameters: \n" +
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                            "\tSession.Subject      = "                           +
394
                            session.getSubject().getValue() + "\n"                +
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                            "\tidentifier           = "                           + 
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                            sysmeta.getIdentifier().getValue()                    +
397
                            "\n" + "\tSource NodeReference ="                     +
398
                            sourceNode.getValue());
399
        }
400
        boolean result = false;
401
        String nodeIdStr = null;
402
        NodeReference nodeId = null;
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404
        // get the referenced object
405
        Identifier pid = sysmeta.getIdentifier();
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407
        // get from the membernode
408
        // TODO: switch credentials for the server retrieval?
409
        this.mn = D1Client.getMN(sourceNode);
410
        this.cn = D1Client.getCN();
411
        InputStream object = null;
412
        Session thisNodeSession = null;
413
        SystemMetadata localSystemMetadata = null;
414
        BaseException failure = null;
415
        String localId = null;
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417
        // TODO: check credentials
418
        // cannot be called by public
419
        if (session == null || session.getSubject() == null) {
420
            String msg = "No session was provided to replicate identifier " +
421
            sysmeta.getIdentifier().getValue();
422
            failure = new NotAuthorized("2152", msg);
423
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
424
            logMetacat.info(msg);
425
            return true;
426
        }
427

    
428

    
429
        // get the local node id
430
        try {
431
            nodeIdStr = PropertyService.getProperty("dataone.nodeId");
432
            nodeId = new NodeReference();
433
            nodeId.setValue(nodeIdStr);
434

    
435
        } catch (PropertyNotFoundException e1) {
436
            String msg = "Couldn't get dataone.nodeId property: " + e1.getMessage();
437
            failure = new ServiceFailure("2151", msg);
438
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
439
            logMetacat.error(msg);
440
            return true;
441

    
442
        }
443
        
444

    
445
        try {
446
            // do we already have a replica?
447
            try {
448
                localId = IdentifierManager.getInstance().getLocalId(pid.getValue());
449
                // if we have a local id, get the local object
450
                try {
451
                    object = MetacatHandler.read(localId);
452
                } catch (Exception e) {
453
                	// NOTE: we may already know about this ID because it could be a data file described by a metadata file
454
                	// https://redmine.dataone.org/issues/2572
455
                	// TODO: fix this so that we don't prevent ourselves from getting replicas
456
                	
457
                    // let the CN know that the replication failed
458
                	logMetacat.warn("Object content not found on this node despite having localId: " + localId);
459
                	String msg = "Can't read the object bytes properly, replica is invalid.";
460
                    ServiceFailure serviceFailure = new ServiceFailure("2151", msg);
461
                    setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, serviceFailure);
462
                    logMetacat.warn(msg);
463
                    throw serviceFailure;
464
                    
465
                }
466

    
467
            } catch (McdbDocNotFoundException e) {
468
                logMetacat.info("No replica found. Continuing.");
469
                
470
            }
471
            
472
            // no local replica, get a replica
473
            if ( object == null ) {
474
                // session should be null to use the default certificate
475
                // location set in the Certificate manager
476
                object = mn.getReplica(thisNodeSession, pid);
477
                logMetacat.info("MNodeService.getReplica() called for identifier "
478
                                + pid.getValue());
479

    
480
            }
481

    
482
        } catch (InvalidToken e) {            
483
            String msg = "Could not retrieve object to replicate (InvalidToken): "+ e.getMessage();
484
            failure = new ServiceFailure("2151", msg);
485
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
486
            logMetacat.error(msg);
487
            throw new ServiceFailure("2151", msg);
488

    
489
        } catch (NotFound e) {
490
            String msg = "Could not retrieve object to replicate (NotFound): "+ e.getMessage();
491
            failure = new ServiceFailure("2151", msg);
492
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
493
            logMetacat.error(msg);
494
            throw new ServiceFailure("2151", msg);
495

    
496
        }
497

    
498
        // verify checksum on the object, if supported
499
        if (object.markSupported()) {
500
            Checksum givenChecksum = sysmeta.getChecksum();
501
            Checksum computedChecksum = null;
502
            try {
503
                computedChecksum = ChecksumUtil.checksum(object, givenChecksum.getAlgorithm());
504
                object.reset();
505

