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/**
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* '$RCSfile$'
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* Copyright: 2010 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: jones $'
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* '$Date: 2010-02-03 17:58:12 -0900 (Wed, 03 Feb 2010) $'
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* '$Revision: 5211 $'
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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;
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5377
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import java.util.*;
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5282
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jones
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import java.sql.PreparedStatement;
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import java.sql.ResultSet;
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import java.sql.SQLException;
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5895
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berkley
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import java.sql.Timestamp;
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5282
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jones
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import org.apache.log4j.Logger;
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berkley
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import org.dataone.service.types.Checksum;
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import org.dataone.service.types.ChecksumAlgorithm;
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import org.dataone.service.types.ObjectFormat;
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import org.dataone.service.types.ObjectInfo;
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import org.dataone.service.types.ObjectList;
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5887
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berkley
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import org.dataone.service.types.SystemMetadata;
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berkley
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import org.dataone.service.types.Identifier;
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import edu.ucsb.nceas.metacat.database.DBConnection;
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import edu.ucsb.nceas.metacat.database.DBConnectionPool;
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5887
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berkley
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import edu.ucsb.nceas.metacat.properties.PropertyService;
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import edu.ucsb.nceas.metacat.shared.ServiceException;
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import edu.ucsb.nceas.metacat.util.DocumentUtil;
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import edu.ucsb.nceas.utilities.PropertyNotFoundException;
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/**
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* Manage the relationship between Metacat local identifiers (LocalIDs) that are
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* codified as the (docid, rev) pair with globally uniqe string identifiers
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* (GUIDs) that are opaque strings. This class provides methods to manage these
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* identifiers, and to search for and look up LocalIDs based on their GUID and
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* vice versa. IdentifierManager is a singleton.
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*
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* @author Matthew Jones
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*/
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public class IdentifierManager {
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public static final String TYPE_SYSTEM_METADATA = "systemmetadata";
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public static final String TYPE_IDENTIFIER = "identifier";
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public static String DATAONE_SM_DOCTYPE;
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/**
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* The single instance of the manager that is always returned.
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*/
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private static IdentifierManager self = null;
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private Logger logMetacat = Logger.getLogger(EventLog.class);
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/**
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* A private constructor that initializes the class when getInstance() is
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* called.
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*/
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private IdentifierManager()
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{
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try
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{
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DATAONE_SM_DOCTYPE = PropertyService.getProperty("crudService.listObjects.ReturnDoctype");
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}
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catch(Exception e)
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{
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throw new RuntimeException("Error getting System Metadata doctype from " +
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"the properties file. Please make sure crudService.listObjects.ReturnDoctype " +
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"exists in metacat.properties.");
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}
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}
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/**
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* Return the single instance of the manager after initializing it if it
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* wasn't previously initialized.
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*
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* @return the single IdentifierManager instance
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*/
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public static IdentifierManager getInstance()
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{
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if (self == null) {
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self = new IdentifierManager();
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}
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return self;
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}
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/**
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* return a hash of all of the info that is in the systemmetadata table
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* @param localId
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* @return
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*/
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public Hashtable<String, String> getSystemMetadataInfo(String localId)
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throws McdbDocNotFoundException
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{
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try
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{
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AccessionNumber acc = new AccessionNumber(localId, "NONE");
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localId = acc.getDocid();
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}
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catch(Exception e)
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{
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//do nothing. just try the localId as it is
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}
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Hashtable<String, String> h = new Hashtable<String, String>();
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String sql = "select guid, date_uploaded, rights_holder, checksum, checksum_algorithm, " +
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"origin_member_node, authoritive_member_node, date_modified, submitter, object_format, size " +
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5895
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"from systemmetadata where docid = ?";
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DBConnection dbConn = null;
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int serialNumber = -1;
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try
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{
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// Get a database connection from the pool
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dbConn = DBConnectionPool.getDBConnection("IdentifierManager.getDocumentInfo");
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serialNumber = dbConn.getCheckOutSerialNumber();
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// Execute the insert statement
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PreparedStatement stmt = dbConn.prepareStatement(sql);
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stmt.setString(1, localId);
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ResultSet rs = stmt.executeQuery();
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if (rs.next())
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{
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String guid = rs.getString(1);
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Timestamp dateUploaded = rs.getTimestamp(2);
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String rightsHolder = rs.getString(3);
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String checksum = rs.getString(4);
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String checksumAlgorithm = rs.getString(5);
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String originMemberNode = rs.getString(6);
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String authoritativeMemberNode = rs.getString(7);
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Timestamp dateModified = rs.getTimestamp(8);
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String submitter = rs.getString(9);
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5917
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String objectFormat = rs.getString(10);
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long size = new Long(rs.getString(11)).longValue();
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5895
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h.put("guid", guid);
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h.put("date_uploaded", new Long(dateUploaded.getTime()).toString());
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h.put("rights_holder", rightsHolder);
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h.put("checksum", checksum);
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h.put("checksum_algorithm", checksumAlgorithm);
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h.put("origin_member_node", originMemberNode);
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h.put("authoritative_member_node", authoritativeMemberNode);
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h.put("date_modified", new Long(dateModified.getTime()).toString());
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h.put("submitter", submitter);
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5917
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h.put("object_format", objectFormat);
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h.put("size", new Long(size).toString());
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5895
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stmt.close();
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}
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else
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{
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stmt.close();
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DBConnectionPool.returnDBConnection(dbConn, serialNumber);
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throw new McdbDocNotFoundException("2Could not find document " + localId);
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}
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}
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catch (SQLException e)
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{
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e.printStackTrace();
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logMetacat.error("Error while getting system metadata info for localid " + localId + " : "
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+ e.getMessage());
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}
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finally
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{
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// Return database connection to the pool
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DBConnectionPool.returnDBConnection(dbConn, serialNumber);
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}
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return h;
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}
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/**
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5378
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* return information on the document with localId. These are the fields
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* from the xml_documents table. They can be used to contstruct metadata
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* about the object that is stored.