    
506
            } catch (Exception e) {
507
                String msg = "Error computing checksum on replica: " + e.getMessage();
508
                logMetacat.error(msg);
509
                ServiceFailure sf = new ServiceFailure("2151", msg);
510
                sf.initCause(e);
511
                throw sf;
512
            }
513
            if (!givenChecksum.getValue().equals(computedChecksum.getValue())) {
514
                logMetacat.error("Given    checksum for " + pid.getValue() + 
515
                    "is " + givenChecksum.getValue());
516
                logMetacat.error("Computed checksum for " + pid.getValue() + 
517
                    "is " + computedChecksum.getValue());
518
                throw new ServiceFailure("2151",
519
                        "Computed checksum does not match declared checksum");
520
            }
521
        }
522

    
523
        // add it to local store
524
        Identifier retPid;
525
        try {
526
            // skip the MN.create -- this mutates the system metadata and we don't want it to
527
            if ( localId == null ) {
528
                // TODO: this will fail if we already "know" about the identifier
529
            	// FIXME: see https://redmine.dataone.org/issues/2572
530
                retPid = super.create(session, pid, object, sysmeta);
531
                result = (retPid.getValue().equals(pid.getValue()));
532
            }
533
            
534
        } catch (Exception e) {
535
            String msg = "Could not save object to local store (" + e.getClass().getName() + "): " + e.getMessage();
536
            failure = new ServiceFailure("2151", msg);
537
            setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.FAILED, failure);
538
            logMetacat.error(msg);
539
            throw new ServiceFailure("2151", msg);
540
            
541
        }
542

    
543
        // finish by setting the replication status
544
        setReplicationStatus(thisNodeSession, pid, nodeId, ReplicationStatus.COMPLETED, null);
545
        return result;
546

    
547
    }
548

    
549
    /**
550
     * Return the object identified by the given object identifier
551
     * 
552
     * @param session - the Session object containing the credentials for the Subject
553
     * @param pid - the object identifier for the given object
554
     * 
555
     * @return inputStream - the input stream of the given object
556
     * 
557
     * @throws InvalidToken
558
     * @throws ServiceFailure
559
     * @throws NotAuthorized
560
     * @throws InvalidRequest
561
     * @throws NotImplemented
562
     */
563
    @Override
564
    public InputStream get(Session session, Identifier pid) 
565
    throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented {
566

    
567
        return super.get(session, pid);
568

    
569
    }
570

    
571
    /**
572
     * Returns a Checksum for the specified object using an accepted hashing algorithm
573
     * 
574
     * @param session - the Session object containing the credentials for the Subject
575
     * @param pid - the object identifier for the given object
576
     * @param algorithm -  the name of an algorithm that will be used to compute 
577
     *                     a checksum of the bytes of the object
578
     * 
579
     * @return checksum - the checksum of the given object
580
     * 
581
     * @throws InvalidToken
582
     * @throws ServiceFailure
583
     * @throws NotAuthorized
584
     * @throws NotFound
585
     * @throws InvalidRequest
586
     * @throws NotImplemented
587
     */
588
    @Override
589
    public Checksum getChecksum(Session session, Identifier pid, String algorithm) 
590
        throws InvalidToken, ServiceFailure, NotAuthorized, NotFound,
591
        InvalidRequest, NotImplemented {
592

    
593
        Checksum checksum = null;
594

    
595
        InputStream inputStream = get(session, pid);
596

    
597
        try {
598
            checksum = ChecksumUtil.checksum(inputStream, algorithm);
599

    
600
        } catch (NoSuchAlgorithmException e) {
601
            throw new ServiceFailure("1410", "The checksum for the object specified by " + pid.getValue() + "could not be returned due to an internal error: "
602
                    + e.getMessage());
603
        } catch (IOException e) {
604
            throw new ServiceFailure("1410", "The checksum for the object specified by " + pid.getValue() + "could not be returned due to an internal error: "
605
                    + e.getMessage());
606
        }
607

    
608
        if (checksum == null) {
609
            throw new ServiceFailure("1410", "The checksum for the object specified by " + pid.getValue() + "could not be returned.");
610
        }
611

    
612
        return checksum;
613
    }
614

    
615
    /**
616
     * Return the system metadata for a given object
617
     * 
618
     * @param session - the Session object containing the credentials for the Subject
619
     * @param pid - the object identifier for the given object
620
     * 
621
     * @return inputStream - the input stream of the given system metadata object
622
     * 
623
     * @throws InvalidToken
624
     * @throws ServiceFailure
625
     * @throws NotAuthorized
626
     * @throws NotFound
627
     * @throws InvalidRequest
628
     * @throws NotImplemented
629
     */
630
    @Override
631
    public SystemMetadata getSystemMetadata(Session session, Identifier pid) 
632
        throws InvalidToken, ServiceFailure, NotAuthorized, NotFound,
633
        NotImplemented {
634

    
635
        return super.getSystemMetadata(session, pid);
636
    }
637

    
638
    /**
639
     * Retrieve the list of objects present on the MN that match the calling parameters
640
     * 
641
     * @param session - the Session object containing the credentials for the Subject
642
     * @param startTime - Specifies the beginning of the time range from which 
643
     *                    to return object (>=)
644
     * @param endTime - Specifies the beginning of the time range from which 
645
     *                  to return object (>=)
646
     * @param objectFormat - Restrict results to the specified object format
647
     * @param replicaStatus - Indicates if replicated objects should be returned in the list
648
     * @param start - The zero-based index of the first value, relative to the 
649
     *                first record of the resultset that matches the parameters.
650
     * @param count - The maximum number of entries that should be returned in 
651
     *                the response. The Member Node may return less entries 
652
     *                than specified in this value.
653
     * 
654
     * @return objectList - the list of objects matching the criteria
655
     * 
656
     * @throws InvalidToken
657
     * @throws ServiceFailure
658
     * @throws NotAuthorized
659
     * @throws InvalidRequest
660
     * @throws NotImplemented
661
     */
662
    @Override
663
    public ObjectList listObjects(Session session, Date startTime, Date endTime, ObjectFormatIdentifier objectFormatId, Boolean replicaStatus, Integer start,
664
            Integer count) throws NotAuthorized, InvalidRequest, NotImplemented, ServiceFailure, InvalidToken {
665

    
666
        ObjectList objectList = null;
667

    
668
        try {
669
            objectList = IdentifierManager.getInstance().querySystemMetadata(startTime, endTime, objectFormatId, replicaStatus, start, count);
670
        } catch (Exception e) {
671
            throw new ServiceFailure("1580", "Error querying system metadata: " + e.getMessage());
672
        }
673

    
674
        return objectList;
675
    }
676

    
677
    /**
678
     * Return a description of the node's capabilities and services.
679
     * 
680
     * @return node - the technical capabilities of the Member Node
681
     * 
682
     * @throws ServiceFailure
683
     * @throws NotAuthorized
684
     * @throws InvalidRequest
685
     * @throws NotImplemented
686
     */
687
    @Override
688
    public Node getCapabilities() 
689
        throws NotImplemented, ServiceFailure {
690

    
691
        String nodeName = null;
692
        String nodeId = null;
693
        String subject = null;
694
        String contactSubject = null;
695
        String nodeDesc = null;
696
        String nodeTypeString = null;
697
        NodeType nodeType = null;
698
        String mnCoreServiceVersion = null;
699
        String mnReadServiceVersion = null;
700
        String mnAuthorizationServiceVersion = null;
701
        String mnStorageServiceVersion = null;
702
        String mnReplicationServiceVersion = null;
703

    
704
        boolean nodeSynchronize = false;
705
        boolean nodeReplicate = false;
706
        boolean mnCoreServiceAvailable = false;
707
        boolean mnReadServiceAvailable = false;
708
        boolean mnAuthorizationServiceAvailable = false;
709
        boolean mnStorageServiceAvailable = false;
710
        boolean mnReplicationServiceAvailable = false;
711