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* @param localId
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* @return
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* @throws McdbDocNotFoundException
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193 |
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*/
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194 |
5441
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berkley
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public Hashtable<String, Object> getDocumentInfo(String localId)
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195 |
5378
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berkley
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throws McdbDocNotFoundException
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196 |
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{
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197 |
5798
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berkley
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try
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{
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199 |
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AccessionNumber acc = new AccessionNumber(localId, "NONE");
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localId = acc.getDocid();
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}
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catch(Exception e)
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{
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204 |
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//do nothing. just try the localId as it is
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}
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206 |
5441
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berkley
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Hashtable<String, Object> h = new Hashtable<String, Object>();
|
207 |
5378
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berkley
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String sql = "select docname, doctype, user_owner, user_updated, " +
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208 |
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"server_location, rev, date_created, date_updated from " +
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209 |
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"xml_documents where docid like '" + localId + "'";
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210 |
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DBConnection dbConn = null;
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211 |
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int serialNumber = -1;
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212 |
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try
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213 |
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{
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214 |
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// Get a database connection from the pool
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215 |
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dbConn = DBConnectionPool.getDBConnection("IdentifierManager.getDocumentInfo");
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216 |
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serialNumber = dbConn.getCheckOutSerialNumber();
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217 |
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218 |
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// Execute the insert statement
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219 |
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PreparedStatement stmt = dbConn.prepareStatement(sql);
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220 |
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ResultSet rs = stmt.executeQuery();
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221 |
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if (rs.next())
|
222 |
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{
|
223 |
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String docname = rs.getString(1);
|
224 |
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String doctype = rs.getString(2);
|
225 |
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String user_owner = rs.getString(3);
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226 |
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String user_updated = rs.getString(4);
|
227 |
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String server_location = rs.getString(5);
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228 |
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int rev = rs.getInt(6);
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String date_created = rs.getString(7);
|
230 |
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String date_updated = rs.getString(8);
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231 |
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h.put("docname", docname);
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h.put("doctype", doctype);
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h.put("user_owner", user_owner);
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234 |
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h.put("user_updated", user_updated);
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235 |
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h.put("server_location", server_location);
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236 |
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h.put("rev", new Integer(rev).toString());
|
237 |
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h.put("date_created", date_created);
|
238 |
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h.put("date_updated", date_updated);
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239 |
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|
240 |
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stmt.close();
|
241 |
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}
|
242 |
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else
|
243 |
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{
|
244 |
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stmt.close();
|
245 |
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DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
246 |
5798
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berkley
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throw new McdbDocNotFoundException("2Could not find document " + localId);
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247 |
5378
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berkley
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}
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248 |
5441
|
berkley
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249 |
5444
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berkley
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String sql2 = "select principal_name, permission, perm_type, perm_order from xml_access " +
|
250 |
5441
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berkley
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"where docid like '" + localId + "'";
|
251 |
5444
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berkley
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System.out.println("executing sql: " + sql2);
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252 |
5441
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berkley
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PreparedStatement stmt2 = dbConn.prepareStatement(sql2);
|
253 |
5442
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berkley
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rs = stmt2.executeQuery();
|
254 |
5441
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berkley
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Vector accessVector = new Vector();
|
255 |
5445
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berkley
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while(rs.next())
|
256 |
5441
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berkley
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{
|
257 |
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Hashtable accessHash = new Hashtable();
|
258 |
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String principal_name = rs.getString(1);
|
259 |
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String permission = rs.getString(2);
|
260 |
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String permissionType = rs.getString(3);
|
261 |
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String permissionOrder = rs.getString(4);
|
262 |
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accessHash.put("principal_name", principal_name);
|
263 |