    
712
        try {
713
            // get the properties of the node based on configuration information
714
            nodeName = PropertyService.getProperty("dataone.nodeName");
715
            nodeId = PropertyService.getProperty("dataone.nodeId");
716
            subject = PropertyService.getProperty("dataone.subject");
717
            contactSubject = PropertyService.getProperty("dataone.contactSubject");
718
            nodeDesc = PropertyService.getProperty("dataone.nodeDescription");
719
            nodeTypeString = PropertyService.getProperty("dataone.nodeType");
720
            nodeType = NodeType.convert(nodeTypeString);
721
            nodeSynchronize = new Boolean(PropertyService.getProperty("dataone.nodeSynchronize")).booleanValue();
722
            nodeReplicate = new Boolean(PropertyService.getProperty("dataone.nodeReplicate")).booleanValue();
723

    
724
            mnCoreServiceVersion = PropertyService.getProperty("dataone.mnCore.serviceVersion");
725
            mnReadServiceVersion = PropertyService.getProperty("dataone.mnRead.serviceVersion");
726
            mnAuthorizationServiceVersion = PropertyService.getProperty("dataone.mnAuthorization.serviceVersion");
727
            mnStorageServiceVersion = PropertyService.getProperty("dataone.mnStorage.serviceVersion");
728
            mnReplicationServiceVersion = PropertyService.getProperty("dataone.mnReplication.serviceVersion");
729

    
730
            mnCoreServiceAvailable = new Boolean(PropertyService.getProperty("dataone.mnCore.serviceAvailable")).booleanValue();
731
            mnReadServiceAvailable = new Boolean(PropertyService.getProperty("dataone.mnRead.serviceAvailable")).booleanValue();
732
            mnAuthorizationServiceAvailable = new Boolean(PropertyService.getProperty("dataone.mnAuthorization.serviceAvailable")).booleanValue();
733
            mnStorageServiceAvailable = new Boolean(PropertyService.getProperty("dataone.mnStorage.serviceAvailable")).booleanValue();
734
            mnReplicationServiceAvailable = new Boolean(PropertyService.getProperty("dataone.mnReplication.serviceAvailable")).booleanValue();
735

    
736
            // Set the properties of the node based on configuration information and
737
            // calls to current status methods
738
            String serviceName = SystemUtil.getContextURL() + "/" + PropertyService.getProperty("dataone.serviceName");
739
            Node node = new Node();
740
            node.setBaseURL(serviceName + "/" + nodeTypeString);
741
            node.setDescription(nodeDesc);
742

    
743
            // set the node's health information
744
            node.setState(NodeState.UP);
745
            
746
            // set the ping response to the current value
747
            Ping canPing = new Ping();
748
            canPing.setSuccess(false);
749
            try {
750
            	Date pingDate = ping();
751
                canPing.setSuccess(pingDate != null);
752
            } catch (BaseException e) {
753
                e.printStackTrace();
754
                // guess it can't be pinged
755
            }
756
            
757
            node.setPing(canPing);
758

    
759
            NodeReference identifier = new NodeReference();
760
            identifier.setValue(nodeId);
761
            node.setIdentifier(identifier);
762
            Subject s = new Subject();
763
            s.setValue(subject);
764
            node.addSubject(s);
765
            Subject contact = new Subject();
766
            contact.setValue(contactSubject);
767
            node.addContactSubject(contact);
768
            node.setName(nodeName);
769
            node.setReplicate(nodeReplicate);
770
            node.setSynchronize(nodeSynchronize);
771

    
772
            // services: MNAuthorization, MNCore, MNRead, MNReplication, MNStorage
773
            Services services = new Services();
774

    
775
            Service sMNCore = new Service();
776
            sMNCore.setName("MNCore");
777
            sMNCore.setVersion(mnCoreServiceVersion);
778
            sMNCore.setAvailable(mnCoreServiceAvailable);
779

    
780
            Service sMNRead = new Service();
781
            sMNRead.setName("MNRead");
782
            sMNRead.setVersion(mnReadServiceVersion);
783
            sMNRead.setAvailable(mnReadServiceAvailable);
784

    
785
            Service sMNAuthorization = new Service();
786
            sMNAuthorization.setName("MNAuthorization");
787
            sMNAuthorization.setVersion(mnAuthorizationServiceVersion);
788
            sMNAuthorization.setAvailable(mnAuthorizationServiceAvailable);
789