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accessHash.put("permission", permission);
|
264 |
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accessHash.put("permission_type", permissionType);
|
265 |
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accessHash.put("permission_order", permissionOrder);
|
266 |
5444
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berkley
|
System.out.println("accessHash: " + accessHash.toString());
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267 |
5441
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berkley
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accessVector.add(accessHash);
|
268 |
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}
|
269 |
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h.put("access", accessVector);
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270 |
5378
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berkley
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}
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271 |
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catch (SQLException e)
|
272 |
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{
|
273 |
5444
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berkley
|
e.printStackTrace();
|
274 |
5378
|
berkley
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logMetacat.error("Error while getting document info for localid " + localId + " : "
|
275 |
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+ e.getMessage());
|
276 |
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}
|
277 |
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finally
|
278 |
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{
|
279 |
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// Return database connection to the pool
|
280 |
|
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DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
281 |
|
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}
|
282 |
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return h;
|
283 |
|
|
}
|
284 |
|
|
|
285 |
|
|
/**
|
286 |
|
|
* return the newest rev for a given localId
|
287 |
|
|
* @param localId
|
288 |
|
|
* @return
|
289 |
|
|
*/
|
290 |
|
|
public int getLatestRevForLocalId(String localId)
|
291 |
|
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throws McdbDocNotFoundException
|
292 |
|
|
{
|
293 |
5798
|
berkley
|
try
|
294 |
|
|
{
|
295 |
|
|
AccessionNumber acc = new AccessionNumber(localId, "NONE");
|
296 |
|
|
localId = acc.getDocid();
|
297 |
|
|
}
|
298 |
|
|
catch(Exception e)
|
299 |
|
|
{
|
300 |
|
|
//do nothing. just try the localId as it is
|
301 |
|
|
}
|
302 |
5378
|
berkley
|
int rev = 0;
|
303 |
|
|
String sql = "select rev from xml_documents where docid like '" + localId + "'";
|
304 |
|
|
DBConnection dbConn = null;
|
305 |
|
|
int serialNumber = -1;
|
306 |
|
|
try
|
307 |
|
|
{
|
308 |
|
|
// Get a database connection from the pool
|
309 |
|
|
dbConn = DBConnectionPool.getDBConnection("IdentifierManager.getLatestRevForLocalId");
|
310 |
|
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
311 |
|
|
|
312 |
|
|
// Execute the insert statement
|
313 |
|
|
PreparedStatement stmt = dbConn.prepareStatement(sql);
|
314 |
|
|
ResultSet rs = stmt.executeQuery();
|
315 |
|
|
if (rs.next())
|
316 |
|
|
{
|
317 |
|
|
rev = rs.getInt(1);
|
318 |
|
|
stmt.close();
|
319 |
|
|
}
|
320 |
|
|
else
|
321 |
|
|
{
|
322 |
|
|
stmt.close();
|
323 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
324 |
5798
|
berkley
|
throw new McdbDocNotFoundException("While trying to get the latest rev, could not find document " + localId);
|
325 |
5378
|
berkley
|
}
|
326 |
|
|
}
|
327 |
|
|
catch (SQLException e)
|
328 |
|
|
{
|
329 |
|
|
logMetacat.error("Error while looking up the guid: "
|
330 |
|
|
+ e.getMessage());
|
331 |
|
|
}
|
332 |
|
|
finally
|
333 |
|
|
{
|
334 |
|
|
// Return database connection to the pool
|
335 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
336 |
|
|
}
|
337 |
|
|
return rev;
|
338 |
|
|
}
|
339 |
|
|
|
340 |
|
|
/**
|
341 |
5377
|
berkley
|
* return all local ids in the object store that do not have associated
|
342 |
|
|
* system metadata and are not themselves system metadata
|
343 |
|
|
*/
|
344 |
|
|
public List<String> getLocalIdsWithNoSystemMetadata()
|
345 |
|
|
{
|
346 |
|
|
Vector<String> ids = new Vector<String>();
|
347 |
|
|
//String sql = "select docid from identifier where guid in (select guid from systemmetadata)";
|
348 |
5796
|
berkley
|
//String sql = "select docid from xml_documents where docid not " +
|
349 |
|
|
// "in (select docid from identifier where guid in (select guid from systemmetadata)) " +
|
350 |
|
|
// "and doctype not like '" + DATAONE_SM_DOCTYPE + "'";
|
351 |
5798
|
berkley
|
String sql = "select docid, rev from xml_documents where docid not in " +
|
352 |
5796
|
berkley
|
"(select docid from systemmetadata) and (docid not in " +
|
353 |
|
|
"(select docid from identifier where guid in (select guid from systemmetadata)))";
|
354 |
5377
|
berkley
|
DBConnection dbConn = null;
|
355 |
|
|
int serialNumber = -1;
|
356 |
|
|
try
|
357 |
|
|
{
|
358 |
|
|
// Get a database connection from the pool
|
359 |
|
|
dbConn = DBConnectionPool.getDBConnection("IdentifierManager.getLocalIdsWithNoSystemMetadata");
|
360 |
|
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
361 |
|
|
|
362 |
|
|
// Execute the insert statement
|
363 |
|
|
PreparedStatement stmt = dbConn.prepareStatement(sql);
|
364 |
|
|
ResultSet rs = stmt.executeQuery();
|
365 |
|
|
while (rs.next())
|
366 |
|
|
{
|
367 |
|
|
String localid = rs.getString(1);
|
368 |
5798
|
berkley
|
String rev = rs.getString(2);
|
369 |
|
|
localid += "." + rev;
|
370 |
5796
|
berkley
|
System.out.println("id to add SM for: " + localid);
|
371 |
5377
|
berkley
|
ids.add(localid);
|
372 |
|
|
}
|
373 |
|
|
stmt.close();
|
374 |
|
|
}
|
375 |
|
|
catch (SQLException e)
|
376 |
|
|
{
|
377 |
|
|
logMetacat.error("Error while looking up the guid: "
|
378 |
|
|
+ e.getMessage());
|
379 |
|
|
}
|
380 |
|
|
finally
|
381 |
|
|
{
|
382 |
|
|
// Return database connection to the pool
|
383 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
384 |
|
|
}
|
385 |
|
|
|
386 |
|
|
return ids;
|
387 |
|
|
}
|
388 |
|
|
|
389 |
|
|
/**
|
390 |
|
|
* return a listing of all local ids in the object store
|
391 |
|
|
* @return a list of all local ids in metacat
|
392 |
|
|
*/
|
393 |
|
|
public List<String> getAllLocalIds()
|
394 |
|
|
throws Exception
|
395 |
|
|
{
|
396 |
|
|
Vector<String> ids = new Vector<String>();
|
397 |
|
|
String sql = "select docid from xml_documents";
|
398 |
|
|
DBConnection dbConn = null;
|
399 |
|
|
int serialNumber = -1;
|
400 |
|
|
try
|
401 |
|
|
{
|
402 |
|
|
// Get a database connection from the pool
|
403 |
|
|
dbConn = DBConnectionPool.getDBConnection("IdentifierManager.getAllLocalIds");
|
404 |
|
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
405 |
|
|
|
406 |
|
|
// Execute the insert statement
|
407 |
|
|
PreparedStatement stmt = dbConn.prepareStatement(sql);
|
408 |
|
|
ResultSet rs = stmt.executeQuery();
|
409 |
|
|
while (rs.next())
|
410 |
|
|
{
|
411 |
|
|
String localid = rs.getString(1);
|
412 |
|
|
ids.add(localid);
|
413 |
|
|
}
|
414 |
|
|
stmt.close();
|
415 |
|
|
}
|
416 |
|
|
catch (SQLException e)
|
417 |
|
|
{
|
418 |
|
|
logMetacat.error("Error while looking up the guid: "
|
419 |
|
|
+ e.getMessage());
|
420 |
|
|
}
|
421 |
|
|
finally
|
422 |
|
|
{
|
423 |
|
|
// Return database connection to the pool
|
424 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
425 |
|
|
}
|
426 |
|
|
return ids;
|
427 |
|
|
}
|
428 |
|
|
|
429 |
|
|
/**
|
430 |
5282
|
jones
|
* Lookup a GUID from the database, and return the associated LocalID. If
|
431 |
|
|
* the identifier is not found, throw an exception.
|
432 |
|
|
*
|
433 |
|
|
* @param guid the global identifier to look up
|
434 |
|
|
* @return String containing the corresponding LocalId
|
435 |
|
|
* @throws McdbDocNotFoundException if the identifier is not found
|
436 |
|
|
*/
|
437 |
|
|
public String getLocalId(String guid) throws McdbDocNotFoundException
|
438 |
|
|
{
|
439 |
5424
|
berkley
|
return this.getLocalId(guid, TYPE_IDENTIFIER);
|
440 |
5282
|
jones
|
}
|
441 |
|
|
|
442 |
|
|
/**
|
443 |
|
|
* Determine if an identifier exists already, returning true if so.
|
444 |
|
|
*
|
445 |
|
|
* @param guid the global identifier to look up
|
446 |
|
|
* @return boolean true if the identifier exists
|
447 |
|
|
*/
|
448 |
|
|
public boolean identifierExists(String guid)
|
449 |
|
|
{
|
450 |
|
|
boolean idExists = false;
|
451 |
|
|
try {
|
452 |
|
|
String id = getLocalId(guid);
|
453 |
|
|
if (id != null) {
|
454 |
|
|
idExists = true;
|
455 |
|
|
}
|
456 |
|
|
} catch (McdbDocNotFoundException e) {
|
457 |
|
|
idExists = false;
|
458 |
|
|
}
|
459 |
|
|
return idExists;
|
460 |
|
|
}
|
461 |
|
|
|
462 |
|
|
/**
|
463 |
|
|
* Create a mapping between two identifiers, one representing an
|
464 |
|
|
* unconstrained, globally unique string (guid), and one a localId
|
465 |
|
|
* in the Metacat docid format (scope.id.revision).
|
466 |
|
|
* This mapping allows one to find the global id (guid) from the localId.
|
467 |
|
|
*
|
468 |
|
|
* @param guid the global string identifier to be mapped
|
469 |
|
|
* @param localId the local identifier to be mapped
|
470 |
|
|
*/
|
471 |
|
|
public void createMapping(String guid, String localId)
|
472 |
|
|
{
|
473 |
5334
|
berkley
|
createGenericMapping(guid, localId, TYPE_IDENTIFIER);
|
474 |
5282
|
jones
|
}
|
475 |
5453
|
berkley
|
|
476 |
|
|
/**
|
477 |
|
|
*
|
478 |
|
|
* @param guid
|
479 |
|
|
* @param rev
|
480 |
|
|
* @return
|
481 |
|
|
*/
|
482 |
|
|
public String generateLocalId(String guid, int rev)
|
483 |
|
|
{
|
484 |
|
|
return generateLocalId(guid, rev, false);
|
485 |
|
|
}
|
486 |
5286
|
jones
|
|
487 |
|
|
/**
|
488 |
|
|
* Given a global identifier (guid), create a suitable local identifier that
|
489 |
|
|
* follows Metacat's docid semantics and format (scope.id.rev), and create
|
490 |
|
|
* a mapping between these two identifiers. This effectively reserves both
|
491 |
|
|
* the global and the local identifier, as they will now be present in the
|
492 |
|
|
* identifier mapping table. If the incoming guid has the syntax of a
|
493 |
|
|
* Metacat docid (scope.id.rev), then simply use it.
|
494 |
|
|
*
|
495 |
|
|
* @param guid the global string identifier
|
496 |
|
|
* @param rev the revision number to be used in the localId
|
497 |
|
|
* @return String containing the localId to be used for Metacat operations
|
498 |
|
|
*/
|
499 |
5453
|
berkley
|
public String generateLocalId(String guid, int rev, boolean isSystemMetadata)
|
500 |
5286
|
jones
|
{
|
501 |
|
|
String localId = "";
|
502 |
|
|
boolean conformsToDocidFormat = false;
|
503 |
|
|
|
504 |
|
|
// Check if the guid passed in is already in docid (scope.id.rev) format
|
505 |
|
|
try {
|
506 |
|
|
AccessionNumber acc = new AccessionNumber(guid, "NONE");
|
507 |
|
|
if (new Integer(acc.getRev()).intValue() > 0) {
|
508 |
|
|
conformsToDocidFormat = true;
|
509 |
|
|
}
|
510 |
|
|
} catch (NumberFormatException e) {
|
511 |
|
|
// No action needed, simply detecting invalid AccessionNumbers
|
512 |
|
|
} catch (AccessionNumberException e) {
|
513 |
|
|
// No action needed, simply detecting invalid AccessionNumbers
|
514 |
|
|
} catch (SQLException e) {
|
515 |
|
|
// No action needed, simply detecting invalid AccessionNumbers
|
516 |
|
|
}
|
517 |
|
|
|
518 |
|
|
if (conformsToDocidFormat) {
|
519 |
|
|
// if it conforms, use it for both guid and localId
|
520 |
|
|
localId = guid;
|
521 |
|
|
} else {
|
522 |
|
|
// if not, then generate a new unique localId
|
523 |
|
|
localId = DocumentUtil.generateDocumentId(rev);
|
524 |
|
|
}
|
525 |
|
|
|
526 |
|
|
// Register this new pair in the identifier mapping table
|
527 |
5453
|
berkley
|
System.out.println("creating mapping in generateLocalId");
|
528 |
|
|
if(!isSystemMetadata)
|
529 |
|
|
{ //don't do this if we're generating for system metadata
|
530 |
|
|
createMapping(guid, localId);
|
531 |
|
|
}
|
532 |
5286
|
jones
|
|
533 |
|
|
return localId;
|
534 |
|
|
}
|
535 |
5322
|
berkley
|
|
536 |
|
|
/**
|
537 |
|
|
* given a local identifer, look up the guid. Throw McdbDocNotFoundException
|
538 |
5452
|
berkley
|
* if the docid, rev is not found in the identifiers or systemmetadata tables
|
539 |
5322
|
berkley
|
*
|
540 |
|
|
* @param docid the docid to look up
|
541 |
|
|
* @param rev the revision of the docid to look up
|
542 |
|
|
* @return String containing the mapped guid
|
543 |
|
|
* @throws McdbDocNotFoundException if the docid, rev is not found
|
544 |
|
|
*/
|
545 |
|
|
public String getGUID(String docid, int rev)
|
546 |
|
|
throws McdbDocNotFoundException
|
547 |
|
|
{
|
548 |
5798
|
berkley
|
System.out.println("getting guid for " + docid);
|
549 |
5322
|
berkley
|
String query = "select guid from identifier where docid = ? and rev = ?";
|
550 |
|
|
String guid = null;
|
551 |
5451
|
berkley
|
boolean found = false;
|
552 |
5322
|
berkley
|
|
553 |
|
|
DBConnection dbConn = null;
|
554 |
|
|
int serialNumber = -1;
|
555 |
|
|
try {
|
556 |
|
|
// Get a database connection from the pool
|
557 |
5377
|
berkley
|
dbConn = DBConnectionPool.getDBConnection("IdentifierManager.getGUID");
|
558 |
5322
|
berkley
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
559 |
|
|
|
560 |
|
|
// Execute the insert statement
|
561 |
|
|
PreparedStatement stmt = dbConn.prepareStatement(query);
|
562 |
|
|
stmt.setString(1, docid);
|
563 |
|
|
stmt.setInt(2, rev);
|
564 |
|
|
ResultSet rs = stmt.executeQuery();
|
565 |
5451
|
berkley
|
if (rs.next())
|
566 |
|
|
{
|
567 |
5322
|
berkley
|
guid = rs.getString(1);
|
568 |
5451
|
berkley
|
}
|
569 |
|
|
else
|
570 |
|
|
{
|
571 |
|
|
query = "select guid from systemmetadata where docid = ? and rev = ?";
|
572 |
|
|
stmt = dbConn.prepareStatement(query);
|
573 |
|
|
stmt.setString(1, docid);
|
574 |
|
|
stmt.setInt(2, rev);
|
575 |
5452
|
berkley
|
rs = stmt.executeQuery();
|
576 |
5451
|
berkley
|
if(rs.next())
|
577 |
|
|
{
|
578 |
|
|
guid = rs.getString(1);
|
579 |
|
|
}
|
580 |
|
|
else
|
581 |
|
|
{
|
582 |
|
|
throw new McdbDocNotFoundException("No guid registered for docid " + docid + "." + rev);
|
583 |
|
|
}
|
584 |
5322
|
berkley
|
}
|
585 |
5451
|
berkley
|
|
586 |
5322
|
berkley
|
} catch (SQLException e) {
|
587 |
|
|
logMetacat.error("Error while looking up the guid: "
|
588 |
|
|
+ e.getMessage());
|
589 |
|
|
} finally {
|
590 |
|
|
// Return database connection to the pool
|
591 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
592 |
|
|
}
|
593 |
|
|
|
594 |
|
|
return guid;
|
595 |
|
|
}
|
596 |
5333
|
berkley
|
|
597 |
|
|
/**
|
598 |
5887
|
berkley
|
* creates a mapping for a system metadata document, but DOES NOT add any
|
599 |
|
|
* of the extra system metadata information to the table. You must call
|
600 |
|
|
* insertAdditionalSystemMetadataFields to complete the entry
|
601 |
5333
|
berkley
|
*
|
602 |
|
|
* @param guid the id to insert
|
603 |
|
|
* @param localId the systemMetadata object to get the local id for
|
604 |
|
|
*/
|
605 |
|
|
public void createSystemMetadataMapping(String guid, String localId)
|
606 |
|
|
{
|
607 |
5334
|
berkley
|
createGenericMapping(guid, localId, TYPE_SYSTEM_METADATA);
|
608 |
|
|
}
|
609 |
|
|
|
610 |
5377
|
berkley
|
/**
|
611 |
5887
|
berkley
|
* creates a system metadata mapping and adds additional fields from sysmeta
|
612 |
|
|
* to the table for quick searching.