    
790
            Service sMNStorage = new Service();
791
            sMNStorage.setName("MNStorage");
792
            sMNStorage.setVersion(mnStorageServiceVersion);
793
            sMNStorage.setAvailable(mnStorageServiceAvailable);
794

    
795
            Service sMNReplication = new Service();
796
            sMNReplication.setName("MNReplication");
797
            sMNReplication.setVersion(mnReplicationServiceVersion);
798
            sMNReplication.setAvailable(mnReplicationServiceAvailable);
799

    
800
            services.addService(sMNRead);
801
            services.addService(sMNCore);
802
            services.addService(sMNAuthorization);
803
            services.addService(sMNStorage);
804
            services.addService(sMNReplication);
805
            node.setServices(services);
806

    
807
            // Set the schedule for synchronization
808
            Synchronization synchronization = new Synchronization();
809
            Schedule schedule = new Schedule();
810
            Date now = new Date();
811
            schedule.setYear(PropertyService.getProperty("dataone.nodeSynchronization.schedule.year"));
812
            schedule.setMon(PropertyService.getProperty("dataone.nodeSynchronization.schedule.mon"));
813
            schedule.setMday(PropertyService.getProperty("dataone.nodeSynchronization.schedule.mday"));
814
            schedule.setWday(PropertyService.getProperty("dataone.nodeSynchronization.schedule.wday"));
815
            schedule.setHour(PropertyService.getProperty("dataone.nodeSynchronization.schedule.hour"));
816
            schedule.setMin(PropertyService.getProperty("dataone.nodeSynchronization.schedule.min"));
817
            schedule.setSec(PropertyService.getProperty("dataone.nodeSynchronization.schedule.sec"));
818
            synchronization.setSchedule(schedule);
819
            synchronization.setLastHarvested(now);
820
            synchronization.setLastCompleteHarvest(now);
821
            node.setSynchronization(synchronization);
822

    
823
            node.setType(nodeType);
824
            return node;
825

    
826
        } catch (PropertyNotFoundException pnfe) {
827
            String msg = "MNodeService.getCapabilities(): " + "property not found: " + pnfe.getMessage();
828
            logMetacat.error(msg);
829
            throw new ServiceFailure("2162", msg);
830
        }
831
    }
832

    
833
    /**
834
     * Returns the number of operations that have been serviced by the node 
835
     * over time periods of one and 24 hours.
836
     * 
837
     * @param session - the Session object containing the credentials for the Subject
838
     * @param period - An ISO8601 compatible DateTime range specifying the time 
839
     *                 range for which to return operation statistics.
840
     * @param requestor - Limit to operations performed by given requestor identity.
841
     * @param event -  Enumerated value indicating the type of event being examined
842
     * @param format - Limit to events involving objects of the specified format
843
     * 
844
     * @return the desired log records
845
     * 
846
     * @throws InvalidToken
847
     * @throws ServiceFailure
848
     * @throws NotAuthorized
849
     * @throws InvalidRequest
850
     * @throws NotImplemented
851
     */
852
    public MonitorList getOperationStatistics(Session session, Date startTime, 
853
        Date endTime, Subject requestor, Event event, ObjectFormatIdentifier formatId)
854
        throws NotImplemented, ServiceFailure, NotAuthorized, InsufficientResources, UnsupportedType {
855

    
856
        MonitorList monitorList = new MonitorList();
857

    
858
        try {
859

    
860
            // get log records first
861
            Log logs = getLogRecords(session, startTime, endTime, event, null, 0, null);
862

    
863
            // TODO: aggregate by day or hour -- needs clarification
864
            int count = 1;
865
            for (LogEntry logEntry : logs.getLogEntryList()) {
866
                Identifier pid = logEntry.getIdentifier();
867
                Date logDate = logEntry.getDateLogged();
868
                // if we are filtering by format
869
                if (formatId != null) {
870
                    SystemMetadata sysmeta = HazelcastService.getInstance().getSystemMetadataMap().get(pid);
871
                    if (!sysmeta.getFormatId().getValue().equals(formatId.getValue())) {
872
                        // does not match
873
                        continue;
874
                    }
875
                }
876
                MonitorInfo item = new MonitorInfo();
877
                item.setCount(count);
878
                item.setDate(new java.sql.Date(logDate.getTime()));
879
                monitorList.addMonitorInfo(item);
880