|
613 |
|
|
*
|
614 |
|
|
* @param guid the id to insert
|
615 |
|
|
* @param localId the systemMetadata object to get the local id for
|
616 |
|
|
*/
|
617 |
|
|
public void createSystemMetadataMapping(SystemMetadata sysmeta, String localId)
|
618 |
|
|
{
|
619 |
|
|
createGenericMapping(sysmeta.getIdentifier().getValue(), localId, TYPE_SYSTEM_METADATA);
|
620 |
|
|
insertAdditionalSystemMetadataFields(sysmeta);
|
621 |
|
|
}
|
622 |
|
|
|
623 |
|
|
/**
|
624 |
5377
|
berkley
|
* update a mapping
|
625 |
|
|
* @param guid
|
626 |
|
|
* @param localId
|
627 |
|
|
*/
|
628 |
5350
|
berkley
|
public void updateSystemMetadataMapping(String guid, String localId)
|
629 |
|
|
{
|
630 |
|
|
int serialNumber = -1;
|
631 |
|
|
DBConnection dbConn = null;
|
632 |
|
|
try {
|
633 |
|
|
// Parse the localId into scope and rev parts
|
634 |
|
|
AccessionNumber acc = new AccessionNumber(localId, "NOACTION");
|
635 |
|
|
String docid = acc.getDocid();
|
636 |
|
|
int rev = 1;
|
637 |
|
|
if(acc.getRev() != null)
|
638 |
|
|
{
|
639 |
|
|
rev = (new Integer(acc.getRev()).intValue());
|
640 |
|
|
}
|
641 |
|
|
|
642 |
|
|
// Get a database connection from the pool
|
643 |
|
|
dbConn =
|
644 |
5377
|
berkley
|
DBConnectionPool.getDBConnection("IdentifierManager.createMapping");
|
645 |
5350
|
berkley
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
646 |
|
|
|
647 |
|
|
// Execute the insert statement
|
648 |
|
|
String query = "update systemmetadata set (docid, rev) = (?, ?) where guid='" + guid + "'";
|
649 |
5352
|
berkley
|
//System.out.println("query: " + query + " for params: (guid:" + guid + ", docid=" + docid + ", rev=" + rev + ")");
|
650 |
5350
|
berkley
|
PreparedStatement stmt = dbConn.prepareStatement(query);
|
651 |
|
|
stmt.setString(1, docid);
|
652 |
|
|
stmt.setInt(2, rev);
|
653 |
|
|
int rows = stmt.executeUpdate();
|
654 |
|
|
|
655 |
|
|
stmt.close();
|
656 |
|
|
} catch (SQLException e) {
|
657 |
|
|
e.printStackTrace();
|
658 |
|
|
logMetacat.error("SQL error while updating a mapping to the system metadata identifier: "
|
659 |
|
|
+ e.getMessage());
|
660 |
|
|
} catch (NumberFormatException e) {
|
661 |
|
|
e.printStackTrace();
|
662 |
|
|
logMetacat.error("NumberFormat error while updating a mapping to the system metadata identifier: "
|
663 |
|
|
+ e.getMessage());
|
664 |
|
|
} catch (AccessionNumberException e) {
|
665 |
|
|
e.printStackTrace();
|
666 |
|
|
logMetacat.error("AccessionNumber error while updating a mapping to the system metadata identifier: "
|
667 |
|
|
+ e.getMessage());
|
668 |
|
|
} finally {
|
669 |
|
|
// Return database connection to the pool
|
670 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
671 |
|
|
}
|
672 |
|
|
}
|
673 |
5334
|
berkley
|
|
674 |
|
|
/**
|
675 |
|
|
* return the localId of a system metadata document based on its guid
|
676 |
|
|
*/
|
677 |
5424
|
berkley
|
public String getSystemMetadataLocalId(String guid)
|
678 |
5334
|
berkley
|
throws McdbDocNotFoundException
|
679 |
|
|
{
|
680 |
5424
|
berkley
|
return this.getLocalId(guid, TYPE_SYSTEM_METADATA);
|
681 |
5334
|
berkley
|
}
|
682 |
|
|
|
683 |
5887
|
berkley
|
public void insertAdditionalSystemMetadataFields(long dateUploaded, String rightsHolder,
|
684 |
|
|
String checksum, String checksumAlgorithm, String originMemberNode,
|
685 |
5917
|
berkley
|
String authoritativeMemberNode, long modifiedDate, String submitter,
|
686 |
|
|
String guid, String objectFormat, long size)
|
687 |
5887
|
berkley
|
{
|
688 |
|
|
DBConnection dbConn = null;
|
689 |
|
|
int serialNumber = -1;
|
690 |
|
|
try {
|
691 |
|
|
// Get a database connection from the pool
|
692 |
|
|
dbConn =
|
693 |
|
|
DBConnectionPool.getDBConnection("IdentifierManager.createMapping");
|
694 |
|
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
695 |
|
|
|
696 |
|
|
// Execute the insert statement
|
697 |
|
|
String query = "update " + TYPE_SYSTEM_METADATA +
|
698 |
|
|
" set (date_uploaded, rights_holder, checksum, checksum_algorithm, " +
|
699 |
5917
|
berkley
|
"origin_member_node, authoritive_member_node, date_modified, " +
|
700 |
|
|
"submitter, object_format, size) " +
|
701 |
|
|
"= (?, ?, ?, ?, ?, ?, ?, ?, ?, ?) where guid = ?";
|
702 |
5887
|
berkley
|
PreparedStatement stmt = dbConn.prepareStatement(query);
|
703 |
|
|
|
704 |
|
|
//data values
|
705 |
|
|
stmt.setTimestamp(1, new java.sql.Timestamp(dateUploaded));
|
706 |
|
|
stmt.setString(2, rightsHolder);
|
707 |
|
|
stmt.setString(3, checksum);
|
708 |
|
|
stmt.setString(4, checksumAlgorithm);
|
709 |
|
|
stmt.setString(5, originMemberNode);
|
710 |
|
|
stmt.setString(6, authoritativeMemberNode);
|
711 |
|
|
stmt.setTimestamp(7, new java.sql.Timestamp(modifiedDate));
|
712 |
|
|
stmt.setString(8, submitter);