    
881
            }
882
        } catch (Exception e) {
883
            e.printStackTrace();
884
            throw new ServiceFailure("2081", "Could not retrieve statistics: " + e.getMessage());
885
        }
886

    
887
        return monitorList;
888

    
889
    }
890

    
891
    /**
892
     * A callback method used by a CN to indicate to a MN that it cannot 
893
     * complete synchronization of the science metadata identified by pid.  Log
894
     * the event in the metacat event log.
895
     * 
896
     * @param session
897
     * @param syncFailed
898
     * 
899
     * @throws ServiceFailure
900
     * @throws NotAuthorized
901
     * @throws NotImplemented
902
     */
903
    @Override
904
    public boolean synchronizationFailed(Session session, SynchronizationFailed syncFailed) 
905
        throws NotImplemented, ServiceFailure, NotAuthorized {
906

    
907
        String localId;
908
        Identifier pid;
909
        if ( syncFailed.getPid() != null ) {
910
            pid = new Identifier();
911
            pid.setValue(syncFailed.getPid());
912
            boolean allowed;
913
            
914
            //are we allowed? only CNs
915
            try {
916
                allowed = isAdminAuthorized(session);
917
                if ( !allowed ){
918
                    throw new NotAuthorized("2162", 
919
                            "Not allowed to call synchronizationFailed() on this node.");
920
                }
921
            } catch (InvalidToken e) {
922
                throw new NotAuthorized("2162", 
923
                        "Not allowed to call synchronizationFailed() on this node.");
924

    
925
            }
926
            
927
        } else {
928
            throw new ServiceFailure("2161", "The identifier cannot be null.");
929

    
930
        }
931
        
932
        try {
933
            localId = IdentifierManager.getInstance().getLocalId(pid.getValue());
934
        } catch (McdbDocNotFoundException e) {
935
            throw new ServiceFailure("2161", "The identifier specified by " + 
936
                    syncFailed.getPid() + " was not found on this node.");
937

    
938
        }
939
        // TODO: update the CN URL below when the CNRead.SynchronizationFailed
940
        // method is changed to include the URL as a parameter
941
        logMetacat.debug("Synchronization for the object identified by " + 
942
                pid.getValue() + " failed from " + syncFailed.getNodeId() + 
943
                " Logging the event to the Metacat EventLog as a 'syncFailed' event.");
944
        // TODO: use the event type enum when the SYNCHRONIZATION_FAILED event is added
945
        String principal = Constants.SUBJECT_PUBLIC;
946
        if (session != null && session.getSubject() != null) {
947
          principal = session.getSubject().getValue();
948
        }
949
        try {
950
          EventLog.getInstance().log(request.getRemoteAddr(), request.getHeader("User-Agent"), principal, localId, "synchronization_failed");
951
        } catch (Exception e) {
952
            throw new ServiceFailure("2161", "Could not log the error for: " + pid.getValue());
953
        }
954
        //EventLog.getInstance().log("CN URL WILL GO HERE", 
955
        //  session.getSubject().getValue(), localId, Event.SYNCHRONIZATION_FAILED);
956
        return true;
957

    
958
    }
959

    
960
    /**
961
     * Essentially a get() but with different logging behavior
962
     */
963
    @Override
964
    public InputStream getReplica(Session session, Identifier pid) 
965
        throws NotAuthorized, NotImplemented, ServiceFailure, InvalidToken {
966

    
967
        logMetacat.info("MNodeService.getReplica() called.");
968

    
969
        // cannot be called by public
970
        if (session == null) {
971
        	throw new InvalidToken("2183", "No session was provided.");
972
        }
973
        
974
        logMetacat.info("MNodeService.getReplica() called with parameters: \n" +
975
             "\tSession.Subject      = " + session.getSubject().getValue() + "\n" +
976
             "\tIdentifier           = " + pid.getValue());
977

    
978
        InputStream inputStream = null; // bytes to be returned
979
        handler = new MetacatHandler(new Timer());
980
        boolean allowed = false;
981
        String localId; // the metacat docid for the pid
982

    
983
        // get the local docid from Metacat
984
        try {
985
            localId = IdentifierManager.getInstance().getLocalId(pid.getValue());
986
        } catch (McdbDocNotFoundException e) {
987
            throw new ServiceFailure("2181", "The object specified by " + 
988
                    pid.getValue() + " does not exist at this node.");
989
            
990
        }
991

    
992
        Subject targetNodeSubject = session.getSubject();
993

    
994
        // check for authorization to replicate, null session to act as this source MN
995
        try {
996
            allowed = D1Client.getCN().isNodeAuthorized(null, targetNodeSubject, pid);
997
        } catch (InvalidToken e1) {
998
            throw new ServiceFailure("2181", "Could not determine if node is authorized: " 
999
                + e1.getMessage());
1000
            
1001
        } catch (NotFound e1) {
1002
            throw new ServiceFailure("2181", "Could not determine if node is authorized: " 
1003
                    + e1.getMessage());
1004

    
1005
        } catch (InvalidRequest e1) {
1006
            throw new ServiceFailure("2181", "Could not determine if node is authorized: " 
1007
                    + e1.getMessage());
1008

    
1009
        }
1010

    
1011
        logMetacat.info("Called D1Client.isNodeAuthorized(). Allowed = " + allowed +
1012
            " for identifier " + pid.getValue());
1013

    
1014
        // if the person is authorized, perform the read
1015
        if (allowed) {
1016
            try {
1017
                inputStream = MetacatHandler.read(localId);
1018
            } catch (Exception e) {
1019
                throw new ServiceFailure("1020", "The object specified by " + 
1020
                    pid.getValue() + "could not be returned due to error: " + e.getMessage());
1021
            }
1022
        }
1023

    
1024
        // if we fail to set the input stream
1025
        if (inputStream == null) {
1026
            throw new ServiceFailure("2181", "The object specified by " + 
1027
                pid.getValue() + "does not exist at this node.");
1028
        }
1029

    
1030
        // log the replica event
1031
        String principal = null;
1032
        if (session.getSubject() != null) {
1033
            principal = session.getSubject().getValue();
1034
        }
1035
        EventLog.getInstance().log(request.getRemoteAddr(), 
1036
            request.getHeader("User-Agent"), principal, localId, "replicate");
1037

    
1038
        return inputStream;
1039
    }
1040

    
1041
    /**
1042
     * A method to notify the Member Node that the authoritative copy of 
1043
     * system metadata on the Coordinating Nodes has changed.
1044
     * 
1045
     * @param session   Session information that contains the identity of the 
1046
     *                  calling user as retrieved from the X.509 certificate 
1047
     *                  which must be traceable to the CILogon service.
1048
     * @param serialVersion   The serialVersion of the system metadata
1049
     * @param dateSysMetaLastModified  The time stamp for when the system metadata was changed
1050
     * @throws NotImplemented
1051
     * @throws ServiceFailure
1052
     * @throws NotAuthorized
1053
     * @throws InvalidRequest
1054
     * @throws InvalidToken
1055
     */
1056
    public boolean systemMetadataChanged(Session session, Identifier pid,
1057
        long serialVersion, Date dateSysMetaLastModified) 
1058
        throws NotImplemented, ServiceFailure, NotAuthorized, InvalidRequest,
1059
        InvalidToken {
1060
        
1061
        SystemMetadata currentLocalSysMeta = null;
1062
        SystemMetadata newSysMeta = null;
1063
        CNode cn = D1Client.getCN();
1064
        NodeList nodeList = null;
1065
        Subject callingSubject = null;
1066
        boolean allowed = false;
1067
        
1068
        // are we allowed to call this?
1069
        callingSubject = session.getSubject();
1070
        nodeList = cn.listNodes();
1071
        
1072
        for(Node node : nodeList.getNodeList()) {
1073
            // must be a CN
1074
            if ( node.getType().equals(NodeType.CN)) {
1075
               List<Subject> subjectList = node.getSubjectList();
1076
               // the calling subject must be in the subject list
1077
               if ( subjectList.contains(callingSubject)) {
1078
                   allowed = true;
1079
                   