|
713 |
5917
|
berkley
|
stmt.setString(9, objectFormat);
|
714 |
|
|
stmt.setString(10, new Long(size).toString());
|
715 |
5887
|
berkley
|
//where clause
|
716 |
5917
|
berkley
|
stmt.setString(11, guid);
|
717 |
5887
|
berkley
|
System.out.println("stmt: " + stmt.toString());
|
718 |
|
|
//execute
|
719 |
|
|
int rows = stmt.executeUpdate();
|
720 |
|
|
|
721 |
|
|
stmt.close();
|
722 |
|
|
} catch (SQLException e) {
|
723 |
|
|
e.printStackTrace();
|
724 |
|
|
logMetacat.error("SQL error while creating a mapping to the system metadata identifier: "
|
725 |
|
|
+ e.getMessage());
|
726 |
|
|
} catch (NumberFormatException e) {
|
727 |
|
|
e.printStackTrace();
|
728 |
|
|
logMetacat.error("NumberFormat error while creating a mapping to the system metadata identifier: "
|
729 |
|
|
+ e.getMessage());
|
730 |
|
|
} finally {
|
731 |
|
|
// Return database connection to the pool
|
732 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
733 |
|
|
}
|
734 |
|
|
}
|
735 |
|
|
|
736 |
5334
|
berkley
|
/**
|
737 |
5887
|
berkley
|
* Insert the system metadata fields into the db
|
738 |
|
|
* @param sm
|
739 |
|
|
*/
|
740 |
|
|
public void insertAdditionalSystemMetadataFields(SystemMetadata sm)
|
741 |
|
|
{
|
742 |
|
|
insertAdditionalSystemMetadataFields(
|
743 |
|
|
sm.getDateUploaded().getTime(),
|
744 |
|
|
sm.getRightsHolder().getValue(),
|
745 |
|
|
sm.getChecksum().getValue(),
|
746 |
|
|
sm.getChecksum().getAlgorithm().name(),
|
747 |
|
|
sm.getOriginMemberNode().getValue(),
|
748 |
|
|
sm.getAuthoritativeMemberNode().getValue(),
|
749 |
|
|
sm.getDateSysMetadataModified().getTime(),
|
750 |
|
|
sm.getSubmitter().getValue(),
|
751 |
5917
|
berkley
|
sm.getIdentifier().getValue(),
|
752 |
|
|
sm.getObjectFormat().toString(),
|
753 |
|
|
sm.getSize());
|
754 |
5887
|
berkley
|
}
|
755 |
|
|
|
756 |
|
|
/**
|
757 |
5334
|
berkley
|
* return a localId based on a guid. The type can either be 'identifier'
|
758 |
|
|
* to get an id from the identifier table or 'systemmetadata' to get
|
759 |
|
|
* the identifier from the systemidentifier table
|
760 |
|
|
*/
|
761 |
5424
|
berkley
|
private String getLocalId(String guid, String type)
|
762 |
5334
|
berkley
|
throws McdbDocNotFoundException
|
763 |
|
|
{
|
764 |
|
|
if(!type.equals(TYPE_IDENTIFIER) &&
|
765 |
|
|
!type.equals(TYPE_SYSTEM_METADATA))
|
766 |
|
|
{
|
767 |
|
|
throw new RuntimeException("cannot lookup the identifier for type " + type +
|
768 |
|
|
". Please choose 'identifier' or 'systemmetadata'.");
|
769 |
|
|
}
|
770 |
|
|
|
771 |
|
|
String db_guid = "";
|
772 |
|
|
String docid = "";
|
773 |
|
|
int rev = 0;
|
774 |
|
|
|
775 |
|
|
String query = "select guid, docid, rev from " + type + " where guid = ?";
|
776 |
5352
|
berkley
|
//System.out.println("query: " + query + " for params: (" + guid + ")");
|
777 |
5334
|
berkley
|
|
778 |
|
|
DBConnection dbConn = null;
|
779 |
5333
|
berkley
|
int serialNumber = -1;
|
780 |
5334
|
berkley
|
try {
|
781 |
|
|
// Get a database connection from the pool
|
782 |
|
|
dbConn = DBConnectionPool.getDBConnection("Identifier.getLocalId");
|
783 |
|
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
784 |
|
|
|
785 |
|
|
// Execute the insert statement
|
786 |
|
|
PreparedStatement stmt = dbConn.prepareStatement(query);
|
787 |
|
|
stmt.setString(1, guid);
|
788 |
|
|
ResultSet rs = stmt.executeQuery();
|
789 |
|
|
if (rs.next()) {
|
790 |
|
|
db_guid = rs.getString(1);
|
791 |
|
|
docid = rs.getString(2);
|
792 |
|
|
rev = rs.getInt(3);
|
793 |
|
|
assert(db_guid.equals(guid));
|
794 |
|
|
} else {
|
795 |
|
|
throw new McdbDocNotFoundException("Document not found:" + guid);
|
796 |
|
|
}
|
797 |
|
|
stmt.close();
|
798 |
|
|
} catch (SQLException e) {
|
799 |
|
|
logMetacat.error("Error while looking up the local identifier: "
|
800 |
|
|
+ e.getMessage());
|
801 |
|
|
} finally {
|
802 |
|
|
// Return database connection to the pool
|
803 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
804 |
|
|
}
|
805 |
|
|
return docid + "." + rev;
|
806 |
|
|
}
|
807 |
|
|
|
808 |
5377
|
berkley
|
/**
|
809 |
5895
|
berkley
|
* query the systemmetadata table based on the given parameters
|
810 |
|
|
* @param startTime
|
811 |
|
|
* @param endTime
|
812 |
|
|
* @param objectFormat
|
813 |
|
|
* @param replicaStatus
|
814 |
|
|
* @param start
|
815 |
|
|
* @param count
|
816 |
|
|
* @return ObjectList
|
817 |
|
|
*/
|
818 |
|
|
public ObjectList querySystemMetadata(Date startTime, Date endTime,
|
819 |
|
|
ObjectFormat objectFormat, boolean replicaStatus, int start, int count)
|
820 |
|
|
{
|
821 |
|
|
ObjectList ol = new ObjectList();
|
822 |
|
|
int total = 0;
|
823 |
5943
|
berkley
|
DBConnection dbConn = null;
|
824 |
|
|
int serialNumber = -1;
|
825 |
5895
|
berkley
|
|
826 |
|
|
try
|
827 |
|
|
{
|
828 |
|
|
String sql = "select guid, date_uploaded, rights_holder, checksum, " +
|
829 |
|
|
"checksum_algorithm, origin_member_node, authoritive_member_node, " +
|
830 |
5917
|
berkley
|
"date_modified, submitter, object_format, size from systemmetadata";
|
831 |
5895
|
berkley
|
|
832 |
|
|
boolean f1 = false;
|
833 |
|
|
boolean f2 = false;
|
834 |
|
|
boolean f3 = false;
|
835 |
|
|
|
836 |
|
|
if(startTime != null)
|
837 |
|
|
{
|
838 |
5917
|
berkley
|
sql += " where systemmetadata.date_modified > ?";
|
839 |
5895
|
berkley
|
f1 = true;
|
840 |
|
|
}
|
841 |
|
|
|
842 |
|
|
if(endTime != null)
|
843 |
|
|
{
|
844 |
5917
|
berkley
|
if(!f1)
|
845 |
|
|
{
|
846 |
|
|
sql += " where systemmetadata.date_modified < ?";
|
847 |
|
|
}
|
848 |
|
|
else
|
849 |
|
|
{
|
850 |
|
|
sql += " and systemmetadata.date_modified < ?";
|
851 |
|
|
}
|
852 |
5895
|
berkley
|
f2 = true;
|
853 |
|
|
}
|
854 |
|
|
|
855 |
|
|
if(objectFormat != null)
|
856 |
|
|
{
|
857 |
5917
|
berkley
|
if(!f1 && !f2)
|
858 |
|
|
{
|
859 |
|
|
sql += " where object_format = ?";
|
860 |
|
|
}
|
861 |
|
|
else
|
862 |
|
|
{
|
863 |
|
|
sql += " and object_format = ?";
|
864 |
|
|
}
|
865 |
5895
|
berkley
|
f3 = true;
|
866 |
|
|
}
|
867 |
|
|
|
868 |
|
|
if(replicaStatus)
|
869 |
|
|
{
|
870 |
|
|
String currentNodeId = PropertyService.getInstance().getProperty("dataone.memberNodeId");
|
871 |
5917
|
berkley
|
if(!f1 && !f2 && !f3)
|
872 |
|
|
{
|
873 |
|
|
sql += " where authoritive_member_node != '" + currentNodeId.trim() + "'";
|
874 |
|
|
}
|
875 |
|
|
else
|
876 |
|
|
{
|
877 |
|
|
sql += " and authoritive_member_node != '" + currentNodeId.trim() + "'";
|
878 |
|
|
}
|
879 |
5895
|
berkley
|
}
|
880 |
|
|
|
881 |
5943
|
berkley
|
dbConn = DBConnectionPool.getDBConnection("IdentifierManager.querySystemMetadata");
|
882 |
|
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
883 |
5895
|
berkley
|
PreparedStatement stmt = dbConn.prepareStatement(sql);
|
884 |
|
|
|
885 |
|
|
if(f1 && f2 && f3)
|
886 |
|
|
{
|
887 |
|
|
stmt.setTimestamp(1, new Timestamp(startTime.getTime()));
|
888 |
|
|
stmt.setTimestamp(2, new Timestamp(endTime.getTime()));
|
889 |
|
|
stmt.setString(3, objectFormat.toString());
|
890 |
|
|
}
|
891 |
|
|
else if(f1 && f2 && !f3)
|
892 |
|
|
{
|
893 |
|
|
stmt.setTimestamp(1, new Timestamp(startTime.getTime()));
|
894 |
|
|
stmt.setTimestamp(2, new Timestamp(endTime.getTime()));
|
895 |
|
|
}
|
896 |
|
|
else if(f1 && !f2 && f3)
|
897 |
|
|
{
|
898 |
|
|
stmt.setTimestamp(1, new Timestamp(startTime.getTime()));
|
899 |
|
|
stmt.setString(2, objectFormat.toString());
|
900 |
|
|
}
|
901 |
|
|
else if(f1 && !f2 && !f3)
|
902 |
|
|
{
|
903 |
|
|
stmt.setTimestamp(1, new Timestamp(startTime.getTime()));
|
904 |
|
|
}
|
905 |
|
|
else if(!f1 && f2 && f3)
|
906 |
|
|
{
|
907 |
|
|
stmt.setTimestamp(1, new Timestamp(endTime.getTime()));
|
908 |
|
|
stmt.setString(2, objectFormat.toString());
|
909 |
|
|
}
|
910 |
|
|
else if(!f1 && !f2 && f3)
|
911 |
|
|
{
|
912 |
|
|
stmt.setString(1, objectFormat.toString());
|
913 |
|
|
}
|
914 |
|
|
else if(!f1 && f2 && !f3)
|
915 |
|
|
{
|
916 |
|
|
stmt.setTimestamp(1, new Timestamp(endTime.getTime()));
|
917 |
|
|
}
|
918 |
|
|
|
919 |
|
|
//System.out.println("LISTOBJECTS QUERY: " + stmt.toString());
|
920 |
|
|
|
921 |
|
|
ResultSet rs = stmt.executeQuery();
|
922 |
5917
|
berkley
|
for(int i=0; i<start; i++)
|
923 |
5895
|
berkley
|
{
|
924 |
5917
|
berkley
|
if(rs.next())
|
925 |
|
|
{
|
926 |
|
|
total++;
|
927 |
|
|
}
|
928 |
|
|
else
|
929 |
|
|
{
|
930 |
|
|
break;
|
931 |
|
|
}
|
932 |
5895
|
berkley
|
}
|
933 |
5917
|
berkley
|
|
934 |
5895
|
berkley
|
int countIndex = 0;
|
935 |
|
|
|
936 |
|
|
while(rs.next())
|
937 |
|
|
{
|
938 |
|
|
total++;
|
939 |
|
|
if(countIndex >= count)
|
940 |
|
|
{
|
941 |
|
|
break;
|
942 |
|
|
}
|
943 |
|
|
String guid = rs.getString(1);
|
944 |
|
|
//System.out.println("query found doc with guid " + guid);
|
945 |
|
|
//Timestamp dateUploaded = rs.getTimestamp(2);
|
946 |
|
|
//String rightsHolder = rs.getString(3);
|
947 |
|
|
String checksum = rs.getString(4);
|
948 |
|
|
String checksumAlgorithm = rs.getString(5);
|
949 |
|
|
//String originMemberNode = rs.getString(6);
|
950 |
|
|
String authoritiveMemberNode = rs.getString(7);
|
951 |
|
|
Timestamp dateModified = rs.getTimestamp(8);
|
952 |
|
|
//String submitter = rs.getString(9);
|
953 |
|
|
String format = rs.getString(10);
|
954 |
5917
|
berkley
|
String sz = rs.getString(11);
|
955 |
|
|
long size = 0;
|
956 |
|
|
if(sz != null && !sz.trim().equals(""))
|
957 |
|
|
{
|
958 |
|
|
size = new Long(rs.getString(11)).longValue();
|
959 |
|
|
}
|
960 |
5895
|
berkley
|
|
961 |
|
|
ObjectInfo oi = new ObjectInfo();