1080
               }
1081
               
1082
            }
1083
        }
1084
        
1085
        if (!allowed ) {
1086
            String msg = "The subject identified by " + callingSubject.getValue() +
1087
              " is not authorized to call this service.";
1088
            throw new NotAuthorized("1331", msg);
1089
            
1090
        }
1091
        
1092
        // compare what we have locally to what is sent in the change notification
1093
        try {
1094
            currentLocalSysMeta = HazelcastService.getInstance().getSystemMetadataMap().get(pid);
1095
             
1096
        } catch (RuntimeException e) {
1097
            String msg = "SystemMetadata for pid " + pid.getValue() +
1098
              " couldn't be updated because it couldn't be found locally: " +
1099
              e.getMessage();
1100
            logMetacat.error(msg);
1101
            ServiceFailure sf = new ServiceFailure("1333", msg);
1102
            sf.initCause(e);
1103
            throw sf; 
1104
        }
1105
        
1106
        if (currentLocalSysMeta.getSerialVersion().longValue() < serialVersion ) {
1107
            try {
1108
                newSysMeta = cn.getSystemMetadata(null, pid);
1109
            } catch (NotFound e) {
1110
                // huh? you just said you had it
1111
            	String msg = "On updating the local copy of system metadata " + 
1112
                "for pid " + pid.getValue() +", the CN reports it is not found." +
1113
                " The error message was: " + e.getMessage();
1114
                logMetacat.error(msg);
1115
                ServiceFailure sf = new ServiceFailure("1333", msg);
1116
                sf.initCause(e);
1117
                throw sf;
1118
            }
1119
            
1120
            // update the local copy of system metadata for the pid
1121
            try {
1122
                HazelcastService.getInstance().getSystemMetadataMap().put(newSysMeta.getIdentifier(), newSysMeta);
1123
                logMetacat.info("Updated local copy of system metadata for pid " +
1124
                    pid.getValue() + " after change notification from the CN.");
1125
                
1126
            } catch (RuntimeException e) {
1127
                String msg = "SystemMetadata for pid " + pid.getValue() +
1128
                  " couldn't be updated: " +
1129
                  e.getMessage();
1130
                logMetacat.error(msg);
1131
                ServiceFailure sf = new ServiceFailure("1333", msg);
1132
                sf.initCause(e);
1133
                throw sf;
1134
            }
1135
        }
1136
        
1137
        return true;
1138
        
1139
    }
1140
    
1141
    /*
1142
     * Set the replication status for the object on the Coordinating Node
1143
     * 
1144
     * @param session - the session for the this target node
1145
     * @param pid - the identifier of the object being updated
1146
     * @param nodeId - the identifier of this target node
1147
     * @param status - the replication status to set
1148
     * @param failure - the exception to include, if any
1149
     */
1150
    private void setReplicationStatus(Session session, Identifier pid, 
1151
        NodeReference nodeId, ReplicationStatus status, BaseException failure) 
1152
        throws ServiceFailure, NotImplemented, NotAuthorized, 
1153
        InvalidRequest {
1154
        
1155
        // call the CN as the MN to set the replication status
1156
        try {
1157
            this.cn = D1Client.getCN();
1158
            this.cn.setReplicationStatus(session, pid, nodeId,
1159
                    status, failure);
1160
            
1161
        } catch (InvalidToken e) {
1162
        	String msg = "Could not set the replication status for " + pid.getValue() + " on the CN (InvalidToken): " + e.getMessage();
1163
            logMetacat.error(msg);
1164
        	throw new ServiceFailure("2151",
1165
                    msg);
1166
            
1167
        } catch (NotFound e) {
1168
        	String msg = "Could not set the replication status for " + pid.getValue() + " on the CN (NotFound): " + e.getMessage();
1169
            logMetacat.error(msg);
1170
        	throw new ServiceFailure("2151",
1171
                    msg);
1172
            
1173
        }
1174

    
1175

    
1176
    }
1177

    
1178
	@Override
1179
	public Identifier generateIdentifier(Session arg0, String arg1, String arg2)
1180
			throws InvalidToken, ServiceFailure, NotAuthorized, NotImplemented,
1181
			InvalidRequest {
1182
		throw new NotImplemented("2194", "Member Node does not implement generateIdentifier method");
1183
	}
1184
    
1185
}
(3-3/5)