|
962 |
|
|
|
963 |
|
|
Identifier id = new Identifier();
|
964 |
|
|
id.setValue(guid);
|
965 |
|
|
oi.setIdentifier(id);
|
966 |
|
|
|
967 |
|
|
oi.setDateSysMetadataModified(new Date(dateModified.getTime()));
|
968 |
|
|
|
969 |
|
|
Checksum cs = new Checksum();
|
970 |
|
|
cs.setValue(checksum);
|
971 |
5906
|
berkley
|
cs.setAlgorithm(ChecksumAlgorithm.valueOf(checksumAlgorithm));
|
972 |
5895
|
berkley
|
oi.setChecksum(cs);
|
973 |
|
|
|
974 |
|
|
ObjectFormat oFormat = ObjectFormat.convert(format);
|
975 |
|
|
if(oFormat != null)
|
976 |
|
|
{
|
977 |
|
|
oi.setObjectFormat(oFormat);
|
978 |
|
|
}
|
979 |
5906
|
berkley
|
else
|
980 |
|
|
{ //if there is no object format, just default to text/plain
|
981 |
5917
|
berkley
|
oi.setObjectFormat(ObjectFormat.OCTET_STREAM);
|
982 |
5906
|
berkley
|
}
|
983 |
5917
|
berkley
|
|
984 |
|
|
oi.setSize(size);
|
985 |
5895
|
berkley
|
|
986 |
|
|
ol.addObjectInfo(oi);
|
987 |
|
|
countIndex++;
|
988 |
|
|
}
|
989 |
|
|
|
990 |
|
|
while(rs.next())
|
991 |
|
|
{ //expend the resultset to get the total count of possible rows
|
992 |
|
|
total++;
|
993 |
|
|
}
|
994 |
|
|
}
|
995 |
|
|
catch(Exception e)
|
996 |
|
|
{
|
997 |
|
|
e.printStackTrace();
|
998 |
|
|
System.out.println("Error querying system metadata: " + e.getMessage());
|
999 |
|
|
}
|
1000 |
5943
|
berkley
|
finally
|
1001 |
|
|
{
|
1002 |
|
|
// Return database connection to the pool
|
1003 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
1004 |
|
|
}
|
1005 |
5895
|
berkley
|
|
1006 |
|
|
ol.setStart(start);
|
1007 |
5922
|
berkley
|
ol.setCount(ol.sizeObjectInfoList());
|
1008 |
5895
|
berkley
|
ol.setTotal(total);
|
1009 |
|
|
|
1010 |
|
|
return ol;
|
1011 |
|
|
}
|
1012 |
|
|
|
1013 |
|
|
/**
|
1014 |
5377
|
berkley
|
* create a mapping in the systemmetadata or identifier table
|
1015 |
|
|
* @param guid
|
1016 |
|
|
* @param localId
|
1017 |
|
|
* @param type
|
1018 |
|
|
*/
|
1019 |
5334
|
berkley
|
private void createGenericMapping(String guid, String localId, String type)
|
1020 |
5453
|
berkley
|
{
|
1021 |
5334
|
berkley
|
if(!type.equals(TYPE_IDENTIFIER) &&
|
1022 |
|
|
!type.equals(TYPE_SYSTEM_METADATA))
|
1023 |
|
|
{
|
1024 |
|
|
throw new RuntimeException("Cannot create mapping for type " + type +
|
1025 |
|
|
". Please choose 'identifier' or 'systemmetadata'.");
|
1026 |
|
|
}
|
1027 |
|
|
|
1028 |
|
|
int serialNumber = -1;
|
1029 |
5333
|
berkley
|
DBConnection dbConn = null;
|
1030 |
|
|
try {
|
1031 |
|
|
|
1032 |
|
|
// Parse the localId into scope and rev parts
|
1033 |
|
|
AccessionNumber acc = new AccessionNumber(localId, "NOACTION");
|
1034 |
|
|
String docid = acc.getDocid();
|
1035 |
5344
|
berkley
|
int rev = 1;
|
1036 |
|
|
if(acc.getRev() != null)
|
1037 |
|
|
{
|
1038 |
|
|
rev = (new Integer(acc.getRev()).intValue());
|
1039 |
|
|
}
|
1040 |
5333
|
berkley
|
|
1041 |
|
|
// Get a database connection from the pool
|
1042 |
|
|
dbConn =
|
1043 |
5377
|
berkley
|
DBConnectionPool.getDBConnection("IdentifierManager.createMapping");
|
1044 |
5333
|
berkley
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
1045 |
|
|
|
1046 |
|
|
// Execute the insert statement
|
1047 |
5344
|
berkley
|
String query = "insert into " + type + " (guid, docid, rev) values (?, ?, ?)";
|
1048 |
5352
|
berkley
|
//System.out.println("query: " + query + " for params: (" + guid + ", " + docid + ", " + rev + ")");
|
1049 |
5333
|
berkley
|
PreparedStatement stmt = dbConn.prepareStatement(query);
|
1050 |
|
|
stmt.setString(1, guid);
|
1051 |
|
|
stmt.setString(2, docid);
|
1052 |
|
|
stmt.setInt(3, rev);
|
1053 |
5887
|
berkley
|
System.out.println("generic mapping query: " + stmt.toString());
|
1054 |
5333
|
berkley
|
int rows = stmt.executeUpdate();
|
1055 |
|
|
|
1056 |
|
|
stmt.close();
|
1057 |
|
|
} catch (SQLException e) {
|
1058 |
5344
|
berkley
|
e.printStackTrace();
|
1059 |
5887
|
berkley
|
logMetacat.warn("SQL error while creating a mapping to the system metadata identifier: "
|
1060 |
5333
|
berkley
|
+ e.getMessage());
|
1061 |
|
|
} catch (NumberFormatException e) {
|
1062 |
5344
|
berkley
|
e.printStackTrace();
|
1063 |
5333
|
berkley
|
logMetacat.error("NumberFormat error while creating a mapping to the system metadata identifier: "
|
1064 |
|
|
+ e.getMessage());
|
1065 |
|
|
} catch (AccessionNumberException e) {
|
1066 |
5344
|
berkley
|
e.printStackTrace();
|
1067 |
5333
|
berkley
|
logMetacat.error("AccessionNumber error while creating a mapping to the system metadata identifier: "
|
1068 |
|
|
+ e.getMessage());
|
1069 |
|
|
} finally {
|
1070 |
|
|
// Return database connection to the pool
|
1071 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
1072 |
|
|
}
|
1073 |
|
|
}
|
1074 |
5282
|
jones
|
}
|